-- dump date 20140620_013959 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1196835000001 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1196835000002 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 1196835000003 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1196835000004 Walker A motif; other site 1196835000005 ATP binding site [chemical binding]; other site 1196835000006 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 1196835000007 Walker B motif; other site 1196835000008 arginine finger; other site 1196835000009 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 1196835000010 DnaA box-binding interface [nucleotide binding]; other site 1196835000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 1196835000012 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 1196835000013 putative DNA binding surface [nucleotide binding]; other site 1196835000014 dimer interface [polypeptide binding]; other site 1196835000015 beta-clamp/clamp loader binding surface; other site 1196835000016 beta-clamp/translesion DNA polymerase binding surface; other site 1196835000017 recombination protein F; Reviewed; Region: recF; PRK00064 1196835000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835000019 Walker A/P-loop; other site 1196835000020 ATP binding site [chemical binding]; other site 1196835000021 Q-loop/lid; other site 1196835000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835000023 ABC transporter signature motif; other site 1196835000024 Walker B; other site 1196835000025 D-loop; other site 1196835000026 H-loop/switch region; other site 1196835000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1196835000028 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 1196835000029 ATP binding site [chemical binding]; other site 1196835000030 Mg2+ binding site [ion binding]; other site 1196835000031 G-X-G motif; other site 1196835000032 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 1196835000033 anchoring element; other site 1196835000034 dimer interface [polypeptide binding]; other site 1196835000035 ATP binding site [chemical binding]; other site 1196835000036 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 1196835000037 active site 1196835000038 putative metal-binding site [ion binding]; other site 1196835000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1196835000040 putative transposase OrfB; Reviewed; Region: PHA02517 1196835000041 HTH-like domain; Region: HTH_21; pfam13276 1196835000042 Integrase core domain; Region: rve; pfam00665 1196835000043 Integrase core domain; Region: rve_2; pfam13333 1196835000044 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1196835000045 Transposase; Region: HTH_Tnp_1; pfam01527 1196835000046 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 1196835000047 putative metal binding site [ion binding]; other site 1196835000048 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1196835000049 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 1196835000050 bifunctional antitoxin/transcriptional repressor RelB; Provisional; Region: PRK11235 1196835000051 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1196835000052 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 1196835000053 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1196835000054 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 1196835000055 ATP binding site [chemical binding]; other site 1196835000056 putative Mg++ binding site [ion binding]; other site 1196835000057 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 1196835000058 nucleotide binding region [chemical binding]; other site 1196835000059 ATP-binding site [chemical binding]; other site 1196835000060 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1196835000061 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 1196835000062 catalytic residue [active] 1196835000063 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 1196835000064 catalytic residues [active] 1196835000065 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1196835000066 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196835000067 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1196835000068 heme-binding site [chemical binding]; other site 1196835000069 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835000070 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835000071 metal binding site [ion binding]; metal-binding site 1196835000072 active site 1196835000073 I-site; other site 1196835000074 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1196835000075 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1196835000076 putative acyl-acceptor binding pocket; other site 1196835000077 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1196835000078 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 1196835000079 active site 1196835000080 motif I; other site 1196835000081 motif II; other site 1196835000082 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1196835000083 HD domain; Region: HD; pfam01966 1196835000084 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1196835000085 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 1196835000086 dimer interface [polypeptide binding]; other site 1196835000087 motif 1; other site 1196835000088 active site 1196835000089 motif 2; other site 1196835000090 motif 3; other site 1196835000091 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1196835000092 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1196835000093 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1196835000094 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1196835000095 putative acyl-acceptor binding pocket; other site 1196835000096 PilZ domain; Region: PilZ; pfam07238 1196835000097 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 1196835000098 TPR motif; other site 1196835000099 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1196835000100 binding surface 1196835000101 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 1196835000102 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1196835000103 Walker A/P-loop; other site 1196835000104 ATP binding site [chemical binding]; other site 1196835000105 Q-loop/lid; other site 1196835000106 ABC transporter signature motif; other site 1196835000107 Walker B; other site 1196835000108 D-loop; other site 1196835000109 H-loop/switch region; other site 1196835000110 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1196835000111 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835000112 dimer interface [polypeptide binding]; other site 1196835000113 conserved gate region; other site 1196835000114 putative PBP binding loops; other site 1196835000115 ABC-ATPase subunit interface; other site 1196835000116 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835000117 dimer interface [polypeptide binding]; other site 1196835000118 conserved gate region; other site 1196835000119 putative PBP binding loops; other site 1196835000120 ABC-ATPase subunit interface; other site 1196835000121 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 1196835000122 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 1196835000123 substrate binding pocket [chemical binding]; other site 1196835000124 membrane-bound complex binding site; other site 1196835000125 hinge residues; other site 1196835000126 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1196835000127 TrkA-N domain; Region: TrkA_N; pfam02254 1196835000128 TrkA-C domain; Region: TrkA_C; pfam02080 1196835000129 TrkA-N domain; Region: TrkA_N; pfam02254 1196835000130 TrkA-C domain; Region: TrkA_C; pfam02080 1196835000131 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1196835000132 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 1196835000133 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 1196835000134 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1196835000135 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1196835000136 putative active site [active] 1196835000137 substrate binding site [chemical binding]; other site 1196835000138 putative cosubstrate binding site; other site 1196835000139 catalytic site [active] 1196835000140 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1196835000141 substrate binding site [chemical binding]; other site 1196835000142 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 1196835000143 active site 1196835000144 catalytic residues [active] 1196835000145 metal binding site [ion binding]; metal-binding site 1196835000146 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1196835000147 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1196835000148 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1196835000149 DNA protecting protein DprA; Region: dprA; TIGR00732 1196835000150 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1196835000151 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1196835000152 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1196835000153 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1196835000154 NADP binding site [chemical binding]; other site 1196835000155 dimer interface [polypeptide binding]; other site 1196835000156 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1196835000157 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1196835000158 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1196835000159 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1196835000160 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1196835000161 shikimate binding site; other site 1196835000162 NAD(P) binding site [chemical binding]; other site 1196835000163 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196835000164 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1196835000165 NAD(P) binding site [chemical binding]; other site 1196835000166 active site 1196835000167 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 1196835000168 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1196835000169 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1196835000170 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 1196835000171 N-terminal plug; other site 1196835000172 ligand-binding site [chemical binding]; other site 1196835000173 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1196835000174 trehalose synthase, Pseudomonas stutzeri type; Region: TreS_stutzeri; TIGR02455 1196835000175 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1196835000176 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 1196835000177 phosphoglucomutase; Validated; Region: PRK07564 1196835000178 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 1196835000179 active site 1196835000180 substrate binding site [chemical binding]; other site 1196835000181 metal binding site [ion binding]; metal-binding site 1196835000182 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 1196835000183 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1196835000184 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1196835000185 PAS domain; Region: PAS_9; pfam13426 1196835000186 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 1196835000187 dimer interface [polypeptide binding]; other site 1196835000188 phosphorylation site [posttranslational modification] 1196835000189 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 1196835000190 ATP binding site [chemical binding]; other site 1196835000191 Mg2+ binding site [ion binding]; other site 1196835000192 G-X-G motif; other site 1196835000193 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196835000194 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835000195 active site 1196835000196 phosphorylation site [posttranslational modification] 1196835000197 intermolecular recognition site; other site 1196835000198 dimerization interface [polypeptide binding]; other site 1196835000199 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835000200 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835000201 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 1196835000202 dimerization interface [polypeptide binding]; other site 1196835000203 Predicted membrane protein [Function unknown]; Region: COG2323 1196835000204 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1196835000205 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196835000206 Coenzyme A binding pocket [chemical binding]; other site 1196835000207 Serine hydrolase; Region: Ser_hydrolase; pfam06821 1196835000208 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1196835000209 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1196835000210 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835000211 Walker A/P-loop; other site 1196835000212 ATP binding site [chemical binding]; other site 1196835000213 Q-loop/lid; other site 1196835000214 ABC transporter signature motif; other site 1196835000215 Walker B; other site 1196835000216 D-loop; other site 1196835000217 H-loop/switch region; other site 1196835000218 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1196835000219 conserved cys residue [active] 1196835000220 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1196835000221 Predicted membrane protein [Function unknown]; Region: COG3918 1196835000222 putative S-transferase; Provisional; Region: PRK11752 1196835000223 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 1196835000224 C-terminal domain interface [polypeptide binding]; other site 1196835000225 GSH binding site (G-site) [chemical binding]; other site 1196835000226 dimer interface [polypeptide binding]; other site 1196835000227 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 1196835000228 dimer interface [polypeptide binding]; other site 1196835000229 N-terminal domain interface [polypeptide binding]; other site 1196835000230 active site 1196835000231 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 1196835000232 non-specific DNA binding site [nucleotide binding]; other site 1196835000233 salt bridge; other site 1196835000234 sequence-specific DNA binding site [nucleotide binding]; other site 1196835000235 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1196835000236 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1196835000237 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1196835000238 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1196835000239 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1196835000240 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1196835000241 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 1196835000242 substrate binding site [chemical binding]; other site 1196835000243 active site 1196835000244 catalytic residues [active] 1196835000245 heterodimer interface [polypeptide binding]; other site 1196835000246 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1196835000247 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 1196835000248 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835000249 catalytic residue [active] 1196835000250 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835000251 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 1196835000252 dimerization interface [polypeptide binding]; other site 1196835000253 Protein of unknown function (DUF3060); Region: DUF3060; pfam11259 1196835000254 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1196835000255 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1196835000256 NAD binding site [chemical binding]; other site 1196835000257 homodimer interface [polypeptide binding]; other site 1196835000258 active site 1196835000259 substrate binding site [chemical binding]; other site 1196835000260 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: GT1_like_1; cd04950 1196835000261 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196835000262 putative homodimer interface [polypeptide binding]; other site 1196835000263 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 1196835000264 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1196835000265 UDP-galactopyranose mutase; Region: GLF; pfam03275 1196835000266 beta-galactosidase; Region: BGL; TIGR03356 1196835000267 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1196835000268 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1196835000269 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835000270 Walker A/P-loop; other site 1196835000271 ATP binding site [chemical binding]; other site 1196835000272 Q-loop/lid; other site 1196835000273 ABC transporter signature motif; other site 1196835000274 Walker B; other site 1196835000275 D-loop; other site 1196835000276 H-loop/switch region; other site 1196835000277 KTSC domain; Region: KTSC; pfam13619 1196835000278 Dodecin; Region: Dodecin; pfam07311 1196835000279 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1196835000280 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1196835000281 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1196835000282 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1196835000283 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 1196835000284 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1196835000285 dinuclear metal binding motif [ion binding]; other site 1196835000286 Domain of unknown function (DUF1850); Region: DUF1850; cl01950 1196835000287 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 1196835000288 DctM-like transporters; Region: DctM; pfam06808 1196835000289 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1196835000290 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1196835000291 putative hydrolase; Provisional; Region: PRK02113 1196835000292 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 1196835000293 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 1196835000294 active site 1196835000295 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 1196835000296 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 1196835000297 active site 1196835000298 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 1196835000299 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835000300 Walker A/P-loop; other site 1196835000301 ATP binding site [chemical binding]; other site 1196835000302 Q-loop/lid; other site 1196835000303 ABC transporter signature motif; other site 1196835000304 Walker B; other site 1196835000305 D-loop; other site 1196835000306 H-loop/switch region; other site 1196835000307 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 1196835000308 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835000309 Walker A/P-loop; other site 1196835000310 ATP binding site [chemical binding]; other site 1196835000311 Q-loop/lid; other site 1196835000312 ABC transporter signature motif; other site 1196835000313 Walker B; other site 1196835000314 D-loop; other site 1196835000315 H-loop/switch region; other site 1196835000316 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1196835000317 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 1196835000318 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 1196835000319 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 1196835000320 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 1196835000321 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1196835000322 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196835000323 DNA-binding site [nucleotide binding]; DNA binding site 1196835000324 UTRA domain; Region: UTRA; pfam07702 1196835000325 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1196835000326 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835000327 dimer interface [polypeptide binding]; other site 1196835000328 conserved gate region; other site 1196835000329 ABC-ATPase subunit interface; other site 1196835000330 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1196835000331 WXG100 protein secretion system (Wss), protein YukC; Region: YukC; cl01868 1196835000332 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1196835000333 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1196835000334 Walker A/P-loop; other site 1196835000335 ATP binding site [chemical binding]; other site 1196835000336 Q-loop/lid; other site 1196835000337 ABC transporter signature motif; other site 1196835000338 Walker B; other site 1196835000339 D-loop; other site 1196835000340 H-loop/switch region; other site 1196835000341 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1196835000342 malonic semialdehyde reductase; Provisional; Region: PRK10538 1196835000343 putative NAD(P) binding site [chemical binding]; other site 1196835000344 homotetramer interface [polypeptide binding]; other site 1196835000345 homodimer interface [polypeptide binding]; other site 1196835000346 active site 1196835000347 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 1196835000348 Coenzyme A transferase; Region: CoA_trans; cl17247 1196835000349 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 1196835000350 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 1196835000351 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 1196835000352 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; pfam06833 1196835000353 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 1196835000354 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1196835000355 active site 1196835000356 NTP binding site [chemical binding]; other site 1196835000357 metal binding triad [ion binding]; metal-binding site 1196835000358 antibiotic binding site [chemical binding]; other site 1196835000359 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 1196835000360 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1196835000361 Malonate transporter MadL subunit; Region: MadL; cl04273 1196835000362 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 1196835000363 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 1196835000364 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1196835000365 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835000366 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835000367 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 1196835000368 putative dimerization interface [polypeptide binding]; other site 1196835000369 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 1196835000370 RNA polymerase sigma factor; Provisional; Region: PRK12536 1196835000371 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 1196835000372 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 1196835000373 hypothetical protein; Provisional; Region: PRK05409 1196835000374 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 1196835000375 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the...; Region: Lipase_3; cd00519 1196835000376 active site flap/lid [active] 1196835000377 nucleophilic elbow; other site 1196835000378 catalytic triad [active] 1196835000379 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1196835000380 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1196835000381 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1196835000382 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1196835000383 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 1196835000384 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 1196835000385 Walker A motif; other site 1196835000386 ATP binding site [chemical binding]; other site 1196835000387 Walker B motif; other site 1196835000388 arginine finger; other site 1196835000389 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196835000390 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1196835000391 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 1196835000392 Walker A motif; other site 1196835000393 ATP binding site [chemical binding]; other site 1196835000394 Walker B motif; other site 1196835000395 arginine finger; other site 1196835000396 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 1196835000397 Walker A motif; other site 1196835000398 ATP binding site [chemical binding]; other site 1196835000399 Walker B motif; other site 1196835000400 arginine finger; other site 1196835000401 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1196835000402 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 1196835000403 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1196835000404 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1196835000405 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 1196835000406 PAAR motif; Region: PAAR_motif; pfam05488 1196835000407 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 1196835000408 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 1196835000409 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 1196835000410 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1196835000411 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1196835000412 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 1196835000413 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1196835000414 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 1196835000415 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1196835000416 active site 1196835000417 phosphate binding residues; other site 1196835000418 catalytic residues [active] 1196835000419 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1196835000420 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835000421 dimer interface [polypeptide binding]; other site 1196835000422 conserved gate region; other site 1196835000423 putative PBP binding loops; other site 1196835000424 ABC-ATPase subunit interface; other site 1196835000425 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1196835000426 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835000427 dimer interface [polypeptide binding]; other site 1196835000428 conserved gate region; other site 1196835000429 putative PBP binding loops; other site 1196835000430 ABC-ATPase subunit interface; other site 1196835000431 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196835000432 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 1196835000433 substrate binding pocket [chemical binding]; other site 1196835000434 membrane-bound complex binding site; other site 1196835000435 hinge residues; other site 1196835000436 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1196835000437 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1196835000438 Walker A/P-loop; other site 1196835000439 ATP binding site [chemical binding]; other site 1196835000440 Q-loop/lid; other site 1196835000441 ABC transporter signature motif; other site 1196835000442 Walker B; other site 1196835000443 D-loop; other site 1196835000444 H-loop/switch region; other site 1196835000445 BCCT family transporter; Region: BCCT; pfam02028 1196835000446 potential frameshift: common BLAST hit: gi|339496145|ref|YP_004716438.1| amino acid ABC transporter periplasmic protein 1196835000447 Staphylococcal nuclease homologues; Region: SNc; smart00318 1196835000448 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 1196835000449 Catalytic site; other site 1196835000450 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 1196835000451 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196835000452 substrate binding pocket [chemical binding]; other site 1196835000453 membrane-bound complex binding site; other site 1196835000454 hinge residues; other site 1196835000455 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1196835000456 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 1196835000457 ATP binding site [chemical binding]; other site 1196835000458 putative Mg++ binding site [ion binding]; other site 1196835000459 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; cl17351 1196835000460 nucleotide binding region [chemical binding]; other site 1196835000461 ATP-binding site [chemical binding]; other site 1196835000462 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 1196835000463 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1196835000464 Fic/DOC family; Region: Fic; cl00960 1196835000465 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1196835000466 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1196835000467 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1196835000468 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1196835000469 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1196835000470 oxidative damage protection protein; Provisional; Region: PRK05408 1196835000471 adenine DNA glycosylase; Provisional; Region: PRK10880 1196835000472 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1196835000473 minor groove reading motif; other site 1196835000474 helix-hairpin-helix signature motif; other site 1196835000475 substrate binding pocket [chemical binding]; other site 1196835000476 active site 1196835000477 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1196835000478 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 1196835000479 DNA binding and oxoG recognition site [nucleotide binding] 1196835000480 AsmA family; Region: AsmA; pfam05170 1196835000481 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1196835000482 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 1196835000483 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1196835000484 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1196835000485 Walker A/P-loop; other site 1196835000486 ATP binding site [chemical binding]; other site 1196835000487 Q-loop/lid; other site 1196835000488 ABC transporter signature motif; other site 1196835000489 Walker B; other site 1196835000490 D-loop; other site 1196835000491 H-loop/switch region; other site 1196835000492 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1196835000493 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835000494 dimer interface [polypeptide binding]; other site 1196835000495 conserved gate region; other site 1196835000496 putative PBP binding loops; other site 1196835000497 ABC-ATPase subunit interface; other site 1196835000498 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1196835000499 NMT1-like family; Region: NMT1_2; pfam13379 1196835000500 Nitrate and nitrite sensing; Region: NIT; pfam08376 1196835000501 ANTAR domain; Region: ANTAR; pfam03861 1196835000502 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1196835000503 putative active site pocket [active] 1196835000504 4-fold oligomerization interface [polypeptide binding]; other site 1196835000505 metal binding residues [ion binding]; metal-binding site 1196835000506 3-fold/trimer interface [polypeptide binding]; other site 1196835000507 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1196835000508 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1196835000509 putative active site [active] 1196835000510 oxyanion strand; other site 1196835000511 catalytic triad [active] 1196835000512 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 1196835000513 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 1196835000514 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1196835000515 catalytic residues [active] 1196835000516 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 1196835000517 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1196835000518 substrate binding site [chemical binding]; other site 1196835000519 glutamase interaction surface [polypeptide binding]; other site 1196835000520 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 1196835000521 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196835000522 substrate binding pocket [chemical binding]; other site 1196835000523 membrane-bound complex binding site; other site 1196835000524 hinge residues; other site 1196835000525 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 1196835000526 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196835000527 substrate binding pocket [chemical binding]; other site 1196835000528 membrane-bound complex binding site; other site 1196835000529 hinge residues; other site 1196835000530 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1196835000531 NodB motif; other site 1196835000532 putative active site [active] 1196835000533 putative catalytic site [active] 1196835000534 Zn binding site [ion binding]; other site 1196835000535 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1196835000536 C-terminal peptidase (prc); Region: prc; TIGR00225 1196835000537 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 1196835000538 protein binding site [polypeptide binding]; other site 1196835000539 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1196835000540 Catalytic dyad [active] 1196835000541 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1196835000542 Peptidase family M23; Region: Peptidase_M23; pfam01551 1196835000543 phosphoglyceromutase; Provisional; Region: PRK05434 1196835000544 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 1196835000545 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 1196835000546 active site residue [active] 1196835000547 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 1196835000548 GSH binding site [chemical binding]; other site 1196835000549 catalytic residues [active] 1196835000550 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 1196835000551 SecA binding site; other site 1196835000552 Preprotein binding site; other site 1196835000553 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1196835000554 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1196835000555 NAD(P) binding site [chemical binding]; other site 1196835000556 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 1196835000557 Uncharacterized conserved protein [Function unknown]; Region: COG2947 1196835000558 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1196835000559 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1196835000560 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 1196835000561 TIGR02449 family protein; Region: TIGR02449 1196835000562 hypothetical protein; Reviewed; Region: PRK02166 1196835000563 proline aminopeptidase P II; Provisional; Region: PRK10879 1196835000564 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1196835000565 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 1196835000566 active site 1196835000567 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 1196835000568 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 1196835000569 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 1196835000570 active site 2 [active] 1196835000571 active site 1 [active] 1196835000572 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 1196835000573 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1196835000574 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1196835000575 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1196835000576 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1196835000577 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835000578 dimer interface [polypeptide binding]; other site 1196835000579 conserved gate region; other site 1196835000580 putative PBP binding loops; other site 1196835000581 ABC-ATPase subunit interface; other site 1196835000582 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835000583 dimer interface [polypeptide binding]; other site 1196835000584 conserved gate region; other site 1196835000585 ABC-ATPase subunit interface; other site 1196835000586 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1196835000587 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1196835000588 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 1196835000589 lipoyl attachment site [posttranslational modification]; other site 1196835000590 glycine dehydrogenase; Provisional; Region: PRK12566 1196835000591 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 1196835000592 tetramer interface [polypeptide binding]; other site 1196835000593 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835000594 catalytic residue [active] 1196835000595 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 1196835000596 tetramer interface [polypeptide binding]; other site 1196835000597 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835000598 catalytic residue [active] 1196835000599 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1196835000600 G1 box; other site 1196835000601 GTP/Mg2+ binding site [chemical binding]; other site 1196835000602 Switch I region; other site 1196835000603 G2 box; other site 1196835000604 G3 box; other site 1196835000605 Switch II region; other site 1196835000606 G4 box; other site 1196835000607 G5 box; other site 1196835000608 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1196835000609 Cytochrome c; Region: Cytochrom_C; cl11414 1196835000610 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 1196835000611 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1196835000612 catalytic residues [active] 1196835000613 hinge region; other site 1196835000614 alpha helical domain; other site 1196835000615 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1196835000616 putative catalytic site [active] 1196835000617 putative metal binding site [ion binding]; other site 1196835000618 putative phosphate binding site [ion binding]; other site 1196835000619 putative catalytic site [active] 1196835000620 putative phosphate binding site [ion binding]; other site 1196835000621 putative metal binding site [ion binding]; other site 1196835000622 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835000623 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835000624 metal binding site [ion binding]; metal-binding site 1196835000625 active site 1196835000626 I-site; other site 1196835000627 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1196835000628 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1196835000629 amidase catalytic site [active] 1196835000630 Zn binding residues [ion binding]; other site 1196835000631 substrate binding site [chemical binding]; other site 1196835000632 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1196835000633 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 1196835000634 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 1196835000635 dimerization interface [polypeptide binding]; other site 1196835000636 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1196835000637 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 1196835000638 putative active site [active] 1196835000639 heme pocket [chemical binding]; other site 1196835000640 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 1196835000641 dimer interface [polypeptide binding]; other site 1196835000642 phosphorylation site [posttranslational modification] 1196835000643 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 1196835000644 ATP binding site [chemical binding]; other site 1196835000645 Mg2+ binding site [ion binding]; other site 1196835000646 G-X-G motif; other site 1196835000647 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1196835000648 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835000649 active site 1196835000650 phosphorylation site [posttranslational modification] 1196835000651 intermolecular recognition site; other site 1196835000652 dimerization interface [polypeptide binding]; other site 1196835000653 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 1196835000654 Walker A motif; other site 1196835000655 ATP binding site [chemical binding]; other site 1196835000656 Walker B motif; other site 1196835000657 arginine finger; other site 1196835000658 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196835000659 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 1196835000660 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 1196835000661 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 1196835000662 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1196835000663 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1196835000664 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 1196835000665 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 1196835000666 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1196835000667 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1196835000668 PAS domain; Region: PAS_9; pfam13426 1196835000669 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 1196835000670 putative active site [active] 1196835000671 heme pocket [chemical binding]; other site 1196835000672 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835000673 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835000674 dimer interface [polypeptide binding]; other site 1196835000675 putative CheW interface [polypeptide binding]; other site 1196835000676 potential frameshift: common BLAST hit: gi|146284357|ref|YP_001174510.1| aerotaxis receptor Aer-2 1196835000677 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1196835000678 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1196835000679 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835000680 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835000681 metal binding site [ion binding]; metal-binding site 1196835000682 active site 1196835000683 I-site; other site 1196835000684 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1196835000685 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196835000686 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 1196835000687 dimerization interface [polypeptide binding]; other site 1196835000688 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 1196835000689 dimer interface [polypeptide binding]; other site 1196835000690 phosphorylation site [posttranslational modification] 1196835000691 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 1196835000692 ATP binding site [chemical binding]; other site 1196835000693 Mg2+ binding site [ion binding]; other site 1196835000694 G-X-G motif; other site 1196835000695 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1196835000696 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835000697 active site 1196835000698 phosphorylation site [posttranslational modification] 1196835000699 intermolecular recognition site; other site 1196835000700 dimerization interface [polypeptide binding]; other site 1196835000701 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 1196835000702 DNA binding site [nucleotide binding] 1196835000703 potential frameshift: common BLAST hit: gi|146284353|ref|YP_001174506.1| porin 1196835000704 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1196835000705 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1196835000706 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1196835000707 Putative ammonia monooxygenase; Region: AmoA; pfam05145 1196835000708 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1196835000709 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1196835000710 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1196835000711 PhoU domain; Region: PhoU; pfam01895 1196835000712 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 1196835000713 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 1196835000714 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1196835000715 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 1196835000716 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1196835000717 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1196835000718 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 1196835000719 AAA domain; Region: AAA_30; pfam13604 1196835000720 Family description; Region: UvrD_C_2; pfam13538 1196835000721 Predicted permeases [General function prediction only]; Region: COG0679 1196835000722 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835000723 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835000724 metal binding site [ion binding]; metal-binding site 1196835000725 active site 1196835000726 I-site; other site 1196835000727 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 1196835000728 PBP superfamily domain; Region: PBP_like_2; cl17296 1196835000729 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 1196835000730 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835000731 dimer interface [polypeptide binding]; other site 1196835000732 conserved gate region; other site 1196835000733 putative PBP binding loops; other site 1196835000734 ABC-ATPase subunit interface; other site 1196835000735 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 1196835000736 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 1196835000737 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835000738 dimer interface [polypeptide binding]; other site 1196835000739 conserved gate region; other site 1196835000740 putative PBP binding loops; other site 1196835000741 ABC-ATPase subunit interface; other site 1196835000742 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 1196835000743 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1196835000744 Walker A/P-loop; other site 1196835000745 ATP binding site [chemical binding]; other site 1196835000746 Q-loop/lid; other site 1196835000747 ABC transporter signature motif; other site 1196835000748 Walker B; other site 1196835000749 D-loop; other site 1196835000750 H-loop/switch region; other site 1196835000751 transcriptional regulator PhoU; Provisional; Region: PRK11115 1196835000752 PhoU domain; Region: PhoU; pfam01895 1196835000753 PhoU domain; Region: PhoU; pfam01895 1196835000754 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835000755 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835000756 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 1196835000757 putative effector binding pocket; other site 1196835000758 dimerization interface [polypeptide binding]; other site 1196835000759 EamA-like transporter family; Region: EamA; pfam00892 1196835000760 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1196835000761 EamA-like transporter family; Region: EamA; pfam00892 1196835000762 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1196835000763 G1 box; other site 1196835000764 GTP/Mg2+ binding site [chemical binding]; other site 1196835000765 G2 box; other site 1196835000766 Switch I region; other site 1196835000767 G3 box; other site 1196835000768 Switch II region; other site 1196835000769 G4 box; other site 1196835000770 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 1196835000771 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 1196835000772 potential frameshift: common BLAST hit: gi|339496055|ref|YP_004716348.1| glycerophosphoryl diester phosphodiesterase, periplasmic 1196835000773 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1196835000774 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 1196835000775 folate binding site [chemical binding]; other site 1196835000776 NADP+ binding site [chemical binding]; other site 1196835000777 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1196835000778 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1196835000779 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1196835000780 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1196835000781 active site 1196835000782 metal binding site [ion binding]; metal-binding site 1196835000783 homotetramer interface [polypeptide binding]; other site 1196835000784 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1196835000785 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1196835000786 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 1196835000787 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1196835000788 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1196835000789 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1196835000790 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1196835000791 putative RNA binding site [nucleotide binding]; other site 1196835000792 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 1196835000793 S-adenosylmethionine binding site [chemical binding]; other site 1196835000794 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1196835000795 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1196835000796 proposed catalytic triad [active] 1196835000797 conserved cys residue [active] 1196835000798 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1196835000799 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1196835000800 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1196835000801 DNA binding site [nucleotide binding] 1196835000802 catalytic residue [active] 1196835000803 H2TH interface [polypeptide binding]; other site 1196835000804 putative catalytic residues [active] 1196835000805 turnover-facilitating residue; other site 1196835000806 intercalation triad [nucleotide binding]; other site 1196835000807 8OG recognition residue [nucleotide binding]; other site 1196835000808 putative reading head residues; other site 1196835000809 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1196835000810 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1196835000811 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 1196835000812 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1196835000813 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1196835000814 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1196835000815 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1196835000816 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1196835000817 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1196835000818 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1196835000819 active site 1196835000820 (T/H)XGH motif; other site 1196835000821 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1196835000822 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1196835000823 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1196835000824 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 1196835000825 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 1196835000826 NAD(P) binding site [chemical binding]; other site 1196835000827 catalytic residues [active] 1196835000828 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196835000829 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196835000830 Bacterial transcriptional repressor; Region: TetR; pfam13972 1196835000831 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1196835000832 nucleotidyl binding site; other site 1196835000833 metal binding site [ion binding]; metal-binding site 1196835000834 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1196835000835 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1196835000836 DXD motif; other site 1196835000837 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1196835000838 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1196835000839 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196835000840 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 1196835000841 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1196835000842 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1196835000843 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 1196835000844 S-adenosylmethionine binding site [chemical binding]; other site 1196835000845 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1196835000846 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1196835000847 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1196835000848 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1196835000849 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1196835000850 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1196835000851 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1196835000852 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1196835000853 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 1196835000854 P loop; other site 1196835000855 GTP binding site [chemical binding]; other site 1196835000856 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1196835000857 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835000858 Walker A/P-loop; other site 1196835000859 ATP binding site [chemical binding]; other site 1196835000860 Q-loop/lid; other site 1196835000861 ABC transporter signature motif; other site 1196835000862 Walker B; other site 1196835000863 D-loop; other site 1196835000864 H-loop/switch region; other site 1196835000865 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1196835000866 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1196835000867 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1196835000868 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196835000869 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 1196835000870 DNA binding residues [nucleotide binding] 1196835000871 CHASE domain; Region: CHASE; pfam03924 1196835000872 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 1196835000873 PAS fold; Region: PAS_3; pfam08447 1196835000874 putative active site [active] 1196835000875 heme pocket [chemical binding]; other site 1196835000876 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196835000877 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 1196835000878 dimer interface [polypeptide binding]; other site 1196835000879 phosphorylation site [posttranslational modification] 1196835000880 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 1196835000881 ATP binding site [chemical binding]; other site 1196835000882 Mg2+ binding site [ion binding]; other site 1196835000883 G-X-G motif; other site 1196835000884 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835000885 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835000886 active site 1196835000887 phosphorylation site [posttranslational modification] 1196835000888 intermolecular recognition site; other site 1196835000889 dimerization interface [polypeptide binding]; other site 1196835000890 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 1196835000891 PAS domain; Region: PAS_9; pfam13426 1196835000892 putative active site [active] 1196835000893 heme pocket [chemical binding]; other site 1196835000894 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835000895 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835000896 metal binding site [ion binding]; metal-binding site 1196835000897 active site 1196835000898 I-site; other site 1196835000899 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 1196835000900 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1196835000901 Transglycosylase; Region: Transgly; cl17702 1196835000902 Protein of unknown function (DUF423); Region: DUF423; pfam04241 1196835000903 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1196835000904 thiS-thiF/thiG interaction site; other site 1196835000905 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 1196835000906 ThiS interaction site; other site 1196835000907 putative active site [active] 1196835000908 tetramer interface [polypeptide binding]; other site 1196835000909 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 1196835000910 S-adenosylmethionine binding site [chemical binding]; other site 1196835000911 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1196835000912 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 1196835000913 HemN family oxidoreductase; Provisional; Region: PRK05660 1196835000914 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 1196835000915 FeS/SAM binding site; other site 1196835000916 HemN C-terminal domain; Region: HemN_C; pfam06969 1196835000917 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 1196835000918 active site 1196835000919 dimerization interface [polypeptide binding]; other site 1196835000920 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 1196835000921 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 1196835000922 S-adenosylmethionine binding site [chemical binding]; other site 1196835000923 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1196835000924 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1196835000925 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1196835000926 Dynamin family; Region: Dynamin_N; pfam00350 1196835000927 G1 box; other site 1196835000928 GTP/Mg2+ binding site [chemical binding]; other site 1196835000929 G2 box; other site 1196835000930 Switch I region; other site 1196835000931 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 1196835000932 G3 box; other site 1196835000933 Switch II region; other site 1196835000934 GTP/Mg2+ binding site [chemical binding]; other site 1196835000935 G4 box; other site 1196835000936 G5 box; other site 1196835000937 YGGT family; Region: YGGT; pfam02325 1196835000938 YGGT family; Region: YGGT; pfam02325 1196835000939 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1196835000940 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1196835000941 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1196835000942 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1196835000943 catalytic residue [active] 1196835000944 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1196835000945 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 1196835000946 Walker A motif; other site 1196835000947 ATP binding site [chemical binding]; other site 1196835000948 Walker B motif; other site 1196835000949 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 1196835000950 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 1196835000951 Walker A motif; other site 1196835000952 ATP binding site [chemical binding]; other site 1196835000953 Walker B motif; other site 1196835000954 potential frameshift: common BLAST hit: gi|146284275|ref|YP_001174428.1| leucyl-tRNA synthetase 1196835000955 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 1196835000956 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 1196835000957 FeS/SAM binding site; other site 1196835000958 TM2 domain; Region: TM2; cl00984 1196835000959 TM2 domain; Region: TM2; cl00984 1196835000960 dihydroorotase; Validated; Region: pyrC; PRK09357 1196835000961 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 1196835000962 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 1196835000963 active site 1196835000964 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1196835000965 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1196835000966 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1196835000967 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1196835000968 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1196835000969 active site 1196835000970 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1196835000971 hypothetical protein; Validated; Region: PRK00228 1196835000972 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1196835000973 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1196835000974 glutathione synthetase; Provisional; Region: PRK05246 1196835000975 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1196835000976 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1196835000977 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835000978 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835000979 active site 1196835000980 phosphorylation site [posttranslational modification] 1196835000981 intermolecular recognition site; other site 1196835000982 dimerization interface [polypeptide binding]; other site 1196835000983 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835000984 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835000985 active site 1196835000986 phosphorylation site [posttranslational modification] 1196835000987 intermolecular recognition site; other site 1196835000988 dimerization interface [polypeptide binding]; other site 1196835000989 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 1196835000990 putative CheA interaction surface; other site 1196835000991 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1196835000992 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835000993 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835000994 dimer interface [polypeptide binding]; other site 1196835000995 putative CheW interface [polypeptide binding]; other site 1196835000996 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1196835000997 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1196835000998 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1196835000999 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 1196835001000 putative binding surface; other site 1196835001001 active site 1196835001002 Hpt domain; Region: Hpt; pfam01627 1196835001003 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 1196835001004 putative binding surface; other site 1196835001005 active site 1196835001006 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 1196835001007 putative binding surface; other site 1196835001008 active site 1196835001009 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1196835001010 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 1196835001011 putative binding surface; other site 1196835001012 active site 1196835001013 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1196835001014 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 1196835001015 ATP binding site [chemical binding]; other site 1196835001016 Mg2+ binding site [ion binding]; other site 1196835001017 G-X-G motif; other site 1196835001018 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 1196835001019 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835001020 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835001021 active site 1196835001022 phosphorylation site [posttranslational modification] 1196835001023 intermolecular recognition site; other site 1196835001024 dimerization interface [polypeptide binding]; other site 1196835001025 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 1196835001026 CheB methylesterase; Region: CheB_methylest; pfam01339 1196835001027 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; cd00588 1196835001028 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1196835001029 RNA methyltransferase, RsmE family; Region: TIGR00046 1196835001030 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 1196835001031 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 1196835001032 inhibitor-cofactor binding pocket; inhibition site 1196835001033 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835001034 catalytic residue [active] 1196835001035 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1196835001036 hypothetical protein; Provisional; Region: PRK03757 1196835001037 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1196835001038 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196835001039 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196835001040 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1196835001041 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1196835001042 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1196835001043 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 1196835001044 ATP binding site [chemical binding]; other site 1196835001045 Mg++ binding site [ion binding]; other site 1196835001046 motif III; other site 1196835001047 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 1196835001048 nucleotide binding region [chemical binding]; other site 1196835001049 ATP-binding site [chemical binding]; other site 1196835001050 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 1196835001051 FAD binding site [chemical binding]; other site 1196835001052 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1196835001053 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1196835001054 homotetramer interface [polypeptide binding]; other site 1196835001055 ligand binding site [chemical binding]; other site 1196835001056 catalytic site [active] 1196835001057 NAD binding site [chemical binding]; other site 1196835001058 Cytochrome C' Region: Cytochrom_C_2; pfam01322 1196835001059 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 1196835001060 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 1196835001061 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; cl03295 1196835001062 nucleotide binding pocket [chemical binding]; other site 1196835001063 K-X-D-G motif; other site 1196835001064 catalytic site [active] 1196835001065 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1196835001066 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 1196835001067 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 1196835001068 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 1196835001069 FAD binding pocket [chemical binding]; other site 1196835001070 FAD binding motif [chemical binding]; other site 1196835001071 phosphate binding motif [ion binding]; other site 1196835001072 beta-alpha-beta structure motif; other site 1196835001073 NAD binding pocket [chemical binding]; other site 1196835001074 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1196835001075 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1196835001076 Walker A/P-loop; other site 1196835001077 ATP binding site [chemical binding]; other site 1196835001078 Q-loop/lid; other site 1196835001079 ABC transporter signature motif; other site 1196835001080 Walker B; other site 1196835001081 D-loop; other site 1196835001082 H-loop/switch region; other site 1196835001083 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1196835001084 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1196835001085 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1196835001086 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1196835001087 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1196835001088 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1196835001089 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 1196835001090 putative DNA binding site [nucleotide binding]; other site 1196835001091 putative Zn2+ binding site [ion binding]; other site 1196835001092 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1196835001093 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 1196835001094 S-adenosylmethionine binding site [chemical binding]; other site 1196835001095 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1196835001096 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1196835001097 substrate binding pocket [chemical binding]; other site 1196835001098 active site 1196835001099 iron coordination sites [ion binding]; other site 1196835001100 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1196835001101 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835001102 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 1196835001103 dimerization interface [polypeptide binding]; other site 1196835001104 substrate binding pocket [chemical binding]; other site 1196835001105 transketolase; Reviewed; Region: PRK12753 1196835001106 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 1196835001107 TPP-binding site [chemical binding]; other site 1196835001108 dimer interface [polypeptide binding]; other site 1196835001109 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 1196835001110 PYR/PP interface [polypeptide binding]; other site 1196835001111 dimer interface [polypeptide binding]; other site 1196835001112 TPP binding site [chemical binding]; other site 1196835001113 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1196835001114 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 1196835001115 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1196835001116 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1196835001117 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1196835001118 Phosphoglycerate kinase; Region: PGK; pfam00162 1196835001119 substrate binding site [chemical binding]; other site 1196835001120 hinge regions; other site 1196835001121 ADP binding site [chemical binding]; other site 1196835001122 catalytic site [active] 1196835001123 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1196835001124 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 1196835001125 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1196835001126 intersubunit interface [polypeptide binding]; other site 1196835001127 active site 1196835001128 zinc binding site [ion binding]; other site 1196835001129 Na+ binding site [ion binding]; other site 1196835001130 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835001131 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835001132 active site 1196835001133 phosphorylation site [posttranslational modification] 1196835001134 intermolecular recognition site; other site 1196835001135 dimerization interface [polypeptide binding]; other site 1196835001136 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1196835001137 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 1196835001138 S-adenosylmethionine binding site [chemical binding]; other site 1196835001139 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1196835001140 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 1196835001141 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1196835001142 heme-binding site [chemical binding]; other site 1196835001143 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 1196835001144 PAS fold; Region: PAS_3; pfam08447 1196835001145 putative active site [active] 1196835001146 heme pocket [chemical binding]; other site 1196835001147 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835001148 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835001149 metal binding site [ion binding]; metal-binding site 1196835001150 active site 1196835001151 I-site; other site 1196835001152 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 1196835001153 HI0933-like protein; Region: HI0933_like; pfam03486 1196835001154 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1196835001155 potential frameshift: common BLAST hit: gi|146284219|ref|YP_001174372.1| amino acid ABC transporter, periplasmic amino acid-binding protein 1196835001156 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 1196835001157 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 1196835001158 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1196835001159 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1196835001160 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1196835001161 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 1196835001162 ATP binding site [chemical binding]; other site 1196835001163 Mg++ binding site [ion binding]; other site 1196835001164 motif III; other site 1196835001165 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 1196835001166 nucleotide binding region [chemical binding]; other site 1196835001167 ATP-binding site [chemical binding]; other site 1196835001168 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1196835001169 putative RNA binding site [nucleotide binding]; other site 1196835001170 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1196835001171 Transposase domain (DUF772); Region: DUF772; pfam05598 1196835001172 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1196835001173 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1196835001174 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 1196835001175 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1196835001176 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1196835001177 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1196835001178 Na binding site [ion binding]; other site 1196835001179 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 1196835001180 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1196835001181 active site 1196835001182 catalytic site [active] 1196835001183 substrate binding site [chemical binding]; other site 1196835001184 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1196835001185 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 1196835001186 ligand binding site [chemical binding]; other site 1196835001187 flexible hinge region; other site 1196835001188 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 1196835001189 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1196835001190 metal binding triad; other site 1196835001191 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 1196835001192 dimerization interface [polypeptide binding]; other site 1196835001193 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835001194 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835001195 dimer interface [polypeptide binding]; other site 1196835001196 putative CheW interface [polypeptide binding]; other site 1196835001197 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 1196835001198 active site 1196835001199 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1196835001200 ACT domain; Region: ACT_6; pfam13740 1196835001201 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1196835001202 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1196835001203 EamA-like transporter family; Region: EamA; pfam00892 1196835001204 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1196835001205 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196835001206 NAD(P) binding site [chemical binding]; other site 1196835001207 active site 1196835001208 Trehalase; Region: Trehalase; cl17346 1196835001209 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1196835001210 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196835001211 DNA-binding site [nucleotide binding]; DNA binding site 1196835001212 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1196835001213 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1196835001214 DctM-like transporters; Region: DctM; pfam06808 1196835001215 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1196835001216 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1196835001217 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1196835001218 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1196835001219 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1196835001220 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1196835001221 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196835001222 active site 1196835001223 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1196835001224 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1196835001225 sequence-specific DNA binding site [nucleotide binding]; other site 1196835001226 salt bridge; other site 1196835001227 HipA N-terminal domain; Region: Couple_hipA; cl11853 1196835001228 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1196835001229 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1196835001230 Transposase domain (DUF772); Region: DUF772; pfam05598 1196835001231 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1196835001232 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1196835001233 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1196835001234 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835001235 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 1196835001236 dimerization interface [polypeptide binding]; other site 1196835001237 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1196835001238 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 1196835001239 active site pocket [active] 1196835001240 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 1196835001241 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1196835001242 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1196835001243 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 1196835001244 active site 1196835001245 tetramer interface [polypeptide binding]; other site 1196835001246 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 1196835001247 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1196835001248 putative active site [active] 1196835001249 catalytic residue [active] 1196835001250 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 1196835001251 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1196835001252 NAD(P) binding site [chemical binding]; other site 1196835001253 catalytic residues [active] 1196835001254 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1196835001255 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 1196835001256 active site 1196835001257 tetramer interface [polypeptide binding]; other site 1196835001258 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1196835001259 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1196835001260 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1196835001261 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1196835001262 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 1196835001263 N-terminal plug; other site 1196835001264 ligand-binding site [chemical binding]; other site 1196835001265 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1196835001266 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1196835001267 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1196835001268 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 1196835001269 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1196835001270 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1196835001271 putative ligand binding site [chemical binding]; other site 1196835001272 NAD binding site [chemical binding]; other site 1196835001273 catalytic site [active] 1196835001274 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 1196835001275 active site 1196835001276 catalytic residues [active] 1196835001277 outer membrane porin, OprD family; Region: OprD; pfam03573 1196835001278 Water Stress and Hypersensitive response; Region: WHy; smart00769 1196835001279 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1196835001280 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 1196835001281 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1196835001282 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 1196835001283 active site residues [active] 1196835001284 dimer interface [polypeptide binding]; other site 1196835001285 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 1196835001286 short chain dehydrogenase; Provisional; Region: PRK07109 1196835001287 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 1196835001288 putative NAD(P) binding site [chemical binding]; other site 1196835001289 active site 1196835001290 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 1196835001291 CHASE3 domain; Region: CHASE3; pfam05227 1196835001292 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1196835001293 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1196835001294 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 1196835001295 dimer interface [polypeptide binding]; other site 1196835001296 phosphorylation site [posttranslational modification] 1196835001297 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 1196835001298 ATP binding site [chemical binding]; other site 1196835001299 Mg2+ binding site [ion binding]; other site 1196835001300 G-X-G motif; other site 1196835001301 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835001302 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835001303 active site 1196835001304 phosphorylation site [posttranslational modification] 1196835001305 intermolecular recognition site; other site 1196835001306 dimerization interface [polypeptide binding]; other site 1196835001307 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196835001308 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835001309 active site 1196835001310 phosphorylation site [posttranslational modification] 1196835001311 intermolecular recognition site; other site 1196835001312 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835001313 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835001314 active site 1196835001315 phosphorylation site [posttranslational modification] 1196835001316 intermolecular recognition site; other site 1196835001317 dimerization interface [polypeptide binding]; other site 1196835001318 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1196835001319 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1196835001320 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1196835001321 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 1196835001322 CheB methylesterase; Region: CheB_methylest; pfam01339 1196835001323 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835001324 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835001325 active site 1196835001326 phosphorylation site [posttranslational modification] 1196835001327 intermolecular recognition site; other site 1196835001328 dimerization interface [polypeptide binding]; other site 1196835001329 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196835001330 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 1196835001331 dimer interface [polypeptide binding]; other site 1196835001332 phosphorylation site [posttranslational modification] 1196835001333 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 1196835001334 ATP binding site [chemical binding]; other site 1196835001335 Mg2+ binding site [ion binding]; other site 1196835001336 G-X-G motif; other site 1196835001337 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1196835001338 hypothetical protein; Validated; Region: PRK00029 1196835001339 hypothetical protein; Provisional; Region: PRK11281 1196835001340 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1196835001341 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1196835001342 potassium/proton antiporter; Reviewed; Region: PRK05326 1196835001343 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1196835001344 TrkA-C domain; Region: TrkA_C; pfam02080 1196835001345 Transporter associated domain; Region: CorC_HlyC; smart01091 1196835001346 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1196835001347 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1196835001348 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196835001349 active site 1196835001350 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1196835001351 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 1196835001352 substrate binding pocket [chemical binding]; other site 1196835001353 substrate-Mg2+ binding site; other site 1196835001354 aspartate-rich region 1; other site 1196835001355 aspartate-rich region 2; other site 1196835001356 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1196835001357 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 1196835001358 homotetramer interface [polypeptide binding]; other site 1196835001359 FMN binding site [chemical binding]; other site 1196835001360 homodimer contacts [polypeptide binding]; other site 1196835001361 putative active site [active] 1196835001362 putative substrate binding site [chemical binding]; other site 1196835001363 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 1196835001364 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 1196835001365 active site 1196835001366 TDP-binding site; other site 1196835001367 acceptor substrate-binding pocket; other site 1196835001368 homodimer interface [polypeptide binding]; other site 1196835001369 lycopene cyclase; Region: lycopene_cycl; TIGR01789 1196835001370 lycopene cyclase family protein; Region: carotene-cycl; TIGR01790 1196835001371 phytoene desaturase; Region: crtI_fam; TIGR02734 1196835001372 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1196835001373 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1196835001374 active site lid residues [active] 1196835001375 substrate binding pocket [chemical binding]; other site 1196835001376 catalytic residues [active] 1196835001377 substrate-Mg2+ binding site; other site 1196835001378 aspartate-rich region 1; other site 1196835001379 aspartate-rich region 2; other site 1196835001380 beta-carotene hydroxylase; Region: PLN02601 1196835001381 Nitronate monooxygenase; Region: NMO; pfam03060 1196835001382 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 1196835001383 FMN binding site [chemical binding]; other site 1196835001384 substrate binding site [chemical binding]; other site 1196835001385 putative catalytic residue [active] 1196835001386 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1196835001387 serine/threonine protein kinase; Provisional; Region: PRK11768 1196835001388 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1196835001389 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1196835001390 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1196835001391 active site 1196835001392 biotin synthase; Provisional; Region: PRK15108 1196835001393 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 1196835001394 FeS/SAM binding site; other site 1196835001395 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1196835001396 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1196835001397 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 1196835001398 substrate-cofactor binding pocket; other site 1196835001399 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835001400 catalytic residue [active] 1196835001401 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 1196835001402 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1196835001403 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 1196835001404 S-adenosylmethionine binding site [chemical binding]; other site 1196835001405 AAA domain; Region: AAA_26; pfam13500 1196835001406 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1196835001407 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1196835001408 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1196835001409 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196835001410 active site 1196835001411 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1196835001412 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835001413 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835001414 metal binding site [ion binding]; metal-binding site 1196835001415 active site 1196835001416 I-site; other site 1196835001417 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1196835001418 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1196835001419 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196835001420 active site 1196835001421 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1196835001422 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1196835001423 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 1196835001424 putative active site [active] 1196835001425 heme pocket [chemical binding]; other site 1196835001426 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1196835001427 GAF domain; Region: GAF; pfam01590 1196835001428 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 1196835001429 PAS domain; Region: PAS_9; pfam13426 1196835001430 putative active site [active] 1196835001431 heme pocket [chemical binding]; other site 1196835001432 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835001433 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835001434 metal binding site [ion binding]; metal-binding site 1196835001435 active site 1196835001436 I-site; other site 1196835001437 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 1196835001438 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 1196835001439 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 1196835001440 E3 interaction surface; other site 1196835001441 lipoyl attachment site [posttranslational modification]; other site 1196835001442 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 1196835001443 E3 interaction surface; other site 1196835001444 lipoyl attachment site [posttranslational modification]; other site 1196835001445 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 1196835001446 E3 interaction surface; other site 1196835001447 lipoyl attachment site [posttranslational modification]; other site 1196835001448 e3 binding domain; Region: E3_binding; pfam02817 1196835001449 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1196835001450 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1196835001451 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 1196835001452 dimer interface [polypeptide binding]; other site 1196835001453 TPP-binding site [chemical binding]; other site 1196835001454 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1196835001455 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1196835001456 metal binding triad; other site 1196835001457 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1196835001458 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1196835001459 metal binding triad; other site 1196835001460 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1196835001461 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1196835001462 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 1196835001463 homodimer interface [polypeptide binding]; other site 1196835001464 substrate-cofactor binding pocket; other site 1196835001465 catalytic residue [active] 1196835001466 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1196835001467 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 1196835001468 putative active site [active] 1196835001469 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1196835001470 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 1196835001471 putative active site [active] 1196835001472 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196835001473 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 1196835001474 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 1196835001475 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1196835001476 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 1196835001477 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 1196835001478 active site 1196835001479 ATP binding site [chemical binding]; other site 1196835001480 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1196835001481 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 1196835001482 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1196835001483 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1196835001484 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 1196835001485 active site 1196835001486 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 1196835001487 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 1196835001488 trimer interface [polypeptide binding]; other site 1196835001489 active site 1196835001490 substrate binding site [chemical binding]; other site 1196835001491 CoA binding site [chemical binding]; other site 1196835001492 Phosphotransferase enzyme family; Region: APH; pfam01636 1196835001493 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 1196835001494 active site 1196835001495 ATP binding site [chemical binding]; other site 1196835001496 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1196835001497 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1196835001498 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1196835001499 Walker A/P-loop; other site 1196835001500 ATP binding site [chemical binding]; other site 1196835001501 Q-loop/lid; other site 1196835001502 ABC transporter signature motif; other site 1196835001503 Walker B; other site 1196835001504 D-loop; other site 1196835001505 H-loop/switch region; other site 1196835001506 Mig-14; Region: Mig-14; pfam07395 1196835001507 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1196835001508 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 1196835001509 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1196835001510 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 1196835001511 putative ribose interaction site [chemical binding]; other site 1196835001512 putative ADP binding site [chemical binding]; other site 1196835001513 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1196835001514 active site 1196835001515 nucleotide binding site [chemical binding]; other site 1196835001516 HIGH motif; other site 1196835001517 KMSKS motif; other site 1196835001518 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 1196835001519 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1196835001520 active site 1196835001521 catalytic tetrad [active] 1196835001522 FAD dependent oxidoreductase; Region: DAO; pfam01266 1196835001523 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1196835001524 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1196835001525 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1196835001526 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1196835001527 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 1196835001528 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1196835001529 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1196835001530 ThiC-associated domain; Region: ThiC-associated; pfam13667 1196835001531 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1196835001532 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1196835001533 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1196835001534 Beta-Casp domain; Region: Beta-Casp; smart01027 1196835001535 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1196835001536 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196835001537 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 1196835001538 putative ADP-binding pocket [chemical binding]; other site 1196835001539 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 1196835001540 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1196835001541 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1196835001542 Walker A/P-loop; other site 1196835001543 ATP binding site [chemical binding]; other site 1196835001544 Q-loop/lid; other site 1196835001545 ABC transporter signature motif; other site 1196835001546 Walker B; other site 1196835001547 D-loop; other site 1196835001548 H-loop/switch region; other site 1196835001549 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1196835001550 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196835001551 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196835001552 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 1196835001553 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1196835001554 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1196835001555 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1196835001556 Walker A/P-loop; other site 1196835001557 ATP binding site [chemical binding]; other site 1196835001558 Q-loop/lid; other site 1196835001559 ABC transporter signature motif; other site 1196835001560 Walker B; other site 1196835001561 D-loop; other site 1196835001562 H-loop/switch region; other site 1196835001563 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1196835001564 putative carbohydrate binding site [chemical binding]; other site 1196835001565 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1196835001566 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 1196835001567 S-adenosylmethionine binding site [chemical binding]; other site 1196835001568 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 1196835001569 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196835001570 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 1196835001571 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196835001572 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1196835001573 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1196835001574 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1196835001575 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1196835001576 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1196835001577 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1196835001578 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196835001579 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 1196835001580 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1196835001581 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1196835001582 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1196835001583 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1196835001584 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 1196835001585 putative NAD(P) binding site [chemical binding]; other site 1196835001586 active site 1196835001587 putative substrate binding site [chemical binding]; other site 1196835001588 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1196835001589 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 1196835001590 Mg++ binding site [ion binding]; other site 1196835001591 putative catalytic motif [active] 1196835001592 putative substrate binding site [chemical binding]; other site 1196835001593 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1196835001594 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1196835001595 NAD(P) binding site [chemical binding]; other site 1196835001596 homodimer interface [polypeptide binding]; other site 1196835001597 substrate binding site [chemical binding]; other site 1196835001598 active site 1196835001599 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 1196835001600 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1196835001601 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1196835001602 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 1196835001603 dimer interface [polypeptide binding]; other site 1196835001604 ADP-ribose binding site [chemical binding]; other site 1196835001605 active site 1196835001606 nudix motif; other site 1196835001607 metal binding site [ion binding]; metal-binding site 1196835001608 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 1196835001609 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1196835001610 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1196835001611 active site 1196835001612 metal binding site [ion binding]; metal-binding site 1196835001613 hexamer interface [polypeptide binding]; other site 1196835001614 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1196835001615 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1196835001616 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1196835001617 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 1196835001618 ATP binding site [chemical binding]; other site 1196835001619 Mg2+ binding site [ion binding]; other site 1196835001620 G-X-G motif; other site 1196835001621 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 1196835001622 anchoring element; other site 1196835001623 dimer interface [polypeptide binding]; other site 1196835001624 ATP binding site [chemical binding]; other site 1196835001625 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1196835001626 active site 1196835001627 metal binding site [ion binding]; metal-binding site 1196835001628 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1196835001629 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1196835001630 catalytic motif [active] 1196835001631 Catalytic residue [active] 1196835001632 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 1196835001633 active site 1196835001634 metal binding site [ion binding]; metal-binding site 1196835001635 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1196835001636 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1196835001637 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 1196835001638 CAP-like domain; other site 1196835001639 active site 1196835001640 primary dimer interface [polypeptide binding]; other site 1196835001641 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1196835001642 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1196835001643 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 1196835001644 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1196835001645 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 1196835001646 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 1196835001647 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1196835001648 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 1196835001649 motif II; other site 1196835001650 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1196835001651 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 1196835001652 tetramer interface [polypeptide binding]; other site 1196835001653 catalytic Zn binding site [ion binding]; other site 1196835001654 NADP binding site [chemical binding]; other site 1196835001655 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1196835001656 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835001657 active site 1196835001658 intermolecular recognition site; other site 1196835001659 dimerization interface [polypeptide binding]; other site 1196835001660 PAS domain S-box; Region: sensory_box; TIGR00229 1196835001661 PAS domain; Region: PAS_8; pfam13188 1196835001662 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 1196835001663 putative active site [active] 1196835001664 heme pocket [chemical binding]; other site 1196835001665 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835001666 metal binding site [ion binding]; metal-binding site 1196835001667 active site 1196835001668 I-site; other site 1196835001669 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 1196835001670 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1196835001671 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1196835001672 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 1196835001673 active site residue [active] 1196835001674 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 1196835001675 active site residue [active] 1196835001676 HDOD domain; Region: HDOD; pfam08668 1196835001677 flagellar motor protein MotA; Validated; Region: PRK09110 1196835001678 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1196835001679 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1196835001680 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1196835001681 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196835001682 ligand binding site [chemical binding]; other site 1196835001683 GTPase RsgA; Reviewed; Region: PRK12288 1196835001684 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 1196835001685 RNA binding site [nucleotide binding]; other site 1196835001686 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1196835001687 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1196835001688 GTP/Mg2+ binding site [chemical binding]; other site 1196835001689 G4 box; other site 1196835001690 G5 box; other site 1196835001691 G1 box; other site 1196835001692 Switch I region; other site 1196835001693 G2 box; other site 1196835001694 G3 box; other site 1196835001695 Switch II region; other site 1196835001696 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 1196835001697 S-adenosylmethionine binding site [chemical binding]; other site 1196835001698 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1196835001699 catalytic site [active] 1196835001700 putative active site [active] 1196835001701 putative substrate binding site [chemical binding]; other site 1196835001702 dimer interface [polypeptide binding]; other site 1196835001703 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1196835001704 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1196835001705 NAD binding site [chemical binding]; other site 1196835001706 active site 1196835001707 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1196835001708 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1196835001709 MORN repeat; Region: MORN; cl14787 1196835001710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1196835001711 Peptidase C13 family; Region: Peptidase_C13; cl02159 1196835001712 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 1196835001713 putative active site [active] 1196835001714 putative catalytic site [active] 1196835001715 LrgA family; Region: LrgA; cl00608 1196835001716 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1196835001717 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1196835001718 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1196835001719 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1196835001720 Putative methyltransferase; Region: Methyltransf_20; pfam12147 1196835001721 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1196835001722 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1196835001723 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 1196835001724 active site 1196835001725 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1196835001726 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1196835001727 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1196835001728 putative catalytic cysteine [active] 1196835001729 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1196835001730 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1196835001731 active site 1196835001732 (T/H)XGH motif; other site 1196835001733 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1196835001734 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1196835001735 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1196835001736 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1196835001737 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1196835001738 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1196835001739 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1196835001740 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 1196835001741 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1196835001742 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1196835001743 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1196835001744 Sporulation related domain; Region: SPOR; pfam05036 1196835001745 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1196835001746 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1196835001747 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1196835001748 Protein of unknown function (DUF493); Region: DUF493; cl01102 1196835001749 lipoate-protein ligase B; Provisional; Region: PRK14342 1196835001750 lipoyl synthase; Provisional; Region: PRK05481 1196835001751 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 1196835001752 FeS/SAM binding site; other site 1196835001753 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1196835001754 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 1196835001755 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1196835001756 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1196835001757 Domain of unknown function; Region: DUF331; cl01149 1196835001758 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1196835001759 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1196835001760 Lipopolysaccharide-assembly; Region: LptE; cl01125 1196835001761 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1196835001762 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1196835001763 HIGH motif; other site 1196835001764 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1196835001765 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1196835001766 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1196835001767 active site 1196835001768 KMSKS motif; other site 1196835001769 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1196835001770 tRNA binding surface [nucleotide binding]; other site 1196835001771 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1196835001772 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1196835001773 putative active site [active] 1196835001774 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1196835001775 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1196835001776 putative active site [active] 1196835001777 catalytic triad [active] 1196835001778 putative dimer interface [polypeptide binding]; other site 1196835001779 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1196835001780 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 1196835001781 Transporter associated domain; Region: CorC_HlyC; smart01091 1196835001782 metal-binding heat shock protein; Provisional; Region: PRK00016 1196835001783 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1196835001784 PhoH-like protein; Region: PhoH; pfam02562 1196835001785 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1196835001786 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1196835001787 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 1196835001788 FeS/SAM binding site; other site 1196835001789 TRAM domain; Region: TRAM; pfam01938 1196835001790 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1196835001791 Sel1-like repeats; Region: SEL1; smart00671 1196835001792 Sel1-like repeats; Region: SEL1; smart00671 1196835001793 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1196835001794 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 1196835001795 inhibitor-cofactor binding pocket; inhibition site 1196835001796 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835001797 catalytic residue [active] 1196835001798 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 1196835001799 thiamine phosphate binding site [chemical binding]; other site 1196835001800 active site 1196835001801 pyrophosphate binding site [ion binding]; other site 1196835001802 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 1196835001803 dimer interface [polypeptide binding]; other site 1196835001804 substrate binding site [chemical binding]; other site 1196835001805 ATP binding site [chemical binding]; other site 1196835001806 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1196835001807 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1196835001808 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196835001809 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 1196835001810 dimer interface [polypeptide binding]; other site 1196835001811 phosphorylation site [posttranslational modification] 1196835001812 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 1196835001813 ATP binding site [chemical binding]; other site 1196835001814 Mg2+ binding site [ion binding]; other site 1196835001815 G-X-G motif; other site 1196835001816 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196835001817 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1196835001818 active site 1196835001819 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1196835001820 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1196835001821 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1196835001822 AMP nucleosidase; Provisional; Region: PRK08292 1196835001823 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1196835001824 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1196835001825 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 1196835001826 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 1196835001827 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1196835001828 G1 box; other site 1196835001829 GTP/Mg2+ binding site [chemical binding]; other site 1196835001830 G2 box; other site 1196835001831 Switch I region; other site 1196835001832 G3 box; other site 1196835001833 Switch II region; other site 1196835001834 G4 box; other site 1196835001835 G5 box; other site 1196835001836 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1196835001837 UreF; Region: UreF; pfam01730 1196835001838 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 1196835001839 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 1196835001840 dimer interface [polypeptide binding]; other site 1196835001841 catalytic residues [active] 1196835001842 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1196835001843 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1196835001844 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1196835001845 tetramer interface [polypeptide binding]; other site 1196835001846 active site 1196835001847 Mg2+/Mn2+ binding site [ion binding]; other site 1196835001848 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 1196835001849 hypothetical protein; Provisional; Region: PRK11019 1196835001850 GAF domain; Region: GAF; pfam01590 1196835001851 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1196835001852 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 1196835001853 dimer interface [polypeptide binding]; other site 1196835001854 phosphorylation site [posttranslational modification] 1196835001855 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1196835001856 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 1196835001857 ATP binding site [chemical binding]; other site 1196835001858 Mg2+ binding site [ion binding]; other site 1196835001859 G-X-G motif; other site 1196835001860 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 1196835001861 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1196835001862 Na binding site [ion binding]; other site 1196835001863 putative substrate binding site [chemical binding]; other site 1196835001864 major curlin subunit; Provisional; Region: csgA; PRK10051 1196835001865 Curlin associated repeat; Region: Curlin_rpt; pfam07012 1196835001866 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1196835001867 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 1196835001868 subunit interactions [polypeptide binding]; other site 1196835001869 active site 1196835001870 flap region; other site 1196835001871 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 1196835001872 gamma-beta subunit interface [polypeptide binding]; other site 1196835001873 alpha-beta subunit interface [polypeptide binding]; other site 1196835001874 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1196835001875 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196835001876 Coenzyme A binding pocket [chemical binding]; other site 1196835001877 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 1196835001878 alpha-gamma subunit interface [polypeptide binding]; other site 1196835001879 beta-gamma subunit interface [polypeptide binding]; other site 1196835001880 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1196835001881 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1196835001882 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1196835001883 Walker A/P-loop; other site 1196835001884 ATP binding site [chemical binding]; other site 1196835001885 Q-loop/lid; other site 1196835001886 ABC transporter signature motif; other site 1196835001887 Walker B; other site 1196835001888 D-loop; other site 1196835001889 H-loop/switch region; other site 1196835001890 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1196835001891 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1196835001892 Walker A/P-loop; other site 1196835001893 ATP binding site [chemical binding]; other site 1196835001894 Q-loop/lid; other site 1196835001895 ABC transporter signature motif; other site 1196835001896 Walker B; other site 1196835001897 D-loop; other site 1196835001898 H-loop/switch region; other site 1196835001899 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1196835001900 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 1196835001901 TM-ABC transporter signature motif; other site 1196835001902 HEAT repeats; Region: HEAT_2; pfam13646 1196835001903 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 1196835001904 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1196835001905 TM-ABC transporter signature motif; other site 1196835001906 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1196835001907 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1196835001908 putative ligand binding site [chemical binding]; other site 1196835001909 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1196835001910 pseudouridine synthase; Region: TIGR00093 1196835001911 active site 1196835001912 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 1196835001913 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1196835001914 heme-binding site [chemical binding]; other site 1196835001915 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1196835001916 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 1196835001917 putative DNA binding site [nucleotide binding]; other site 1196835001918 putative Zn2+ binding site [ion binding]; other site 1196835001919 AsnC family; Region: AsnC_trans_reg; pfam01037 1196835001920 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1196835001921 Cation efflux family; Region: Cation_efflux; cl00316 1196835001922 pyruvate kinase; Provisional; Region: PRK06247 1196835001923 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 1196835001924 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 1196835001925 ATP binding site [chemical binding]; other site 1196835001926 putative Mg++ binding site [ion binding]; other site 1196835001927 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 1196835001928 nucleotide binding region [chemical binding]; other site 1196835001929 ATP-binding site [chemical binding]; other site 1196835001930 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 1196835001931 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1196835001932 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 1196835001933 substrate binding pocket [chemical binding]; other site 1196835001934 membrane-bound complex binding site; other site 1196835001935 hinge residues; other site 1196835001936 short chain dehydrogenase; Provisional; Region: PRK06181 1196835001937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196835001938 NAD(P) binding site [chemical binding]; other site 1196835001939 active site 1196835001940 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 1196835001941 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1196835001942 LabA_like proteins; Region: LabA; cd10911 1196835001943 putative metal binding site [ion binding]; other site 1196835001944 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1196835001945 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 1196835001946 TPP-binding site; other site 1196835001947 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 1196835001948 PYR/PP interface [polypeptide binding]; other site 1196835001949 dimer interface [polypeptide binding]; other site 1196835001950 TPP binding site [chemical binding]; other site 1196835001951 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1196835001952 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1196835001953 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1196835001954 substrate binding pocket [chemical binding]; other site 1196835001955 chain length determination region; other site 1196835001956 substrate-Mg2+ binding site; other site 1196835001957 catalytic residues [active] 1196835001958 aspartate-rich region 1; other site 1196835001959 active site lid residues [active] 1196835001960 aspartate-rich region 2; other site 1196835001961 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1196835001962 siderophore ferric iron reductase, AHA_1954 family; Region: sidero_Fe_reduc; TIGR03950 1196835001963 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 1196835001964 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 1196835001965 IucA / IucC family; Region: IucA_IucC; pfam04183 1196835001966 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1196835001967 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1196835001968 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 1196835001969 potential frameshift: common BLAST hit: gi|386022361|ref|YP_005940386.1| putative siderophore biosynthetic protein 1196835001970 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 1196835001971 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835001972 catalytic residue [active] 1196835001973 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1196835001974 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196835001975 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 1196835001976 DNA binding residues [nucleotide binding] 1196835001977 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1196835001978 dimerization interface [polypeptide binding]; other site 1196835001979 PAS domain S-box; Region: sensory_box; TIGR00229 1196835001980 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 1196835001981 putative active site [active] 1196835001982 heme pocket [chemical binding]; other site 1196835001983 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835001984 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835001985 active site 1196835001986 I-site; other site 1196835001987 metal binding site [ion binding]; metal-binding site 1196835001988 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 1196835001989 NMT1/THI5 like; Region: NMT1; pfam09084 1196835001990 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 1196835001991 Transposase domain (DUF772); Region: DUF772; pfam05598 1196835001992 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1196835001993 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1196835001994 Cache domain; Region: Cache_1; pfam02743 1196835001995 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835001996 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835001997 metal binding site [ion binding]; metal-binding site 1196835001998 active site 1196835001999 I-site; other site 1196835002000 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 1196835002001 dimer interface [polypeptide binding]; other site 1196835002002 substrate binding site [chemical binding]; other site 1196835002003 metal binding sites [ion binding]; metal-binding site 1196835002004 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 1196835002005 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 1196835002006 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1196835002007 putative active site [active] 1196835002008 putative metal binding site [ion binding]; other site 1196835002009 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 1196835002010 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1196835002011 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1196835002012 ethanolamine permease; Region: 2A0305; TIGR00908 1196835002013 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1196835002014 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1196835002015 NAD(P) binding site [chemical binding]; other site 1196835002016 catalytic residues [active] 1196835002017 putative alcohol dehydrogenase; Provisional; Region: PRK09860 1196835002018 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1196835002019 dimer interface [polypeptide binding]; other site 1196835002020 active site 1196835002021 metal binding site [ion binding]; metal-binding site 1196835002022 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1196835002023 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1196835002024 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1196835002025 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1196835002026 aromatic acid decarboxylase; Validated; Region: PRK05920 1196835002027 Flavoprotein; Region: Flavoprotein; pfam02441 1196835002028 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 1196835002029 FtsH Extracellular; Region: FtsH_ext; pfam06480 1196835002030 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1196835002031 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 1196835002032 Walker A motif; other site 1196835002033 ATP binding site [chemical binding]; other site 1196835002034 Walker B motif; other site 1196835002035 arginine finger; other site 1196835002036 Peptidase family M41; Region: Peptidase_M41; pfam01434 1196835002037 epoxyqueuosine reductase; Region: TIGR00276 1196835002038 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1196835002039 putative carbohydrate kinase; Provisional; Region: PRK10565 1196835002040 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1196835002041 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 1196835002042 putative substrate binding site [chemical binding]; other site 1196835002043 putative ATP binding site [chemical binding]; other site 1196835002044 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1196835002045 AMIN domain; Region: AMIN; pfam11741 1196835002046 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 1196835002047 active site 1196835002048 metal binding site [ion binding]; metal-binding site 1196835002049 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1196835002050 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1196835002051 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1196835002052 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 1196835002053 ATP binding site [chemical binding]; other site 1196835002054 Mg2+ binding site [ion binding]; other site 1196835002055 G-X-G motif; other site 1196835002056 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 1196835002057 ATP binding site [chemical binding]; other site 1196835002058 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1196835002059 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1196835002060 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1196835002061 bacterial Hfq-like; Region: Hfq; cd01716 1196835002062 hexamer interface [polypeptide binding]; other site 1196835002063 Sm1 motif; other site 1196835002064 RNA binding site [nucleotide binding]; other site 1196835002065 Sm2 motif; other site 1196835002066 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1196835002067 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1196835002068 HflX GTPase family; Region: HflX; cd01878 1196835002069 G1 box; other site 1196835002070 GTP/Mg2+ binding site [chemical binding]; other site 1196835002071 Switch I region; other site 1196835002072 G2 box; other site 1196835002073 G3 box; other site 1196835002074 Switch II region; other site 1196835002075 G4 box; other site 1196835002076 G5 box; other site 1196835002077 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1196835002078 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 1196835002079 HflK protein; Region: hflK; TIGR01933 1196835002080 FtsH protease regulator HflC; Provisional; Region: PRK11029 1196835002081 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 1196835002082 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 1196835002083 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 1196835002084 dimer interface [polypeptide binding]; other site 1196835002085 motif 1; other site 1196835002086 active site 1196835002087 motif 2; other site 1196835002088 motif 3; other site 1196835002089 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1196835002090 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 1196835002091 GDP-binding site [chemical binding]; other site 1196835002092 ACT binding site; other site 1196835002093 IMP binding site; other site 1196835002094 ribonuclease R; Region: RNase_R; TIGR02063 1196835002095 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1196835002096 RNB domain; Region: RNB; pfam00773 1196835002097 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 1196835002098 RNA binding site [nucleotide binding]; other site 1196835002099 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1196835002100 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1196835002101 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1196835002102 PAS domain; Region: PAS; smart00091 1196835002103 PAS fold; Region: PAS_4; pfam08448 1196835002104 putative active site [active] 1196835002105 heme pocket [chemical binding]; other site 1196835002106 PAS fold; Region: PAS_4; pfam08448 1196835002107 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196835002108 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 1196835002109 ATP binding site [chemical binding]; other site 1196835002110 Mg2+ binding site [ion binding]; other site 1196835002111 G-X-G motif; other site 1196835002112 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835002113 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835002114 active site 1196835002115 phosphorylation site [posttranslational modification] 1196835002116 intermolecular recognition site; other site 1196835002117 dimerization interface [polypeptide binding]; other site 1196835002118 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1196835002119 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1196835002120 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1196835002121 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1196835002122 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1196835002123 replicative DNA helicase; Provisional; Region: PRK05748 1196835002124 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1196835002125 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 1196835002126 Walker A motif; other site 1196835002127 ATP binding site [chemical binding]; other site 1196835002128 Walker B motif; other site 1196835002129 DNA binding loops [nucleotide binding] 1196835002130 alanine racemase; Reviewed; Region: alr; PRK00053 1196835002131 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1196835002132 active site 1196835002133 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1196835002134 substrate binding site [chemical binding]; other site 1196835002135 catalytic residues [active] 1196835002136 dimer interface [polypeptide binding]; other site 1196835002137 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1196835002138 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1196835002139 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 1196835002140 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835002141 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835002142 metal binding site [ion binding]; metal-binding site 1196835002143 active site 1196835002144 I-site; other site 1196835002145 hypothetical protein; Provisional; Region: PRK01254 1196835002146 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1196835002147 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1196835002148 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835002149 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835002150 dimer interface [polypeptide binding]; other site 1196835002151 putative CheW interface [polypeptide binding]; other site 1196835002152 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835002153 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835002154 active site 1196835002155 phosphorylation site [posttranslational modification] 1196835002156 intermolecular recognition site; other site 1196835002157 dimerization interface [polypeptide binding]; other site 1196835002158 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835002159 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835002160 metal binding site [ion binding]; metal-binding site 1196835002161 active site 1196835002162 I-site; other site 1196835002163 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 1196835002164 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1196835002165 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835002166 active site 1196835002167 phosphorylation site [posttranslational modification] 1196835002168 intermolecular recognition site; other site 1196835002169 dimerization interface [polypeptide binding]; other site 1196835002170 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 1196835002171 Walker A motif; other site 1196835002172 ATP binding site [chemical binding]; other site 1196835002173 Walker B motif; other site 1196835002174 arginine finger; other site 1196835002175 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196835002176 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196835002177 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 1196835002178 dimer interface [polypeptide binding]; other site 1196835002179 phosphorylation site [posttranslational modification] 1196835002180 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 1196835002181 ATP binding site [chemical binding]; other site 1196835002182 Mg2+ binding site [ion binding]; other site 1196835002183 G-X-G motif; other site 1196835002184 Nuclear pore assembly and biogenesis; Region: Apq12; pfam12716 1196835002185 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1196835002186 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1196835002187 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 1196835002188 RNA binding surface [nucleotide binding]; other site 1196835002189 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1196835002190 active site 1196835002191 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1196835002192 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1196835002193 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1196835002194 Clp amino terminal domain; Region: Clp_N; pfam02861 1196835002195 Clp amino terminal domain; Region: Clp_N; pfam02861 1196835002196 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 1196835002197 Walker A motif; other site 1196835002198 ATP binding site [chemical binding]; other site 1196835002199 Walker B motif; other site 1196835002200 arginine finger; other site 1196835002201 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 1196835002202 Walker A motif; other site 1196835002203 ATP binding site [chemical binding]; other site 1196835002204 Walker B motif; other site 1196835002205 arginine finger; other site 1196835002206 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1196835002207 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1196835002208 Protein of unknown function (DUF3094); Region: DUF3094; pfam11293 1196835002209 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 1196835002210 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 1196835002211 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 1196835002212 dimerization interface [polypeptide binding]; other site 1196835002213 active site 1196835002214 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 1196835002215 Protein of unknown function (DUF1043); Region: DUF1043; pfam06295 1196835002216 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1196835002217 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 1196835002218 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1196835002219 active site 1196835002220 HIGH motif; other site 1196835002221 dimer interface [polypeptide binding]; other site 1196835002222 KMSKS motif; other site 1196835002223 Predicted ATPase [General function prediction only]; Region: COG1485 1196835002224 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1196835002225 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1196835002226 conserved cys residue [active] 1196835002227 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835002228 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835002229 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 1196835002230 Active_site [active] 1196835002231 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1196835002232 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1196835002233 amidase catalytic site [active] 1196835002234 Zn binding residues [ion binding]; other site 1196835002235 substrate binding site [chemical binding]; other site 1196835002236 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 1196835002237 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 1196835002238 dimerization interface [polypeptide binding]; other site 1196835002239 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835002240 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835002241 dimer interface [polypeptide binding]; other site 1196835002242 putative CheW interface [polypeptide binding]; other site 1196835002243 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1196835002244 active site 1196835002245 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1196835002246 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1196835002247 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835002248 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1196835002249 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 1196835002250 DNA binding site [nucleotide binding] 1196835002251 active site 1196835002252 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 1196835002253 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 1196835002254 ATP binding site [chemical binding]; other site 1196835002255 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1196835002256 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1196835002257 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1196835002258 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196835002259 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 1196835002260 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1196835002261 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1196835002262 heme binding site [chemical binding]; other site 1196835002263 ferroxidase pore; other site 1196835002264 ferroxidase diiron center [ion binding]; other site 1196835002265 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1196835002266 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 1196835002267 dimerization interface [polypeptide binding]; other site 1196835002268 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835002269 dimer interface [polypeptide binding]; other site 1196835002270 putative CheW interface [polypeptide binding]; other site 1196835002271 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1196835002272 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1196835002273 DNA binding residues [nucleotide binding] 1196835002274 dimer interface [polypeptide binding]; other site 1196835002275 copper binding site [ion binding]; other site 1196835002276 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 1196835002277 metal-binding site [ion binding] 1196835002278 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1196835002279 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 1196835002280 metal-binding site [ion binding] 1196835002281 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1196835002282 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1196835002283 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 1196835002284 metal-binding site [ion binding] 1196835002285 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1196835002286 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196835002287 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1196835002288 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 1196835002289 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1196835002290 putative substrate translocation pore; other site 1196835002291 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1196835002292 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 1196835002293 active site 1196835002294 purine riboside binding site [chemical binding]; other site 1196835002295 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1196835002296 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1196835002297 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 1196835002298 dimerization interface [polypeptide binding]; other site 1196835002299 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 1196835002300 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1196835002301 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1196835002302 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1196835002303 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1196835002304 pyrimidine utilization flavin reductase protein F; Region: RutF; TIGR03615 1196835002305 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 1196835002306 putative FMN binding site [chemical binding]; other site 1196835002307 pyrimidine utilization protein D; Region: RutD; TIGR03611 1196835002308 Serine hydrolase (FSH1); Region: FSH1; pfam03959 1196835002309 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 1196835002310 homotrimer interaction site [polypeptide binding]; other site 1196835002311 putative active site [active] 1196835002312 Isochorismatase family; Region: Isochorismatase; pfam00857 1196835002313 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 1196835002314 catalytic triad [active] 1196835002315 conserved cis-peptide bond; other site 1196835002316 pyrimidine utilization protein A; Region: RutA; TIGR03612 1196835002317 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1196835002318 active site 1196835002319 dimer interface [polypeptide binding]; other site 1196835002320 non-prolyl cis peptide bond; other site 1196835002321 insertion regions; other site 1196835002322 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1196835002323 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196835002324 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1196835002325 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 1196835002326 active site 1196835002327 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 1196835002328 GIY-YIG motif/motif A; other site 1196835002329 active site 1196835002330 catalytic site [active] 1196835002331 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1196835002332 conserved cys residue [active] 1196835002333 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 1196835002334 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196835002335 putative substrate translocation pore; other site 1196835002336 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1196835002337 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1196835002338 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1196835002339 N-terminal domain interface [polypeptide binding]; other site 1196835002340 dimer interface [polypeptide binding]; other site 1196835002341 substrate binding pocket (H-site) [chemical binding]; other site 1196835002342 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196835002343 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196835002344 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1196835002345 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1196835002346 FMN binding site [chemical binding]; other site 1196835002347 active site 1196835002348 substrate binding site [chemical binding]; other site 1196835002349 catalytic residue [active] 1196835002350 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 1196835002351 dimerization interface [polypeptide binding]; other site 1196835002352 putative DNA binding site [nucleotide binding]; other site 1196835002353 putative Zn2+ binding site [ion binding]; other site 1196835002354 Helix-turn-helix domain; Region: HTH_18; pfam12833 1196835002355 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835002356 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1196835002357 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1196835002358 Domain of unknown function DUF21; Region: DUF21; pfam01595 1196835002359 FOG: CBS domain [General function prediction only]; Region: COG0517 1196835002360 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 1196835002361 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 1196835002362 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 1196835002363 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1196835002364 putative metal binding site [ion binding]; other site 1196835002365 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1196835002366 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 1196835002367 oxidase reductase; Provisional; Region: PTZ00273 1196835002368 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1196835002369 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1196835002370 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 1196835002371 active site 1196835002372 metal binding site [ion binding]; metal-binding site 1196835002373 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1196835002374 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 1196835002375 putative ligand binding site [chemical binding]; other site 1196835002376 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1196835002377 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1196835002378 Walker A/P-loop; other site 1196835002379 ATP binding site [chemical binding]; other site 1196835002380 Q-loop/lid; other site 1196835002381 ABC transporter signature motif; other site 1196835002382 Walker B; other site 1196835002383 D-loop; other site 1196835002384 H-loop/switch region; other site 1196835002385 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1196835002386 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1196835002387 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 1196835002388 TM-ABC transporter signature motif; other site 1196835002389 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1196835002390 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 1196835002391 TM-ABC transporter signature motif; other site 1196835002392 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 1196835002393 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196835002394 substrate binding pocket [chemical binding]; other site 1196835002395 membrane-bound complex binding site; other site 1196835002396 hinge residues; other site 1196835002397 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835002398 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835002399 metal binding site [ion binding]; metal-binding site 1196835002400 active site 1196835002401 I-site; other site 1196835002402 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 1196835002403 putative metal binding site [ion binding]; other site 1196835002404 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1196835002405 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 1196835002406 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 1196835002407 DNA-binding site [nucleotide binding]; DNA binding site 1196835002408 RNA-binding motif; other site 1196835002409 Predicted membrane protein [Function unknown]; Region: COG3326 1196835002410 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1196835002411 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1196835002412 PhnA protein; Region: PhnA; pfam03831 1196835002413 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 1196835002414 Cytochrome c; Region: Cytochrom_C; cl11414 1196835002415 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1196835002416 Cytochrome c; Region: Cytochrom_C; cl11414 1196835002417 cytosine deaminase; Provisional; Region: PRK09230 1196835002418 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1196835002419 active site 1196835002420 cytosine permease; Provisional; Region: codB; PRK11017 1196835002421 Na binding site [ion binding]; other site 1196835002422 cyanate hydratase; Validated; Region: PRK02866 1196835002423 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 1196835002424 oligomer interface [polypeptide binding]; other site 1196835002425 active site 1196835002426 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1196835002427 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1196835002428 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 1196835002429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835002430 homodimer interface [polypeptide binding]; other site 1196835002431 catalytic residue [active] 1196835002432 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 1196835002433 aromatic arch; other site 1196835002434 DCoH dimer interaction site [polypeptide binding]; other site 1196835002435 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1196835002436 DCoH tetramer interaction site [polypeptide binding]; other site 1196835002437 substrate binding site [chemical binding]; other site 1196835002438 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 1196835002439 cofactor binding site; other site 1196835002440 metal binding site [ion binding]; metal-binding site 1196835002441 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1196835002442 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1196835002443 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 1196835002444 putative active site [active] 1196835002445 heme pocket [chemical binding]; other site 1196835002446 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 1196835002447 Walker A motif; other site 1196835002448 ATP binding site [chemical binding]; other site 1196835002449 Walker B motif; other site 1196835002450 arginine finger; other site 1196835002451 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 1196835002452 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1196835002453 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1196835002454 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1196835002455 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1196835002456 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1196835002457 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1196835002458 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1196835002459 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1196835002460 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1196835002461 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1196835002462 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1196835002463 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 1196835002464 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1196835002465 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196835002466 active site 1196835002467 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 1196835002468 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1196835002469 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1196835002470 nitrous-oxide reductase; Validated; Region: PRK02888 1196835002471 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1196835002472 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 1196835002473 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1196835002474 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1196835002475 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1196835002476 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835002477 Walker A/P-loop; other site 1196835002478 ATP binding site [chemical binding]; other site 1196835002479 Q-loop/lid; other site 1196835002480 ABC transporter signature motif; other site 1196835002481 Walker B; other site 1196835002482 D-loop; other site 1196835002483 H-loop/switch region; other site 1196835002484 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1196835002485 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1196835002486 NosL; Region: NosL; pfam05573 1196835002487 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1196835002488 NnrS protein; Region: NnrS; pfam05940 1196835002489 short chain dehydrogenase; Provisional; Region: PRK06500 1196835002490 classical (c) SDRs; Region: SDR_c; cd05233 1196835002491 NAD(P) binding site [chemical binding]; other site 1196835002492 active site 1196835002493 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835002494 dimer interface [polypeptide binding]; other site 1196835002495 putative CheW interface [polypeptide binding]; other site 1196835002496 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 1196835002497 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1196835002498 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 1196835002499 Putative water exit pathway; other site 1196835002500 Binuclear center (active site) [active] 1196835002501 Putative proton exit pathway; other site 1196835002502 Low-spin heme binding site [chemical binding]; other site 1196835002503 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 1196835002504 HPP family; Region: HPP; pfam04982 1196835002505 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 1196835002506 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 1196835002507 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835002508 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835002509 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 1196835002510 dimerization interface [polypeptide binding]; other site 1196835002511 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1196835002512 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1196835002513 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 1196835002514 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1196835002515 structural tetrad; other site 1196835002516 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1196835002517 active site 1196835002518 SAM binding site [chemical binding]; other site 1196835002519 homodimer interface [polypeptide binding]; other site 1196835002520 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 1196835002521 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 1196835002522 FeS/SAM binding site; other site 1196835002523 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1196835002524 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 1196835002525 Subunit I/III interface [polypeptide binding]; other site 1196835002526 MoxR-like ATPases [General function prediction only]; Region: COG0714 1196835002527 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 1196835002528 Walker A motif; other site 1196835002529 ATP binding site [chemical binding]; other site 1196835002530 Walker B motif; other site 1196835002531 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 1196835002532 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1196835002533 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1196835002534 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 1196835002535 Cytochrome c; Region: Cytochrom_C; cl11414 1196835002536 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1196835002537 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1196835002538 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 1196835002539 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1196835002540 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1196835002541 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1196835002542 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1196835002543 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1196835002544 Cytochrome c; Region: Cytochrom_C; pfam00034 1196835002545 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1196835002546 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1196835002547 Low-spin heme binding site [chemical binding]; other site 1196835002548 D-pathway; other site 1196835002549 K-pathway; other site 1196835002550 Binuclear center (active site) [active] 1196835002551 Putative proton exit pathway; other site 1196835002552 Putative water exit pathway; other site 1196835002553 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 1196835002554 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 1196835002555 metal ion-dependent adhesion site (MIDAS); other site 1196835002556 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 1196835002557 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1196835002558 Maltose operon periplasmic protein precursor (MalM); Region: MalM; cl11647 1196835002559 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 1196835002560 trimer interface; other site 1196835002561 sugar binding site [chemical binding]; other site 1196835002562 Alpha amylase catalytic domain found in archaeal, bacterial, and plant Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_plant_AmyA; cd11314 1196835002563 active site 1196835002564 Ca binding site [ion binding]; other site 1196835002565 catalytic site [active] 1196835002566 Domain of unknown function (DUF1921); Region: DUF1921; pfam09081 1196835002567 Glucan 1,4-alpha-maltotetraohydrolase (alpha-MTH), C-terminal CBM20 (carbohydrate-binding module, family 20) domain. Alpha-MTH, also known as maltotetraose-forming exo-amylase or G4-amylase, is an exo-amylase found in bacteria that degrades starch from...; Region: CBM20_alpha_MTH; cd05810 1196835002568 starch-binding site 2 [chemical binding]; other site 1196835002569 starch-binding site 1 [chemical binding]; other site 1196835002570 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1196835002571 HAMP domain; Region: HAMP; pfam00672 1196835002572 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835002573 dimer interface [polypeptide binding]; other site 1196835002574 putative CheW interface [polypeptide binding]; other site 1196835002575 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 1196835002576 active site 1196835002577 substrate binding site [chemical binding]; other site 1196835002578 ATP binding site [chemical binding]; other site 1196835002579 alpha-amylase; Reviewed; Region: malS; PRK09505 1196835002580 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1196835002581 active site 1196835002582 catalytic site [active] 1196835002583 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 1196835002584 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1196835002585 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835002586 dimer interface [polypeptide binding]; other site 1196835002587 conserved gate region; other site 1196835002588 putative PBP binding loops; other site 1196835002589 ABC-ATPase subunit interface; other site 1196835002590 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1196835002591 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835002592 dimer interface [polypeptide binding]; other site 1196835002593 conserved gate region; other site 1196835002594 putative PBP binding loops; other site 1196835002595 ABC-ATPase subunit interface; other site 1196835002596 transcriptional regulator MalT; Provisional; Region: PRK04841 1196835002597 AAA ATPase domain; Region: AAA_16; pfam13191 1196835002598 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 1196835002599 DNA binding residues [nucleotide binding] 1196835002600 dimerization interface [polypeptide binding]; other site 1196835002601 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1196835002602 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1196835002603 C-terminal domain interface [polypeptide binding]; other site 1196835002604 GSH binding site (G-site) [chemical binding]; other site 1196835002605 dimer interface [polypeptide binding]; other site 1196835002606 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1196835002607 N-terminal domain interface [polypeptide binding]; other site 1196835002608 dimer interface [polypeptide binding]; other site 1196835002609 substrate binding pocket (H-site) [chemical binding]; other site 1196835002610 maltose O-acetyltransferase; Provisional; Region: PRK10092 1196835002611 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1196835002612 active site 1196835002613 substrate binding site [chemical binding]; other site 1196835002614 trimer interface [polypeptide binding]; other site 1196835002615 CoA binding site [chemical binding]; other site 1196835002616 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 1196835002617 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1196835002618 active site 1196835002619 catalytic site [active] 1196835002620 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1196835002621 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 1196835002622 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1196835002623 Walker A/P-loop; other site 1196835002624 ATP binding site [chemical binding]; other site 1196835002625 Q-loop/lid; other site 1196835002626 ABC transporter signature motif; other site 1196835002627 Walker B; other site 1196835002628 D-loop; other site 1196835002629 H-loop/switch region; other site 1196835002630 TOBE domain; Region: TOBE_2; pfam08402 1196835002631 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1196835002632 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 1196835002633 nudix motif; other site 1196835002634 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1196835002635 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1196835002636 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1196835002637 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1196835002638 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1196835002639 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1196835002640 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 1196835002641 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 1196835002642 Fic family protein [Function unknown]; Region: COG3177 1196835002643 Fic/DOC family; Region: Fic; pfam02661 1196835002644 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1196835002645 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1196835002646 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1196835002647 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 1196835002648 ATP binding site [chemical binding]; other site 1196835002649 putative Mg++ binding site [ion binding]; other site 1196835002650 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1196835002651 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1196835002652 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 1196835002653 integrase; Provisional; Region: PRK09692 1196835002654 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1196835002655 active site 1196835002656 Int/Topo IB signature motif; other site 1196835002657 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1196835002658 FAD binding domain; Region: FAD_binding_4; pfam01565 1196835002659 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 1196835002660 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1196835002661 Cysteine-rich domain; Region: CCG; pfam02754 1196835002662 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1196835002663 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1196835002664 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1196835002665 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 1196835002666 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1196835002667 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1196835002668 Cysteine-rich domain; Region: CCG; pfam02754 1196835002669 Cysteine-rich domain; Region: CCG; pfam02754 1196835002670 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1196835002671 L-lactate permease; Region: Lactate_perm; cl00701 1196835002672 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1196835002673 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196835002674 DNA-binding site [nucleotide binding]; DNA binding site 1196835002675 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1196835002676 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 1196835002677 SmpB-tmRNA interface; other site 1196835002678 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1196835002679 putative coenzyme Q binding site [chemical binding]; other site 1196835002680 RnfH family Ubiquitin; Region: Ub-RnfH; pfam03658 1196835002681 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1196835002682 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1196835002683 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1196835002684 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1196835002685 metal binding site 2 [ion binding]; metal-binding site 1196835002686 putative DNA binding helix; other site 1196835002687 metal binding site 1 [ion binding]; metal-binding site 1196835002688 dimer interface [polypeptide binding]; other site 1196835002689 structural Zn2+ binding site [ion binding]; other site 1196835002690 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1196835002691 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1196835002692 Walker A/P-loop; other site 1196835002693 ATP binding site [chemical binding]; other site 1196835002694 Q-loop/lid; other site 1196835002695 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1196835002696 ABC transporter signature motif; other site 1196835002697 Walker B; other site 1196835002698 D-loop; other site 1196835002699 H-loop/switch region; other site 1196835002700 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 1196835002701 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 1196835002702 dimer interface [polypeptide binding]; other site 1196835002703 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1196835002704 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1196835002705 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1196835002706 nucleotide binding site [chemical binding]; other site 1196835002707 chaperone protein DnaJ; Provisional; Region: PRK10767 1196835002708 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 1196835002709 HSP70 interaction site [polypeptide binding]; other site 1196835002710 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1196835002711 substrate binding site [polypeptide binding]; other site 1196835002712 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1196835002713 Zn binding sites [ion binding]; other site 1196835002714 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1196835002715 dimer interface [polypeptide binding]; other site 1196835002716 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1196835002717 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1196835002718 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1196835002719 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1196835002720 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1196835002721 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1196835002722 catalytic site [active] 1196835002723 subunit interface [polypeptide binding]; other site 1196835002724 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1196835002725 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1196835002726 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1196835002727 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1196835002728 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1196835002729 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1196835002730 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 1196835002731 IMP binding site; other site 1196835002732 dimer interface [polypeptide binding]; other site 1196835002733 interdomain contacts; other site 1196835002734 partial ornithine binding site; other site 1196835002735 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1196835002736 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1196835002737 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1196835002738 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 1196835002739 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 1196835002740 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 1196835002741 Walker A motif; other site 1196835002742 ATP binding site [chemical binding]; other site 1196835002743 Walker B motif; other site 1196835002744 arginine finger; other site 1196835002745 Peptidase family M41; Region: Peptidase_M41; pfam01434 1196835002746 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 1196835002747 dihydropteroate synthase; Region: DHPS; TIGR01496 1196835002748 substrate binding pocket [chemical binding]; other site 1196835002749 dimer interface [polypeptide binding]; other site 1196835002750 inhibitor binding site; inhibition site 1196835002751 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1196835002752 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 1196835002753 active site 1196835002754 substrate binding site [chemical binding]; other site 1196835002755 metal binding site [ion binding]; metal-binding site 1196835002756 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 1196835002757 triosephosphate isomerase; Provisional; Region: PRK14567 1196835002758 substrate binding site [chemical binding]; other site 1196835002759 dimer interface [polypeptide binding]; other site 1196835002760 catalytic triad [active] 1196835002761 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1196835002762 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1196835002763 Sm and related proteins; Region: Sm_like; cl00259 1196835002764 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1196835002765 putative oligomer interface [polypeptide binding]; other site 1196835002766 putative RNA binding site [nucleotide binding]; other site 1196835002767 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1196835002768 NusA N-terminal domain; Region: NusA_N; pfam08529 1196835002769 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 1196835002770 RNA binding site [nucleotide binding]; other site 1196835002771 homodimer interface [polypeptide binding]; other site 1196835002772 NusA-like KH domain; Region: KH_5; pfam13184 1196835002773 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 1196835002774 G-X-X-G motif; other site 1196835002775 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1196835002776 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1196835002777 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1196835002778 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1196835002779 translation initiation factor IF-2; Region: IF-2; TIGR00487 1196835002780 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1196835002781 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1196835002782 G1 box; other site 1196835002783 putative GEF interaction site [polypeptide binding]; other site 1196835002784 GTP/Mg2+ binding site [chemical binding]; other site 1196835002785 Switch I region; other site 1196835002786 G2 box; other site 1196835002787 G3 box; other site 1196835002788 Switch II region; other site 1196835002789 G4 box; other site 1196835002790 G5 box; other site 1196835002791 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 1196835002792 Translation-initiation factor 2; Region: IF-2; pfam11987 1196835002793 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 1196835002794 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1196835002795 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1196835002796 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1196835002797 RNA binding site [nucleotide binding]; other site 1196835002798 active site 1196835002799 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1196835002800 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 1196835002801 16S/18S rRNA binding site [nucleotide binding]; other site 1196835002802 S13e-L30e interaction site [polypeptide binding]; other site 1196835002803 25S rRNA binding site [nucleotide binding]; other site 1196835002804 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1196835002805 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1196835002806 RNase E interface [polypeptide binding]; other site 1196835002807 trimer interface [polypeptide binding]; other site 1196835002808 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1196835002809 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1196835002810 RNase E interface [polypeptide binding]; other site 1196835002811 trimer interface [polypeptide binding]; other site 1196835002812 active site 1196835002813 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 1196835002814 putative nucleic acid binding region [nucleotide binding]; other site 1196835002815 G-X-X-G motif; other site 1196835002816 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 1196835002817 RNA binding site [nucleotide binding]; other site 1196835002818 domain interface; other site 1196835002819 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1196835002820 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 1196835002821 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 1196835002822 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1196835002823 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1196835002824 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1196835002825 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1196835002826 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1196835002827 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1196835002828 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 1196835002829 putative RNA binding site [nucleotide binding]; other site 1196835002830 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 1196835002831 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1196835002832 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 1196835002833 active site 1196835002834 dimer interface [polypeptide binding]; other site 1196835002835 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 1196835002836 dimer interface [polypeptide binding]; other site 1196835002837 active site 1196835002838 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1196835002839 tetramerization interface [polypeptide binding]; other site 1196835002840 active site 1196835002841 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1196835002842 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1196835002843 active site 1196835002844 ATP-binding site [chemical binding]; other site 1196835002845 pantoate-binding site; other site 1196835002846 HXXH motif; other site 1196835002847 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 1196835002848 oligomerization interface [polypeptide binding]; other site 1196835002849 active site 1196835002850 metal binding site [ion binding]; metal-binding site 1196835002851 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 1196835002852 catalytic center binding site [active] 1196835002853 ATP binding site [chemical binding]; other site 1196835002854 poly(A) polymerase; Region: pcnB; TIGR01942 1196835002855 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1196835002856 active site 1196835002857 NTP binding site [chemical binding]; other site 1196835002858 metal binding triad [ion binding]; metal-binding site 1196835002859 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1196835002860 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1196835002861 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1196835002862 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835002863 active site 1196835002864 phosphorylation site [posttranslational modification] 1196835002865 intermolecular recognition site; other site 1196835002866 dimerization interface [polypeptide binding]; other site 1196835002867 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 1196835002868 Walker A motif; other site 1196835002869 ATP binding site [chemical binding]; other site 1196835002870 Walker B motif; other site 1196835002871 arginine finger; other site 1196835002872 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1196835002873 Na binding site [ion binding]; other site 1196835002874 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196835002875 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 1196835002876 dimer interface [polypeptide binding]; other site 1196835002877 phosphorylation site [posttranslational modification] 1196835002878 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 1196835002879 ATP binding site [chemical binding]; other site 1196835002880 Mg2+ binding site [ion binding]; other site 1196835002881 G-X-G motif; other site 1196835002882 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 1196835002883 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1196835002884 active site 1196835002885 nucleotide binding site [chemical binding]; other site 1196835002886 HIGH motif; other site 1196835002887 KMSKS motif; other site 1196835002888 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1196835002889 hypothetical protein; Provisional; Region: PRK08960 1196835002890 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 1196835002891 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835002892 homodimer interface [polypeptide binding]; other site 1196835002893 catalytic residue [active] 1196835002894 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1196835002895 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1196835002896 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1196835002897 NADP binding site [chemical binding]; other site 1196835002898 active site 1196835002899 putative substrate binding site [chemical binding]; other site 1196835002900 Membrane transport protein; Region: Mem_trans; cl09117 1196835002901 Predicted integral membrane protein [Function unknown]; Region: COG0392 1196835002902 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1196835002903 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1196835002904 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 1196835002905 dimer interface [polypeptide binding]; other site 1196835002906 phosphorylation site [posttranslational modification] 1196835002907 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 1196835002908 ATP binding site [chemical binding]; other site 1196835002909 Mg2+ binding site [ion binding]; other site 1196835002910 G-X-G motif; other site 1196835002911 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835002912 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835002913 active site 1196835002914 phosphorylation site [posttranslational modification] 1196835002915 intermolecular recognition site; other site 1196835002916 dimerization interface [polypeptide binding]; other site 1196835002917 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835002918 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835002919 active site 1196835002920 phosphorylation site [posttranslational modification] 1196835002921 intermolecular recognition site; other site 1196835002922 dimerization interface [polypeptide binding]; other site 1196835002923 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1196835002924 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1196835002925 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1196835002926 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1196835002927 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1196835002928 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 1196835002929 purine monophosphate binding site [chemical binding]; other site 1196835002930 dimer interface [polypeptide binding]; other site 1196835002931 putative catalytic residues [active] 1196835002932 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1196835002933 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1196835002934 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 1196835002935 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1196835002936 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1196835002937 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 1196835002938 FMN binding site [chemical binding]; other site 1196835002939 active site 1196835002940 catalytic residues [active] 1196835002941 substrate binding site [chemical binding]; other site 1196835002942 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 1196835002943 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 1196835002944 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1196835002945 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 1196835002946 S-adenosylmethionine binding site [chemical binding]; other site 1196835002947 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1196835002948 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1196835002949 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1196835002950 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1196835002951 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1196835002952 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 1196835002953 carboxyltransferase (CT) interaction site; other site 1196835002954 biotinylation site [posttranslational modification]; other site 1196835002955 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 1196835002956 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1196835002957 trimer interface [polypeptide binding]; other site 1196835002958 active site 1196835002959 dimer interface [polypeptide binding]; other site 1196835002960 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1196835002961 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1196835002962 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 1196835002963 DsbD alpha interface [polypeptide binding]; other site 1196835002964 catalytic residues [active] 1196835002965 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 1196835002966 iron-sulfur cluster [ion binding]; other site 1196835002967 [2Fe-2S] cluster binding site [ion binding]; other site 1196835002968 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1196835002969 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 1196835002970 ABC-ATPase subunit interface; other site 1196835002971 dimer interface [polypeptide binding]; other site 1196835002972 putative PBP binding regions; other site 1196835002973 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1196835002974 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1196835002975 Walker A/P-loop; other site 1196835002976 ATP binding site [chemical binding]; other site 1196835002977 Q-loop/lid; other site 1196835002978 ABC transporter signature motif; other site 1196835002979 Walker B; other site 1196835002980 D-loop; other site 1196835002981 H-loop/switch region; other site 1196835002982 Protein of unknown function, DUF399; Region: DUF399; cl01139 1196835002983 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 1196835002984 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1196835002985 ligand binding site [chemical binding]; other site 1196835002986 flexible hinge region; other site 1196835002987 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1196835002988 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 1196835002989 S-adenosylmethionine binding site [chemical binding]; other site 1196835002990 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 1196835002991 AAA domain; Region: AAA_33; pfam13671 1196835002992 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 1196835002993 active site 1196835002994 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1196835002995 Transglycosylase; Region: Transgly; pfam00912 1196835002996 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1196835002997 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 1196835002998 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 1196835002999 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1196835003000 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 1196835003001 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1196835003002 PYR/PP interface [polypeptide binding]; other site 1196835003003 dimer interface [polypeptide binding]; other site 1196835003004 TPP binding site [chemical binding]; other site 1196835003005 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1196835003006 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 1196835003007 TPP-binding site [chemical binding]; other site 1196835003008 dimer interface [polypeptide binding]; other site 1196835003009 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1196835003010 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1196835003011 putative valine binding site [chemical binding]; other site 1196835003012 dimer interface [polypeptide binding]; other site 1196835003013 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1196835003014 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1196835003015 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1196835003016 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1196835003017 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1196835003018 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1196835003019 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1196835003020 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 1196835003021 Moco binding site; other site 1196835003022 metal coordination site [ion binding]; other site 1196835003023 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1196835003024 Paraquat-inducible protein A; Region: PqiA; pfam04403 1196835003025 Paraquat-inducible protein A; Region: PqiA; pfam04403 1196835003026 mce related protein; Region: MCE; pfam02470 1196835003027 mce related protein; Region: MCE; pfam02470 1196835003028 mce related protein; Region: MCE; pfam02470 1196835003029 mce related protein; Region: MCE; pfam02470 1196835003030 mce related protein; Region: MCE; pfam02470 1196835003031 mce related protein; Region: MCE; pfam02470 1196835003032 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 1196835003033 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1196835003034 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1196835003035 dimer interface [polypeptide binding]; other site 1196835003036 active site 1196835003037 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1196835003038 catalytic residues [active] 1196835003039 substrate binding site [chemical binding]; other site 1196835003040 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1196835003041 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1196835003042 NAD(P) binding site [chemical binding]; other site 1196835003043 2-isopropylmalate synthase; Validated; Region: PRK00915 1196835003044 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1196835003045 active site 1196835003046 catalytic residues [active] 1196835003047 metal binding site [ion binding]; metal-binding site 1196835003048 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1196835003049 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1196835003050 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196835003051 Coenzyme A binding pocket [chemical binding]; other site 1196835003052 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 1196835003053 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 1196835003054 active site 1196835003055 motif I; other site 1196835003056 motif II; other site 1196835003057 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 1196835003058 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 1196835003059 active site 1196835003060 homotetramer interface [polypeptide binding]; other site 1196835003061 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 1196835003062 active site clefts [active] 1196835003063 zinc binding site [ion binding]; other site 1196835003064 dimer interface [polypeptide binding]; other site 1196835003065 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1196835003066 EamA-like transporter family; Region: EamA; pfam00892 1196835003067 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 1196835003068 AAA domain; Region: AAA_13; pfam13166 1196835003069 outer membrane porin, OprD family; Region: OprD; pfam03573 1196835003070 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 1196835003071 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 1196835003072 dimerization interface [polypeptide binding]; other site 1196835003073 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835003074 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835003075 dimer interface [polypeptide binding]; other site 1196835003076 putative CheW interface [polypeptide binding]; other site 1196835003077 Tannase and feruloyl esterase; Region: Tannase; pfam07519 1196835003078 Predicted membrane protein [Function unknown]; Region: COG2259 1196835003079 PAS fold; Region: PAS_4; pfam08448 1196835003080 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1196835003081 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 1196835003082 Walker A motif; other site 1196835003083 ATP binding site [chemical binding]; other site 1196835003084 Walker B motif; other site 1196835003085 arginine finger; other site 1196835003086 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196835003087 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1196835003088 DctM-like transporters; Region: DctM; pfam06808 1196835003089 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1196835003090 potential frameshift: common BLAST hit: gi|386021965|ref|YP_005939990.1| transporter, periplasmic protein 1196835003091 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1196835003092 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1196835003093 DNA binding residues [nucleotide binding] 1196835003094 putative dimer interface [polypeptide binding]; other site 1196835003095 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 1196835003096 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1196835003097 dimer interface [polypeptide binding]; other site 1196835003098 active site 1196835003099 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1196835003100 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1196835003101 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1196835003102 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1196835003103 active site 1196835003104 catalytic residues [active] 1196835003105 metal binding site [ion binding]; metal-binding site 1196835003106 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1196835003107 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1196835003108 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1196835003109 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1196835003110 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 1196835003111 carboxyltransferase (CT) interaction site; other site 1196835003112 biotinylation site [posttranslational modification]; other site 1196835003113 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 1196835003114 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1196835003115 substrate binding site [chemical binding]; other site 1196835003116 oxyanion hole (OAH) forming residues; other site 1196835003117 trimer interface [polypeptide binding]; other site 1196835003118 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1196835003119 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1196835003120 isovaleryl-CoA dehydrogenase; Region: PLN02519 1196835003121 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1196835003122 substrate binding site [chemical binding]; other site 1196835003123 FAD binding site [chemical binding]; other site 1196835003124 catalytic base [active] 1196835003125 UV-endonuclease UvdE; Region: UvdE; cl10036 1196835003126 AMP-binding domain protein; Validated; Region: PRK08315 1196835003127 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1196835003128 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1196835003129 acyl-activating enzyme (AAE) consensus motif; other site 1196835003130 putative AMP binding site [chemical binding]; other site 1196835003131 putative active site [active] 1196835003132 putative CoA binding site [chemical binding]; other site 1196835003133 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1196835003134 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1196835003135 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 1196835003136 outer membrane porin, OprD family; Region: OprD; pfam03573 1196835003137 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1196835003138 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1196835003139 Walker A/P-loop; other site 1196835003140 ATP binding site [chemical binding]; other site 1196835003141 Q-loop/lid; other site 1196835003142 ABC transporter signature motif; other site 1196835003143 Walker B; other site 1196835003144 D-loop; other site 1196835003145 H-loop/switch region; other site 1196835003146 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1196835003147 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1196835003148 Walker A/P-loop; other site 1196835003149 ATP binding site [chemical binding]; other site 1196835003150 Q-loop/lid; other site 1196835003151 ABC transporter signature motif; other site 1196835003152 Walker B; other site 1196835003153 D-loop; other site 1196835003154 H-loop/switch region; other site 1196835003155 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1196835003156 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1196835003157 putative ligand binding site [chemical binding]; other site 1196835003158 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 1196835003159 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1196835003160 TM-ABC transporter signature motif; other site 1196835003161 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 1196835003162 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1196835003163 TM-ABC transporter signature motif; other site 1196835003164 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 1196835003165 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 1196835003166 active site 1196835003167 catalytic residues [active] 1196835003168 DNA binding site [nucleotide binding] 1196835003169 Int/Topo IB signature motif; other site 1196835003170 DNA binding domain, excisionase family; Region: excise; TIGR01764 1196835003171 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1196835003172 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1196835003173 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 1196835003174 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 1196835003175 putative Mg++ binding site [ion binding]; other site 1196835003176 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1196835003177 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1196835003178 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1196835003179 AAA domain; Region: AAA_13; pfam13166 1196835003180 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1196835003181 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1196835003182 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 1196835003183 S-adenosylmethionine binding site [chemical binding]; other site 1196835003184 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1196835003185 integrase; Provisional; Region: PRK09692 1196835003186 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1196835003187 active site 1196835003188 Int/Topo IB signature motif; other site 1196835003189 GTP-binding protein YchF; Reviewed; Region: PRK09601 1196835003190 YchF GTPase; Region: YchF; cd01900 1196835003191 G1 box; other site 1196835003192 GTP/Mg2+ binding site [chemical binding]; other site 1196835003193 Switch I region; other site 1196835003194 G2 box; other site 1196835003195 Switch II region; other site 1196835003196 G3 box; other site 1196835003197 G4 box; other site 1196835003198 G5 box; other site 1196835003199 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 1196835003200 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 1196835003201 putative active site [active] 1196835003202 catalytic residue [active] 1196835003203 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1196835003204 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1196835003205 5S rRNA interface [nucleotide binding]; other site 1196835003206 CTC domain interface [polypeptide binding]; other site 1196835003207 L16 interface [polypeptide binding]; other site 1196835003208 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1196835003209 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1196835003210 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1196835003211 active site 1196835003212 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1196835003213 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1196835003214 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1196835003215 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1196835003216 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 1196835003217 TPR motif; other site 1196835003218 binding surface 1196835003219 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 1196835003220 binding surface 1196835003221 TPR motif; other site 1196835003222 TPR repeat; Region: TPR_11; pfam13414 1196835003223 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 1196835003224 binding surface 1196835003225 TPR motif; other site 1196835003226 TPR repeat; Region: TPR_11; pfam13414 1196835003227 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1196835003228 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1196835003229 tRNA; other site 1196835003230 putative tRNA binding site [nucleotide binding]; other site 1196835003231 putative NADP binding site [chemical binding]; other site 1196835003232 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1196835003233 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1196835003234 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1196835003235 RF-1 domain; Region: RF-1; pfam00472 1196835003236 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1196835003237 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 1196835003238 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1196835003239 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 1196835003240 ATP binding site [chemical binding]; other site 1196835003241 substrate interface [chemical binding]; other site 1196835003242 glutamate racemase; Provisional; Region: PRK00865 1196835003243 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1196835003244 Flagellin N-methylase; Region: FliB; pfam03692 1196835003245 uracil-xanthine permease; Region: ncs2; TIGR00801 1196835003246 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1196835003247 active site 1196835003248 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1196835003249 active site 1196835003250 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1196835003251 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1196835003252 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1196835003253 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 1196835003254 DNA binding residues [nucleotide binding] 1196835003255 dimerization interface [polypeptide binding]; other site 1196835003256 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1196835003257 YebG protein; Region: YebG; cl01217 1196835003258 Protein of unknown function (DUF721); Region: DUF721; cl02324 1196835003259 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13103 1196835003260 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1196835003261 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1196835003262 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; cl17351 1196835003263 nucleotide binding region [chemical binding]; other site 1196835003264 ATP-binding site [chemical binding]; other site 1196835003265 SEC-C motif; Region: SEC-C; pfam02810 1196835003266 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 1196835003267 heterotetramer interface [polypeptide binding]; other site 1196835003268 active site pocket [active] 1196835003269 cleavage site 1196835003270 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 1196835003271 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1196835003272 putative C-terminal domain interface [polypeptide binding]; other site 1196835003273 putative GSH binding site (G-site) [chemical binding]; other site 1196835003274 putative dimer interface [polypeptide binding]; other site 1196835003275 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1196835003276 putative N-terminal domain interface [polypeptide binding]; other site 1196835003277 putative dimer interface [polypeptide binding]; other site 1196835003278 putative substrate binding pocket (H-site) [chemical binding]; other site 1196835003279 hypothetical protein; Provisional; Region: PRK08999 1196835003280 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 1196835003281 active site 1196835003282 8-oxo-dGMP binding site [chemical binding]; other site 1196835003283 nudix motif; other site 1196835003284 metal binding site [ion binding]; metal-binding site 1196835003285 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 1196835003286 thiamine phosphate binding site [chemical binding]; other site 1196835003287 active site 1196835003288 pyrophosphate binding site [ion binding]; other site 1196835003289 peroxiredoxin; Region: AhpC; TIGR03137 1196835003290 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 1196835003291 dimer interface [polypeptide binding]; other site 1196835003292 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1196835003293 catalytic triad [active] 1196835003294 peroxidatic and resolving cysteines [active] 1196835003295 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1196835003296 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 1196835003297 catalytic residue [active] 1196835003298 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 1196835003299 catalytic residues [active] 1196835003300 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1196835003301 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196835003302 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 1196835003303 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1196835003304 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1196835003305 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1196835003306 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1196835003307 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 1196835003308 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 1196835003309 dimerization interface [polypeptide binding]; other site 1196835003310 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1196835003311 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 1196835003312 putative active site [active] 1196835003313 heme pocket [chemical binding]; other site 1196835003314 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 1196835003315 dimer interface [polypeptide binding]; other site 1196835003316 phosphorylation site [posttranslational modification] 1196835003317 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 1196835003318 ATP binding site [chemical binding]; other site 1196835003319 Mg2+ binding site [ion binding]; other site 1196835003320 G-X-G motif; other site 1196835003321 2-dehydropantoate 2-reductase; Provisional; Region: PRK05708 1196835003322 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1196835003323 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1196835003324 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1196835003325 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835003326 active site 1196835003327 phosphorylation site [posttranslational modification] 1196835003328 intermolecular recognition site; other site 1196835003329 dimerization interface [polypeptide binding]; other site 1196835003330 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835003331 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835003332 metal binding site [ion binding]; metal-binding site 1196835003333 active site 1196835003334 I-site; other site 1196835003335 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1196835003336 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1196835003337 mechanosensitive channel MscS; Provisional; Region: PRK10334 1196835003338 Conserved TM helix; Region: TM_helix; pfam05552 1196835003339 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1196835003340 muropeptide transporter; Validated; Region: ampG; cl17669 1196835003341 muropeptide transporter; Validated; Region: ampG; cl17669 1196835003342 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 1196835003343 active site 1196835003344 DNA binding site [nucleotide binding] 1196835003345 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1196835003346 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1196835003347 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196835003348 NAD(P) binding site [chemical binding]; other site 1196835003349 active site 1196835003350 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1196835003351 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 1196835003352 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 1196835003353 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 1196835003354 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 1196835003355 oligomerisation interface [polypeptide binding]; other site 1196835003356 mobile loop; other site 1196835003357 roof hairpin; other site 1196835003358 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1196835003359 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 1196835003360 ring oligomerisation interface [polypeptide binding]; other site 1196835003361 ATP/Mg binding site [chemical binding]; other site 1196835003362 stacking interactions; other site 1196835003363 hinge regions; other site 1196835003364 multidrug efflux protein; Reviewed; Region: PRK09579 1196835003365 Protein export membrane protein; Region: SecD_SecF; cl14618 1196835003366 potential frameshift: common BLAST hit: gi|386021893|ref|YP_005939918.1| RND efflux membrane fusion protein 1196835003367 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 1196835003368 dimerization interface [polypeptide binding]; other site 1196835003369 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835003370 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835003371 dimer interface [polypeptide binding]; other site 1196835003372 putative CheW interface [polypeptide binding]; other site 1196835003373 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 1196835003374 Imelysin; Region: Peptidase_M75; cl09159 1196835003375 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 1196835003376 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 1196835003377 Imelysin; Region: Peptidase_M75; cl09159 1196835003378 LemA family; Region: LemA; cl00742 1196835003379 E3 Ubiquitin ligase; Region: GIDE; pfam12483 1196835003380 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 1196835003381 S-adenosylmethionine binding site [chemical binding]; other site 1196835003382 biofilm formation regulator HmsP; Provisional; Region: PRK11829 1196835003383 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835003384 metal binding site [ion binding]; metal-binding site 1196835003385 active site 1196835003386 I-site; other site 1196835003387 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 1196835003388 superoxide dismutase; Provisional; Region: PRK10543 1196835003389 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1196835003390 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1196835003391 Lysine efflux permease [General function prediction only]; Region: COG1279 1196835003392 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1196835003393 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835003394 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 1196835003395 dimerization interface [polypeptide binding]; other site 1196835003396 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1196835003397 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 1196835003398 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 1196835003399 active site 1196835003400 catalytic triad [active] 1196835003401 oxyanion hole [active] 1196835003402 Autotransporter beta-domain; Region: Autotransporter; smart00869 1196835003403 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835003404 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835003405 metal binding site [ion binding]; metal-binding site 1196835003406 active site 1196835003407 I-site; other site 1196835003408 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1196835003409 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 1196835003410 active site 1196835003411 General stress protein [General function prediction only]; Region: GsiB; COG3729 1196835003412 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1196835003413 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 1196835003414 heme-binding site [chemical binding]; other site 1196835003415 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 1196835003416 FAD binding pocket [chemical binding]; other site 1196835003417 FAD binding motif [chemical binding]; other site 1196835003418 phosphate binding motif [ion binding]; other site 1196835003419 beta-alpha-beta structure motif; other site 1196835003420 NAD binding pocket [chemical binding]; other site 1196835003421 Heme binding pocket [chemical binding]; other site 1196835003422 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 1196835003423 pyruvate kinase; Provisional; Region: PRK06247 1196835003424 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 1196835003425 domain interfaces; other site 1196835003426 active site 1196835003427 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1196835003428 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1196835003429 MOFRL family; Region: MOFRL; pfam05161 1196835003430 tartronate semialdehyde reductase; Provisional; Region: PRK15059 1196835003431 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1196835003432 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1196835003433 glyoxylate carboligase; Provisional; Region: PRK11269 1196835003434 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1196835003435 PYR/PP interface [polypeptide binding]; other site 1196835003436 dimer interface [polypeptide binding]; other site 1196835003437 TPP binding site [chemical binding]; other site 1196835003438 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1196835003439 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 1196835003440 TPP-binding site [chemical binding]; other site 1196835003441 transcriptional activator TtdR; Provisional; Region: PRK09801 1196835003442 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835003443 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 1196835003444 putative effector binding pocket; other site 1196835003445 dimerization interface [polypeptide binding]; other site 1196835003446 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 1196835003447 active site 1196835003448 homotetramer interface [polypeptide binding]; other site 1196835003449 Domain of unknown function (DUF336); Region: DUF336; pfam03928 1196835003450 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1196835003451 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835003452 active site 1196835003453 phosphorylation site [posttranslational modification] 1196835003454 intermolecular recognition site; other site 1196835003455 dimerization interface [polypeptide binding]; other site 1196835003456 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 1196835003457 DNA binding site [nucleotide binding] 1196835003458 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1196835003459 HAMP domain; Region: HAMP; pfam00672 1196835003460 dimerization interface [polypeptide binding]; other site 1196835003461 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 1196835003462 dimer interface [polypeptide binding]; other site 1196835003463 phosphorylation site [posttranslational modification] 1196835003464 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 1196835003465 ATP binding site [chemical binding]; other site 1196835003466 G-X-G motif; other site 1196835003467 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 1196835003468 putative catalytic site [active] 1196835003469 putative phosphate binding site [ion binding]; other site 1196835003470 active site 1196835003471 metal binding site A [ion binding]; metal-binding site 1196835003472 DNA binding site [nucleotide binding] 1196835003473 putative AP binding site [nucleotide binding]; other site 1196835003474 putative metal binding site B [ion binding]; other site 1196835003475 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1196835003476 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1196835003477 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 1196835003478 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 1196835003479 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1196835003480 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196835003481 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1196835003482 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 1196835003483 xanthine permease; Region: pbuX; TIGR03173 1196835003484 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1196835003485 TrkA-N domain; Region: TrkA_N; pfam02254 1196835003486 Predicted membrane protein [Function unknown]; Region: COG3748 1196835003487 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1196835003488 Cytochrome c; Region: Cytochrom_C; pfam00034 1196835003489 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1196835003490 ureidoglycolate hydrolase; Provisional; Region: PRK03606 1196835003491 allantoicase; Provisional; Region: PRK13257 1196835003492 Allantoicase repeat; Region: Allantoicase; pfam03561 1196835003493 Allantoicase repeat; Region: Allantoicase; pfam03561 1196835003494 OHCU decarboxylase; Region: UHCUDC; TIGR03164 1196835003495 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1196835003496 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1196835003497 active site 1196835003498 catalytic site [active] 1196835003499 tetramer interface [polypeptide binding]; other site 1196835003500 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 1196835003501 active site 1196835003502 homotetramer interface [polypeptide binding]; other site 1196835003503 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1196835003504 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1196835003505 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1196835003506 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1196835003507 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196835003508 DNA-binding site [nucleotide binding]; DNA binding site 1196835003509 FCD domain; Region: FCD; pfam07729 1196835003510 Domain of unknown function (DUF1737); Region: DUF1737; cl10503 1196835003511 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1196835003512 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1196835003513 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1196835003514 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1196835003515 potential frameshift: common BLAST hit: gi|357404463|ref|YP_004916387.1| transposase 1196835003516 guanine deaminase; Provisional; Region: PRK09228 1196835003517 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 1196835003518 active site 1196835003519 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1196835003520 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1196835003521 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1196835003522 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 1196835003523 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1196835003524 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1196835003525 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 1196835003526 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 1196835003527 catalytic loop [active] 1196835003528 iron binding site [ion binding]; other site 1196835003529 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1196835003530 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1196835003531 oxidase reductase; Provisional; Region: PTZ00273 1196835003532 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1196835003533 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1196835003534 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1196835003535 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 1196835003536 putative ligand binding site [chemical binding]; other site 1196835003537 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 1196835003538 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 1196835003539 active site 1196835003540 putative substrate binding pocket [chemical binding]; other site 1196835003541 short chain dehydrogenase; Provisional; Region: PRK06123 1196835003542 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 1196835003543 NADP binding site [chemical binding]; other site 1196835003544 homodimer interface [polypeptide binding]; other site 1196835003545 active site 1196835003546 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1196835003547 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1196835003548 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1196835003549 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1196835003550 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 1196835003551 motif II; other site 1196835003552 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1196835003553 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1196835003554 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 1196835003555 substrate binding pocket [chemical binding]; other site 1196835003556 membrane-bound complex binding site; other site 1196835003557 hinge residues; other site 1196835003558 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 1196835003559 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1196835003560 catalytic residue [active] 1196835003561 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1196835003562 GIY-YIG motif/motif A; other site 1196835003563 putative active site [active] 1196835003564 putative metal binding site [ion binding]; other site 1196835003565 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1196835003566 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1196835003567 C-terminal domain interface [polypeptide binding]; other site 1196835003568 GSH binding site (G-site) [chemical binding]; other site 1196835003569 dimer interface [polypeptide binding]; other site 1196835003570 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1196835003571 substrate binding pocket (H-site) [chemical binding]; other site 1196835003572 N-terminal domain interface [polypeptide binding]; other site 1196835003573 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 1196835003574 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 1196835003575 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1196835003576 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1196835003577 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1196835003578 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 1196835003579 putative substrate translocation pore; other site 1196835003580 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196835003581 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 1196835003582 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 1196835003583 S-adenosylmethionine binding site [chemical binding]; other site 1196835003584 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196835003585 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 1196835003586 putative substrate translocation pore; other site 1196835003587 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 1196835003588 transmembrane helices; other site 1196835003589 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1196835003590 TrkA-C domain; Region: TrkA_C; pfam02080 1196835003591 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1196835003592 TrkA-C domain; Region: TrkA_C; pfam02080 1196835003593 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 1196835003594 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; pfam09904 1196835003595 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1196835003596 NHAD transporter family protein; Provisional; Region: PLN00137 1196835003597 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1196835003598 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1196835003599 HIGH motif; other site 1196835003600 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1196835003601 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1196835003602 active site 1196835003603 KMSKS motif; other site 1196835003604 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1196835003605 tRNA binding surface [nucleotide binding]; other site 1196835003606 anticodon binding site; other site 1196835003607 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1196835003608 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 1196835003609 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1196835003610 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 1196835003611 interface (dimer of trimers) [polypeptide binding]; other site 1196835003612 Substrate-binding/catalytic site; other site 1196835003613 Zn-binding sites [ion binding]; other site 1196835003614 Predicted permeases [General function prediction only]; Region: COG0795 1196835003615 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1196835003616 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1196835003617 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1196835003618 RDD family; Region: RDD; pfam06271 1196835003619 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 1196835003620 DNA-binding site [nucleotide binding]; DNA binding site 1196835003621 RNA-binding motif; other site 1196835003622 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1196835003623 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1196835003624 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1196835003625 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1196835003626 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1196835003627 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1196835003628 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1196835003629 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1196835003630 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1196835003631 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1196835003632 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1196835003633 Protein export membrane protein; Region: SecD_SecF; pfam02355 1196835003634 hypothetical protein; Provisional; Region: PRK11280 1196835003635 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1196835003636 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 1196835003637 active site 1196835003638 dimerization interface [polypeptide binding]; other site 1196835003639 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1196835003640 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1196835003641 serine O-acetyltransferase; Region: cysE; TIGR01172 1196835003642 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 1196835003643 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 1196835003644 trimer interface [polypeptide binding]; other site 1196835003645 active site 1196835003646 substrate binding site [chemical binding]; other site 1196835003647 CoA binding site [chemical binding]; other site 1196835003648 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1196835003649 Rrf2 family protein; Region: rrf2_super; TIGR00738 1196835003650 cysteine desulfurase; Provisional; Region: PRK14012 1196835003651 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1196835003652 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1196835003653 catalytic residue [active] 1196835003654 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1196835003655 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1196835003656 trimerization site [polypeptide binding]; other site 1196835003657 active site 1196835003658 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1196835003659 co-chaperone HscB; Provisional; Region: hscB; PRK00294 1196835003660 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 1196835003661 HSP70 interaction site [polypeptide binding]; other site 1196835003662 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1196835003663 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1196835003664 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1196835003665 nucleotide binding site [chemical binding]; other site 1196835003666 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1196835003667 SBD interface [polypeptide binding]; other site 1196835003668 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1196835003669 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 1196835003670 catalytic loop [active] 1196835003671 iron binding site [ion binding]; other site 1196835003672 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 1196835003673 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 1196835003674 active site 1196835003675 multimer interface [polypeptide binding]; other site 1196835003676 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1196835003677 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 1196835003678 FeS/SAM binding site; other site 1196835003679 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1196835003680 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 1196835003681 binding surface 1196835003682 TPR motif; other site 1196835003683 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 1196835003684 binding surface 1196835003685 TPR motif; other site 1196835003686 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1196835003687 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 1196835003688 non-specific DNA binding site [nucleotide binding]; other site 1196835003689 salt bridge; other site 1196835003690 sequence-specific DNA binding site [nucleotide binding]; other site 1196835003691 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1196835003692 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1196835003693 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1196835003694 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1196835003695 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1196835003696 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 1196835003697 dimer interface [polypeptide binding]; other site 1196835003698 motif 1; other site 1196835003699 active site 1196835003700 motif 2; other site 1196835003701 motif 3; other site 1196835003702 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 1196835003703 anticodon binding site; other site 1196835003704 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1196835003705 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1196835003706 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 1196835003707 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1196835003708 Trp docking motif [polypeptide binding]; other site 1196835003709 active site 1196835003710 GTP-binding protein Der; Reviewed; Region: PRK00093 1196835003711 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1196835003712 G1 box; other site 1196835003713 GTP/Mg2+ binding site [chemical binding]; other site 1196835003714 Switch I region; other site 1196835003715 G2 box; other site 1196835003716 Switch II region; other site 1196835003717 G3 box; other site 1196835003718 G4 box; other site 1196835003719 G5 box; other site 1196835003720 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1196835003721 G1 box; other site 1196835003722 GTP/Mg2+ binding site [chemical binding]; other site 1196835003723 Switch I region; other site 1196835003724 G2 box; other site 1196835003725 G3 box; other site 1196835003726 Switch II region; other site 1196835003727 G4 box; other site 1196835003728 G5 box; other site 1196835003729 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1196835003730 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 1196835003731 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 1196835003732 trimer interface [polypeptide binding]; other site 1196835003733 active site 1196835003734 substrate binding site [chemical binding]; other site 1196835003735 CoA binding site [chemical binding]; other site 1196835003736 methionine aminotransferase; Validated; Region: PRK09082 1196835003737 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 1196835003738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835003739 homodimer interface [polypeptide binding]; other site 1196835003740 catalytic residue [active] 1196835003741 C-N hydrolase family amidase; Provisional; Region: PRK10438 1196835003742 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 1196835003743 putative active site [active] 1196835003744 catalytic triad [active] 1196835003745 dimer interface [polypeptide binding]; other site 1196835003746 multimer interface [polypeptide binding]; other site 1196835003747 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 1196835003748 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 1196835003749 DNA-specific endonuclease I; Provisional; Region: PRK15137 1196835003750 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 1196835003751 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1196835003752 EamA-like transporter family; Region: EamA; cl17759 1196835003753 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1196835003754 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1196835003755 putative NAD(P) binding site [chemical binding]; other site 1196835003756 putative substrate binding site [chemical binding]; other site 1196835003757 catalytic Zn binding site [ion binding]; other site 1196835003758 structural Zn binding site [ion binding]; other site 1196835003759 dimer interface [polypeptide binding]; other site 1196835003760 2-isopropylmalate synthase; Validated; Region: PRK03739 1196835003761 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1196835003762 active site 1196835003763 catalytic residues [active] 1196835003764 metal binding site [ion binding]; metal-binding site 1196835003765 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1196835003766 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1196835003767 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 1196835003768 N-terminal plug; other site 1196835003769 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1196835003770 ligand-binding site [chemical binding]; other site 1196835003771 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1196835003772 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1196835003773 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1196835003774 Isochorismatase family; Region: Isochorismatase; pfam00857 1196835003775 catalytic triad [active] 1196835003776 dimer interface [polypeptide binding]; other site 1196835003777 conserved cis-peptide bond; other site 1196835003778 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1196835003779 Peptidase family M23; Region: Peptidase_M23; pfam01551 1196835003780 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1196835003781 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 1196835003782 generic binding surface II; other site 1196835003783 generic binding surface I; other site 1196835003784 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1196835003785 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 1196835003786 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 1196835003787 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 1196835003788 active site 1196835003789 GMP synthase; Reviewed; Region: guaA; PRK00074 1196835003790 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1196835003791 AMP/PPi binding site [chemical binding]; other site 1196835003792 candidate oxyanion hole; other site 1196835003793 catalytic triad [active] 1196835003794 potential glutamine specificity residues [chemical binding]; other site 1196835003795 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 1196835003796 ATP Binding subdomain [chemical binding]; other site 1196835003797 Ligand Binding sites [chemical binding]; other site 1196835003798 Dimerization subdomain; other site 1196835003799 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1196835003800 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1196835003801 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1196835003802 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 1196835003803 nucleoside/Zn binding site; other site 1196835003804 dimer interface [polypeptide binding]; other site 1196835003805 catalytic motif [active] 1196835003806 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1196835003807 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1196835003808 Walker A/P-loop; other site 1196835003809 ATP binding site [chemical binding]; other site 1196835003810 Q-loop/lid; other site 1196835003811 ABC transporter signature motif; other site 1196835003812 Walker B; other site 1196835003813 D-loop; other site 1196835003814 H-loop/switch region; other site 1196835003815 TOBE domain; Region: TOBE_2; pfam08402 1196835003816 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1196835003817 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1196835003818 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1196835003819 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 1196835003820 putative GSH binding site [chemical binding]; other site 1196835003821 catalytic residues [active] 1196835003822 VanZ like family; Region: VanZ; cl01971 1196835003823 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1196835003824 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1196835003825 dimer interface [polypeptide binding]; other site 1196835003826 catalytic site [active] 1196835003827 putative active site [active] 1196835003828 putative substrate binding site [chemical binding]; other site 1196835003829 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 1196835003830 active site 1196835003831 substrate binding pocket [chemical binding]; other site 1196835003832 dimer interface [polypeptide binding]; other site 1196835003833 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1196835003834 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196835003835 ligand binding site [chemical binding]; other site 1196835003836 argininosuccinate synthase; Provisional; Region: PRK13820 1196835003837 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 1196835003838 ANP binding site [chemical binding]; other site 1196835003839 Substrate Binding Site II [chemical binding]; other site 1196835003840 Substrate Binding Site I [chemical binding]; other site 1196835003841 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1196835003842 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1196835003843 dimer interface [polypeptide binding]; other site 1196835003844 active site 1196835003845 metal binding site [ion binding]; metal-binding site 1196835003846 glutathione binding site [chemical binding]; other site 1196835003847 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1196835003848 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1196835003849 minor groove reading motif; other site 1196835003850 helix-hairpin-helix signature motif; other site 1196835003851 substrate binding pocket [chemical binding]; other site 1196835003852 active site 1196835003853 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1196835003854 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1196835003855 FMN-binding domain; Region: FMN_bind; cl01081 1196835003856 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 1196835003857 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 1196835003858 SLBB domain; Region: SLBB; pfam10531 1196835003859 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 1196835003860 ferredoxin; Provisional; Region: PRK08764 1196835003861 Putative Fe-S cluster; Region: FeS; pfam04060 1196835003862 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1196835003863 electron transport complex protein RsxA; Provisional; Region: PRK05151 1196835003864 chromosomal replication initiation protein; Provisional; Region: dnaA; PRK14086 1196835003865 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1196835003866 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1196835003867 substrate binding site [chemical binding]; other site 1196835003868 oxyanion hole (OAH) forming residues; other site 1196835003869 trimer interface [polypeptide binding]; other site 1196835003870 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1196835003871 enoyl-CoA hydratase; Provisional; Region: PRK09076 1196835003872 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1196835003873 substrate binding site [chemical binding]; other site 1196835003874 oxyanion hole (OAH) forming residues; other site 1196835003875 trimer interface [polypeptide binding]; other site 1196835003876 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1196835003877 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1196835003878 putative ligand binding site [chemical binding]; other site 1196835003879 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1196835003880 ligand binding site [chemical binding]; other site 1196835003881 active site 1196835003882 UGI interface [polypeptide binding]; other site 1196835003883 catalytic site [active] 1196835003884 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1196835003885 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1196835003886 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1196835003887 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 1196835003888 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1196835003889 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1196835003890 L-aspartate oxidase; Provisional; Region: PRK09077 1196835003891 L-aspartate oxidase; Provisional; Region: PRK06175 1196835003892 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1196835003893 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 1196835003894 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196835003895 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 1196835003896 DNA binding residues [nucleotide binding] 1196835003897 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 1196835003898 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1196835003899 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 1196835003900 MucB/RseB family; Region: MucB_RseB; pfam03888 1196835003901 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1196835003902 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 1196835003903 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1196835003904 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1196835003905 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 1196835003906 protein binding site [polypeptide binding]; other site 1196835003907 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 1196835003908 protein binding site [polypeptide binding]; other site 1196835003909 GTP-binding protein LepA; Provisional; Region: PRK05433 1196835003910 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1196835003911 G1 box; other site 1196835003912 putative GEF interaction site [polypeptide binding]; other site 1196835003913 GTP/Mg2+ binding site [chemical binding]; other site 1196835003914 Switch I region; other site 1196835003915 G2 box; other site 1196835003916 G3 box; other site 1196835003917 Switch II region; other site 1196835003918 G4 box; other site 1196835003919 G5 box; other site 1196835003920 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 1196835003921 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 1196835003922 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1196835003923 signal peptidase I; Provisional; Region: PRK10861 1196835003924 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 1196835003925 Catalytic site [active] 1196835003926 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 1196835003927 ribonuclease III; Reviewed; Region: rnc; PRK00102 1196835003928 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 1196835003929 dimerization interface [polypeptide binding]; other site 1196835003930 active site 1196835003931 metal binding site [ion binding]; metal-binding site 1196835003932 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 1196835003933 GTPase Era; Reviewed; Region: era; PRK00089 1196835003934 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1196835003935 G1 box; other site 1196835003936 GTP/Mg2+ binding site [chemical binding]; other site 1196835003937 Switch I region; other site 1196835003938 G2 box; other site 1196835003939 Switch II region; other site 1196835003940 G3 box; other site 1196835003941 G4 box; other site 1196835003942 G5 box; other site 1196835003943 KH domain; Region: KH_2; pfam07650 1196835003944 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1196835003945 Recombination protein O N terminal; Region: RecO_N; pfam11967 1196835003946 Recombination protein O C terminal; Region: RecO_C; pfam02565 1196835003947 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 1196835003948 active site 1196835003949 hydrophilic channel; other site 1196835003950 dimerization interface [polypeptide binding]; other site 1196835003951 catalytic residues [active] 1196835003952 active site lid [active] 1196835003953 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 1196835003954 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835003955 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 1196835003956 dimerization interface [polypeptide binding]; other site 1196835003957 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1196835003958 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 1196835003959 S-adenosylmethionine binding site [chemical binding]; other site 1196835003960 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 1196835003961 S-adenosylmethionine binding site [chemical binding]; other site 1196835003962 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 1196835003963 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1196835003964 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 1196835003965 Walker A motif; other site 1196835003966 ATP binding site [chemical binding]; other site 1196835003967 Walker B motif; other site 1196835003968 arginine finger; other site 1196835003969 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1196835003970 Cupin domain; Region: Cupin_2; cl17218 1196835003971 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835003972 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1196835003973 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835003974 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 1196835003975 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1196835003976 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1196835003977 Glutamate binding site [chemical binding]; other site 1196835003978 NAD binding site [chemical binding]; other site 1196835003979 catalytic residues [active] 1196835003980 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1196835003981 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1196835003982 Na binding site [ion binding]; other site 1196835003983 Protein of unknown function (DUF3203); Region: DUF3203; pfam11462 1196835003984 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1196835003985 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 1196835003986 N-terminal plug; other site 1196835003987 ligand-binding site [chemical binding]; other site 1196835003988 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1196835003989 Na binding site [ion binding]; other site 1196835003990 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 1196835003991 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 1196835003992 Transposase domain (DUF772); Region: DUF772; pfam05598 1196835003993 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1196835003994 DDE superfamily endonuclease; Region: DDE_4; cl17710 1196835003995 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1196835003996 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1196835003997 Bacterial transcriptional regulator; Region: IclR; pfam01614 1196835003998 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1196835003999 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 1196835004000 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1196835004001 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1196835004002 dimer interface [polypeptide binding]; other site 1196835004003 active site 1196835004004 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1196835004005 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 1196835004006 Arc-like DNA binding domain; Region: Arc; pfam03869 1196835004007 Transposase domain (DUF772); Region: DUF772; pfam05598 1196835004008 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1196835004009 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1196835004010 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 1196835004011 Zonular occludens toxin (Zot); Region: Zot; cl17485 1196835004012 integrase; Provisional; Region: int; PHA02601 1196835004013 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 1196835004014 active site 1196835004015 DNA binding site [nucleotide binding] 1196835004016 Int/Topo IB signature motif; other site 1196835004017 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 1196835004018 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 1196835004019 non-specific DNA binding site [nucleotide binding]; other site 1196835004020 salt bridge; other site 1196835004021 sequence-specific DNA binding site [nucleotide binding]; other site 1196835004022 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835004023 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835004024 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 1196835004025 dimerization interface [polypeptide binding]; other site 1196835004026 substrate binding pocket [chemical binding]; other site 1196835004027 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196835004028 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196835004029 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1196835004030 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1196835004031 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196835004032 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196835004033 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1196835004034 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1196835004035 Walker A/P-loop; other site 1196835004036 ATP binding site [chemical binding]; other site 1196835004037 Q-loop/lid; other site 1196835004038 ABC transporter signature motif; other site 1196835004039 Walker B; other site 1196835004040 D-loop; other site 1196835004041 H-loop/switch region; other site 1196835004042 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1196835004043 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1196835004044 Walker A/P-loop; other site 1196835004045 ATP binding site [chemical binding]; other site 1196835004046 Q-loop/lid; other site 1196835004047 ABC transporter signature motif; other site 1196835004048 Walker B; other site 1196835004049 D-loop; other site 1196835004050 H-loop/switch region; other site 1196835004051 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1196835004052 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1196835004053 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1196835004054 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1196835004055 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1196835004056 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1196835004057 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1196835004058 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1196835004059 Beta-Casp domain; Region: Beta-Casp; smart01027 1196835004060 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1196835004061 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1196835004062 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 1196835004063 Cytochrome C' Region: Cytochrom_C_2; cl01610 1196835004064 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835004065 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 1196835004066 dimerization interface [polypeptide binding]; other site 1196835004067 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1196835004068 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835004069 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 1196835004070 dimerization interface [polypeptide binding]; other site 1196835004071 substrate binding pocket [chemical binding]; other site 1196835004072 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 1196835004073 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1196835004074 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 1196835004075 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 1196835004076 Magnesium ion binding site [ion binding]; other site 1196835004077 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 1196835004078 ParB-like nuclease domain; Region: ParBc; pfam02195 1196835004079 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 1196835004080 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 1196835004081 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 1196835004082 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 1196835004083 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1196835004084 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 1196835004085 dimer interface [polypeptide binding]; other site 1196835004086 ssDNA binding site [nucleotide binding]; other site 1196835004087 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1196835004088 DNA topoisomerase III; Provisional; Region: PRK07726 1196835004089 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1196835004090 active site 1196835004091 putative interdomain interaction site [polypeptide binding]; other site 1196835004092 putative metal-binding site [ion binding]; other site 1196835004093 putative nucleotide binding site [chemical binding]; other site 1196835004094 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 1196835004095 domain I; other site 1196835004096 DNA binding groove [nucleotide binding] 1196835004097 phosphate binding site [ion binding]; other site 1196835004098 domain II; other site 1196835004099 domain III; other site 1196835004100 nucleotide binding site [chemical binding]; other site 1196835004101 catalytic site [active] 1196835004102 domain IV; other site 1196835004103 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1196835004104 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 1196835004105 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1196835004106 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 1196835004107 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 1196835004108 S-adenosylmethionine binding site [chemical binding]; other site 1196835004109 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1196835004110 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 1196835004111 nucleotide binding region [chemical binding]; other site 1196835004112 ATP-binding site [chemical binding]; other site 1196835004113 TIR domain; Region: TIR_2; pfam13676 1196835004114 AAA ATPase domain; Region: AAA_16; pfam13191 1196835004115 TPR repeat; Region: TPR_11; pfam13414 1196835004116 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 1196835004117 TPR motif; other site 1196835004118 binding surface 1196835004119 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 1196835004120 binding surface 1196835004121 TPR repeat; Region: TPR_11; pfam13414 1196835004122 TPR motif; other site 1196835004123 Predicted ATPase [General function prediction only]; Region: COG5293 1196835004124 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 1196835004125 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 1196835004126 non-specific DNA binding site [nucleotide binding]; other site 1196835004127 salt bridge; other site 1196835004128 sequence-specific DNA binding site [nucleotide binding]; other site 1196835004129 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 1196835004130 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 1196835004131 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 1196835004132 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 1196835004133 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 1196835004134 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 1196835004135 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 1196835004136 MIT_C; domain found C-terminal to MIT (contained within Microtubule Interacting and Trafficking molecules) domains, as well as in some bacterial proteins. The function of this domain is unknown; Region: MIT_C; cd02685 1196835004137 TIGR02687 family protein; Region: TIGR02687 1196835004138 PglZ domain; Region: PglZ; pfam08665 1196835004139 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 1196835004140 Domain of unknown function DUF87; Region: DUF87; pfam01935 1196835004141 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1196835004142 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835004143 AAA domain; Region: AAA_23; pfam13476 1196835004144 Walker A/P-loop; other site 1196835004145 ATP binding site [chemical binding]; other site 1196835004146 AAA domain; Region: AAA_21; pfam13304 1196835004147 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1196835004148 Walker B; other site 1196835004149 D-loop; other site 1196835004150 H-loop/switch region; other site 1196835004151 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1196835004152 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1196835004153 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 1196835004154 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 1196835004155 DNA binding domain, excisionase family; Region: excise; TIGR01764 1196835004156 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 1196835004157 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 1196835004158 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 1196835004159 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 1196835004160 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 1196835004161 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 1196835004162 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 1196835004163 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1196835004164 Protein of unknown function (DUF904); Region: DUF904; pfam06005 1196835004165 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 1196835004166 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 1196835004167 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 1196835004168 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1196835004169 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 1196835004170 catalytic residues [active] 1196835004171 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1196835004172 MPN+ (JAMM) motif; other site 1196835004173 Zinc-binding site [ion binding]; other site 1196835004174 Protein of unknown function (DUF1525); Region: DUF1525; pfam07511 1196835004175 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 1196835004176 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1196835004177 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1196835004178 Protein of unknown function (DUF3742); Region: DUF3742; pfam12553 1196835004179 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1196835004180 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 1196835004181 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1196835004182 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1196835004183 Putative helicase; Region: TraI_2; pfam07514 1196835004184 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1196835004185 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1196835004186 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1196835004187 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 1196835004188 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 1196835004189 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1196835004190 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1196835004191 Presynaptic Site I dimer interface [polypeptide binding]; other site 1196835004192 catalytic residues [active] 1196835004193 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1196835004194 Synaptic Flat tetramer interface [polypeptide binding]; other site 1196835004195 Synaptic Site I dimer interface [polypeptide binding]; other site 1196835004196 DNA binding site [nucleotide binding] 1196835004197 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1196835004198 DNA-binding interface [nucleotide binding]; DNA binding site 1196835004199 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1196835004200 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 1196835004201 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 1196835004202 dimerization interface [polypeptide binding]; other site 1196835004203 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835004204 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835004205 dimer interface [polypeptide binding]; other site 1196835004206 putative CheW interface [polypeptide binding]; other site 1196835004207 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1196835004208 MULE transposase domain; Region: MULE; pfam10551 1196835004209 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1196835004210 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1196835004211 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1196835004212 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1196835004213 FAD binding domain; Region: FAD_binding_4; pfam01565 1196835004214 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1196835004215 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1196835004216 Domain of unknown function (DUF336); Region: DUF336; pfam03928 1196835004217 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 1196835004218 active site 1 [active] 1196835004219 dimer interface [polypeptide binding]; other site 1196835004220 hexamer interface [polypeptide binding]; other site 1196835004221 active site 2 [active] 1196835004222 4-oxalocrotonate decarboxylase; Region: catechol_dmpH; TIGR03218 1196835004223 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 1196835004224 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 1196835004225 active site 1196835004226 catalytic residues [active] 1196835004227 metal binding site [ion binding]; metal-binding site 1196835004228 DmpG-like communication domain; Region: DmpG_comm; pfam07836 1196835004229 acetaldehyde dehydrogenase; Validated; Region: PRK08300 1196835004230 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1196835004231 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 1196835004232 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1196835004233 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 1196835004234 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1196835004235 2-hydroxymuconic semialdehyde dehydrogenase; Region: OH_muco_semi_DH; TIGR03216 1196835004236 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 1196835004237 NAD binding site [chemical binding]; other site 1196835004238 catalytic residues [active] 1196835004239 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 1196835004240 N-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_N; cd07265 1196835004241 tetramer interface [polypeptide binding]; other site 1196835004242 C-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_C; cd07243 1196835004243 tetramer interface [polypeptide binding]; other site 1196835004244 active site 1196835004245 Fe binding site [ion binding]; other site 1196835004246 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 1196835004247 catalytic loop [active] 1196835004248 iron binding site [ion binding]; other site 1196835004249 salicylate 1-monooxygenase; Region: salicylate_mono; TIGR03219 1196835004250 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835004251 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835004252 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 1196835004253 substrate binding pocket [chemical binding]; other site 1196835004254 dimerization interface [polypeptide binding]; other site 1196835004255 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1196835004256 Transposase domain (DUF772); Region: DUF772; pfam05598 1196835004257 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1196835004258 DDE superfamily endonuclease; Region: DDE_4; cl17710 1196835004259 salicylate hydroxylase; Provisional; Region: PRK08163 1196835004260 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1196835004261 Transposase domain (DUF772); Region: DUF772; pfam05598 1196835004262 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1196835004263 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1196835004264 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1196835004265 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1196835004266 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1196835004267 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1196835004268 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 1196835004269 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 1196835004270 acyl-activating enzyme (AAE) consensus motif; other site 1196835004271 putative AMP binding site [chemical binding]; other site 1196835004272 putative active site [active] 1196835004273 putative CoA binding site [chemical binding]; other site 1196835004274 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1196835004275 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1196835004276 active site 1196835004277 catalytic residues [active] 1196835004278 metal binding site [ion binding]; metal-binding site 1196835004279 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1196835004280 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1196835004281 lipoprotein signal peptidase; Provisional; Region: PRK14776 1196835004282 Heavy-metal-associated domain; Region: HMA; pfam00403 1196835004283 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1196835004284 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1196835004285 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1196835004286 DNA binding residues [nucleotide binding] 1196835004287 dimer interface [polypeptide binding]; other site 1196835004288 putative metal binding site [ion binding]; other site 1196835004289 Formaldehyde dehydrogenases; Region: FDH_like; cd05278 1196835004290 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1196835004291 catalytic Zn binding site [ion binding]; other site 1196835004292 NAD(P) binding site [chemical binding]; other site 1196835004293 structural Zn binding site [ion binding]; other site 1196835004294 glutathionine S-transferase; Provisional; Region: PRK10542 1196835004295 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 1196835004296 C-terminal domain interface [polypeptide binding]; other site 1196835004297 GSH binding site (G-site) [chemical binding]; other site 1196835004298 dimer interface [polypeptide binding]; other site 1196835004299 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1196835004300 dimer interface [polypeptide binding]; other site 1196835004301 N-terminal domain interface [polypeptide binding]; other site 1196835004302 substrate binding pocket (H-site) [chemical binding]; other site 1196835004303 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1196835004304 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1196835004305 potential catalytic triad [active] 1196835004306 conserved cys residue [active] 1196835004307 HTH-like domain; Region: HTH_21; pfam13276 1196835004308 Integrase core domain; Region: rve; pfam00665 1196835004309 Integrase core domain; Region: rve_3; pfam13683 1196835004310 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 1196835004311 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1196835004312 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1196835004313 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1196835004314 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1196835004315 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1196835004316 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1196835004317 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1196835004318 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 1196835004319 Transposase domain (DUF772); Region: DUF772; pfam05598 1196835004320 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1196835004321 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1196835004322 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1196835004323 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 1196835004324 putative catalytic residue [active] 1196835004325 Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA); Region: CHBPH_aldolase; cd00952 1196835004326 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1196835004327 putative active site [active] 1196835004328 catalytic residue [active] 1196835004329 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 1196835004330 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 1196835004331 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 1196835004332 active site 1196835004333 Fe binding site [ion binding]; other site 1196835004334 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1196835004335 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 1196835004336 NAD(P) binding site [chemical binding]; other site 1196835004337 catalytic residues [active] 1196835004338 cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase (BphB)-like, classical (c) SDRs; Region: BphB-like_SDR_c; cd05348 1196835004339 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional; Region: PRK06200 1196835004340 NAD binding site [chemical binding]; other site 1196835004341 active site 1196835004342 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 1196835004343 inter-subunit interface; other site 1196835004344 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1196835004345 iron-sulfur cluster [ion binding]; other site 1196835004346 [2Fe-2S] cluster binding site [ion binding]; other site 1196835004347 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 1196835004348 beta subunit interface [polypeptide binding]; other site 1196835004349 alpha subunit interface [polypeptide binding]; other site 1196835004350 active site 1196835004351 substrate binding site [chemical binding]; other site 1196835004352 Fe binding site [ion binding]; other site 1196835004353 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 1196835004354 [2Fe-2S] cluster binding site [ion binding]; other site 1196835004355 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1196835004356 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 1196835004357 catalytic loop [active] 1196835004358 iron binding site [ion binding]; other site 1196835004359 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 1196835004360 FAD binding pocket [chemical binding]; other site 1196835004361 FAD binding motif [chemical binding]; other site 1196835004362 phosphate binding motif [ion binding]; other site 1196835004363 beta-alpha-beta structure motif; other site 1196835004364 NAD binding pocket [chemical binding]; other site 1196835004365 integrase; Provisional; Region: PRK09692 1196835004366 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1196835004367 active site 1196835004368 Int/Topo IB signature motif; other site 1196835004369 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 1196835004370 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1196835004371 active site 1196835004372 DNA binding site [nucleotide binding] 1196835004373 Int/Topo IB signature motif; other site 1196835004374 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1196835004375 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1196835004376 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1196835004377 cofactor binding site; other site 1196835004378 DNA binding site [nucleotide binding] 1196835004379 substrate interaction site [chemical binding]; other site 1196835004380 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1196835004381 HD domain; Region: HD_3; cl17350 1196835004382 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1196835004383 trehalase; Provisional; Region: treF; PRK13270 1196835004384 Uncharacterized conserved protein (DUF2303); Region: DUF2303; cl02338 1196835004385 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 1196835004386 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 1196835004387 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 1196835004388 sequence-specific DNA binding site [nucleotide binding]; other site 1196835004389 salt bridge; other site 1196835004390 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 1196835004391 Catalytic site [active] 1196835004392 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1196835004393 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 1196835004394 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 1196835004395 active site 1196835004396 metal binding site [ion binding]; metal-binding site 1196835004397 interdomain interaction site; other site 1196835004398 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 1196835004399 Protein of unknown function (DUF754); Region: DUF754; pfam05449 1196835004400 HNH endonuclease; Region: HNH; pfam01844 1196835004401 active site 1196835004402 Phage terminase, small subunit; Region: Terminase_4; cl01525 1196835004403 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 1196835004404 Phage-related protein [Function unknown]; Region: COG4695 1196835004405 Phage portal protein; Region: Phage_portal; pfam04860 1196835004406 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 1196835004407 oligomer interface [polypeptide binding]; other site 1196835004408 active site residues [active] 1196835004409 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1196835004410 Phage capsid family; Region: Phage_capsid; pfam05065 1196835004411 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1196835004412 oligomerization interface [polypeptide binding]; other site 1196835004413 Phage-related minor tail protein [Function unknown]; Region: COG5281 1196835004414 tape measure domain; Region: tape_meas_nterm; TIGR02675 1196835004415 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 1196835004416 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 1196835004417 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 1196835004418 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 1196835004419 RNA binding surface [nucleotide binding]; other site 1196835004420 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1196835004421 active site 1196835004422 uracil binding [chemical binding]; other site 1196835004423 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 1196835004424 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1196835004425 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1196835004426 active site 1196835004427 HIGH motif; other site 1196835004428 KMSKS motif; other site 1196835004429 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1196835004430 tRNA binding surface [nucleotide binding]; other site 1196835004431 anticodon binding site; other site 1196835004432 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 1196835004433 dimer interface [polypeptide binding]; other site 1196835004434 putative tRNA-binding site [nucleotide binding]; other site 1196835004435 antiporter inner membrane protein; Provisional; Region: PRK11670 1196835004436 Domain of unknown function DUF59; Region: DUF59; pfam01883 1196835004437 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 1196835004438 Walker A motif; other site 1196835004439 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 1196835004440 DNA-binding site [nucleotide binding]; DNA binding site 1196835004441 RNA-binding motif; other site 1196835004442 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1196835004443 trimer interface [polypeptide binding]; other site 1196835004444 active site 1196835004445 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 1196835004446 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 1196835004447 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 1196835004448 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1196835004449 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 1196835004450 [4Fe-4S] binding site [ion binding]; other site 1196835004451 molybdopterin cofactor binding site; other site 1196835004452 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 1196835004453 molybdopterin cofactor binding site; other site 1196835004454 NapD protein; Region: NapD; pfam03927 1196835004455 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 1196835004456 hypothetical protein; Provisional; Region: PRK04860 1196835004457 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 1196835004458 Yip1 domain; Region: Yip1; pfam04893 1196835004459 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 1196835004460 DNA-J related protein; Region: DNAJ_related; pfam12339 1196835004461 DnaJ molecular chaperone homology domain; Region: DnaJ; smart00271 1196835004462 HSP70 interaction site [polypeptide binding]; other site 1196835004463 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1196835004464 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 1196835004465 Ligand Binding Site [chemical binding]; other site 1196835004466 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1196835004467 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1196835004468 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 1196835004469 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1196835004470 AZL_007950 family protein; Region: AZL_007950_fam; TIGR04061 1196835004471 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1196835004472 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1196835004473 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1196835004474 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1196835004475 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 1196835004476 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; cl11451 1196835004477 NAD-dependent deacetylase; Provisional; Region: PRK00481 1196835004478 SIR2 family 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-fam; cd01407 1196835004479 NAD+ binding site [chemical binding]; other site 1196835004480 substrate binding site [chemical binding]; other site 1196835004481 Zn binding site [ion binding]; other site 1196835004482 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1196835004483 NlpC/P60 family; Region: NLPC_P60; pfam00877 1196835004484 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1196835004485 NlpC/P60 family; Region: NLPC_P60; pfam00877 1196835004486 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 1196835004487 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1196835004488 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 1196835004489 putative active site [active] 1196835004490 putative metal binding site [ion binding]; other site 1196835004491 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1196835004492 active site 1196835004493 metal binding site [ion binding]; metal-binding site 1196835004494 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1196835004495 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 1196835004496 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 1196835004497 N-terminal plug; other site 1196835004498 ligand-binding site [chemical binding]; other site 1196835004499 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 1196835004500 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1196835004501 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 1196835004502 Walker A motif; other site 1196835004503 homodimer interface [polypeptide binding]; other site 1196835004504 ATP binding site [chemical binding]; other site 1196835004505 hydroxycobalamin binding site [chemical binding]; other site 1196835004506 Walker B motif; other site 1196835004507 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1196835004508 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 1196835004509 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1196835004510 catalytic triad [active] 1196835004511 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 1196835004512 putative FMN binding site [chemical binding]; other site 1196835004513 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 1196835004514 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1196835004515 cobalamin binding residues [chemical binding]; other site 1196835004516 putative BtuC binding residues; other site 1196835004517 dimer interface [polypeptide binding]; other site 1196835004518 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1196835004519 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1196835004520 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 1196835004521 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835004522 homodimer interface [polypeptide binding]; other site 1196835004523 catalytic residue [active] 1196835004524 cobyric acid synthase; Provisional; Region: PRK00784 1196835004525 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 1196835004526 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1196835004527 catalytic triad [active] 1196835004528 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 1196835004529 homotrimer interface [polypeptide binding]; other site 1196835004530 Walker A motif; other site 1196835004531 GTP binding site [chemical binding]; other site 1196835004532 Walker B motif; other site 1196835004533 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1196835004534 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1196835004535 putative dimer interface [polypeptide binding]; other site 1196835004536 active site pocket [active] 1196835004537 putative cataytic base [active] 1196835004538 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 1196835004539 catalytic core [active] 1196835004540 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1196835004541 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835004542 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835004543 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1196835004544 putative effector binding pocket; other site 1196835004545 putative dimerization interface [polypeptide binding]; other site 1196835004546 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 1196835004547 homotrimer interaction site [polypeptide binding]; other site 1196835004548 putative active site [active] 1196835004549 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 1196835004550 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835004551 Walker A/P-loop; other site 1196835004552 ATP binding site [chemical binding]; other site 1196835004553 Q-loop/lid; other site 1196835004554 ABC transporter signature motif; other site 1196835004555 Walker B; other site 1196835004556 D-loop; other site 1196835004557 H-loop/switch region; other site 1196835004558 TOBE domain; Region: TOBE; pfam03459 1196835004559 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1196835004560 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835004561 dimer interface [polypeptide binding]; other site 1196835004562 conserved gate region; other site 1196835004563 putative PBP binding loops; other site 1196835004564 ABC-ATPase subunit interface; other site 1196835004565 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1196835004566 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1196835004567 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 1196835004568 catalytic residues [active] 1196835004569 dimer interface [polypeptide binding]; other site 1196835004570 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 1196835004571 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1196835004572 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 1196835004573 active site residue [active] 1196835004574 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 1196835004575 active site residue [active] 1196835004576 ribonuclease D; Region: rnd; TIGR01388 1196835004577 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1196835004578 catalytic site [active] 1196835004579 putative active site [active] 1196835004580 putative substrate binding site [chemical binding]; other site 1196835004581 HRDC domain; Region: HRDC; pfam00570 1196835004582 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 1196835004583 hypothetical protein; Provisional; Region: PRK05170 1196835004584 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1196835004585 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1196835004586 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1196835004587 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 1196835004588 tetramer interface [polypeptide binding]; other site 1196835004589 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835004590 catalytic residue [active] 1196835004591 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1196835004592 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 1196835004593 motif 1; other site 1196835004594 active site 1196835004595 motif 2; other site 1196835004596 motif 3; other site 1196835004597 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1196835004598 DHHA1 domain; Region: DHHA1; pfam02272 1196835004599 aspartate kinase; Reviewed; Region: PRK06635 1196835004600 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 1196835004601 putative nucleotide binding site [chemical binding]; other site 1196835004602 putative catalytic residues [active] 1196835004603 putative Mg ion binding site [ion binding]; other site 1196835004604 putative aspartate binding site [chemical binding]; other site 1196835004605 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 1196835004606 putative allosteric regulatory site; other site 1196835004607 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 1196835004608 putative allosteric regulatory residue; other site 1196835004609 carbon storage regulator; Provisional; Region: PRK01712 1196835004610 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1196835004611 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1196835004612 MgtE intracellular N domain; Region: MgtE_N; smart00924 1196835004613 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 1196835004614 Divalent cation transporter; Region: MgtE; cl00786 1196835004615 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK02919 1196835004616 oxaloacetate decarboxylase; Provisional; Region: PRK14040 1196835004617 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1196835004618 active site 1196835004619 catalytic residues [active] 1196835004620 metal binding site [ion binding]; metal-binding site 1196835004621 homodimer binding site [polypeptide binding]; other site 1196835004622 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 1196835004623 carboxyltransferase (CT) interaction site; other site 1196835004624 biotinylation site [posttranslational modification]; other site 1196835004625 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 1196835004626 Arc-like DNA binding domain; Region: Arc; pfam03869 1196835004627 Excisionase-like protein; Region: Exc; pfam07825 1196835004628 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1196835004629 Transposase; Region: HTH_Tnp_1; pfam01527 1196835004630 putative transposase OrfB; Reviewed; Region: PHA02517 1196835004631 HTH-like domain; Region: HTH_21; pfam13276 1196835004632 Integrase core domain; Region: rve; pfam00665 1196835004633 Integrase core domain; Region: rve_2; pfam13333 1196835004634 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1196835004635 active site 1196835004636 catalytic site [active] 1196835004637 substrate binding site [chemical binding]; other site 1196835004638 Tic22-like family; Region: Tic22; cl04468 1196835004639 NTR_like domain; a beta barrel with an oligosaccharide/oligonucleotide-binding fold found in netrins, complement proteins, tissue inhibitors of metalloproteases (TIMP), and procollagen C-proteinase enhancers (PCOLCE), amongst others. In netrins, the...; Region: NTR_like; cl02512 1196835004640 DinB family; Region: DinB; cl17821 1196835004641 integron integrase; Region: integrase_gron; TIGR02249 1196835004642 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 1196835004643 Int/Topo IB signature motif; other site 1196835004644 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1196835004645 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 1196835004646 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1196835004647 active site 1196835004648 DNA binding site [nucleotide binding] 1196835004649 Int/Topo IB signature motif; other site 1196835004650 Flagellar regulator YcgR; Region: YcgR; pfam07317 1196835004651 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 1196835004652 PilZ domain; Region: PilZ; pfam07238 1196835004653 FlgN protein; Region: FlgN; pfam05130 1196835004654 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 1196835004655 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 1196835004656 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1196835004657 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1196835004658 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196835004659 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835004660 active site 1196835004661 phosphorylation site [posttranslational modification] 1196835004662 intermolecular recognition site; other site 1196835004663 dimerization interface [polypeptide binding]; other site 1196835004664 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1196835004665 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1196835004666 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 1196835004667 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1196835004668 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1196835004669 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1196835004670 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1196835004671 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1196835004672 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1196835004673 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1196835004674 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1196835004675 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1196835004676 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1196835004677 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1196835004678 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1196835004679 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1196835004680 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1196835004681 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1196835004682 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1196835004683 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1196835004684 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 1196835004685 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1196835004686 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1196835004687 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1196835004688 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 1196835004689 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 1196835004690 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1196835004691 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 1196835004692 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1196835004693 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 1196835004694 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1196835004695 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1196835004696 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 1196835004697 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 1196835004698 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1196835004699 non-specific DNA binding site [nucleotide binding]; other site 1196835004700 salt bridge; other site 1196835004701 sequence-specific DNA binding site [nucleotide binding]; other site 1196835004702 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1196835004703 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 1196835004704 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 1196835004705 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835004706 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835004707 metal binding site [ion binding]; metal-binding site 1196835004708 active site 1196835004709 I-site; other site 1196835004710 carboxy-terminal protease; Provisional; Region: PRK11186 1196835004711 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1196835004712 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 1196835004713 protein binding site [polypeptide binding]; other site 1196835004714 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1196835004715 Catalytic dyad [active] 1196835004716 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1196835004717 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1196835004718 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1196835004719 NAD(P) binding site [chemical binding]; other site 1196835004720 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 1196835004721 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1196835004722 active site 1196835004723 metal binding site [ion binding]; metal-binding site 1196835004724 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 1196835004725 S-adenosylmethionine binding site [chemical binding]; other site 1196835004726 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1196835004727 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1196835004728 active site 1196835004729 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1196835004730 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1196835004731 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 1196835004732 Switch I; other site 1196835004733 Switch II; other site 1196835004734 septum formation inhibitor; Reviewed; Region: minC; PRK00339 1196835004735 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1196835004736 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1196835004737 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1196835004738 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1196835004739 putative acyl-acceptor binding pocket; other site 1196835004740 Pirin-related protein [General function prediction only]; Region: COG1741 1196835004741 Pirin; Region: Pirin; pfam02678 1196835004742 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1196835004743 VacJ like lipoprotein; Region: VacJ; cl01073 1196835004744 Predicted membrane protein [Function unknown]; Region: COG3205 1196835004745 Predicted membrane protein [Function unknown]; Region: COG3162 1196835004746 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1196835004747 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1196835004748 Na binding site [ion binding]; other site 1196835004749 short chain dehydrogenase; Provisional; Region: PRK05650 1196835004750 classical (c) SDRs; Region: SDR_c; cd05233 1196835004751 NAD(P) binding site [chemical binding]; other site 1196835004752 active site 1196835004753 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1196835004754 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 1196835004755 hypothetical protein; Provisional; Region: PRK00304 1196835004756 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1196835004757 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1196835004758 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 1196835004759 dimer interface [polypeptide binding]; other site 1196835004760 phosphorylation site [posttranslational modification] 1196835004761 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 1196835004762 ATP binding site [chemical binding]; other site 1196835004763 Mg2+ binding site [ion binding]; other site 1196835004764 G-X-G motif; other site 1196835004765 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835004766 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835004767 active site 1196835004768 phosphorylation site [posttranslational modification] 1196835004769 intermolecular recognition site; other site 1196835004770 dimerization interface [polypeptide binding]; other site 1196835004771 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1196835004772 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 1196835004773 putative oligomer interface [polypeptide binding]; other site 1196835004774 putative active site [active] 1196835004775 metal binding site [ion binding]; metal-binding site 1196835004776 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 1196835004777 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196835004778 Coenzyme A binding pocket [chemical binding]; other site 1196835004779 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1196835004780 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 1196835004781 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1196835004782 active site 1196835004783 dimer interface [polypeptide binding]; other site 1196835004784 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 1196835004785 Ligand Binding Site [chemical binding]; other site 1196835004786 Molecular Tunnel; other site 1196835004787 MarR family; Region: MarR_2; cl17246 1196835004788 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 1196835004789 active site 1196835004790 catalytic residues [active] 1196835004791 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 1196835004792 Methyltransferase domain; Region: Methyltransf_25; pfam13649 1196835004793 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 1196835004794 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 1196835004795 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1196835004796 Protein of unknown function (DUF1264); Region: DUF1264; pfam06884 1196835004797 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1196835004798 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196835004799 NAD(P) binding site [chemical binding]; other site 1196835004800 active site 1196835004801 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 1196835004802 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 1196835004803 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 1196835004804 ATP binding site [chemical binding]; other site 1196835004805 putative Mg++ binding site [ion binding]; other site 1196835004806 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 1196835004807 nucleotide binding region [chemical binding]; other site 1196835004808 ATP-binding site [chemical binding]; other site 1196835004809 DEAD/H associated; Region: DEAD_assoc; pfam08494 1196835004810 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1196835004811 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1196835004812 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 1196835004813 RNA binding surface [nucleotide binding]; other site 1196835004814 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1196835004815 active site 1196835004816 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1196835004817 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1196835004818 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1196835004819 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1196835004820 Trp docking motif [polypeptide binding]; other site 1196835004821 putative active site [active] 1196835004822 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1196835004823 S1 domain; Region: S1_2; pfam13509 1196835004824 S1 domain; Region: S1_2; pfam13509 1196835004825 Protein of unknown function, DUF488; Region: DUF488; pfam04343 1196835004826 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 1196835004827 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 1196835004828 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 1196835004829 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 1196835004830 Peptidase M15; Region: Peptidase_M15_3; cl01194 1196835004831 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 1196835004832 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1196835004833 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 1196835004834 ATP binding site [chemical binding]; other site 1196835004835 putative Mg++ binding site [ion binding]; other site 1196835004836 HNH endonuclease; Region: HNH_2; pfam13391 1196835004837 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1196835004838 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1196835004839 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1196835004840 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1196835004841 Fic/DOC family; Region: Fic; cl00960 1196835004842 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1196835004843 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1196835004844 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1196835004845 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1196835004846 Protein of unknown function DUF91; Region: DUF91; cl00709 1196835004847 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1196835004848 Di-sulfide bridge nucleocytoplasmic transport domain; Region: Brr6_like_C_C; cl12377 1196835004849 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196835004850 ligand binding site [chemical binding]; other site 1196835004851 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1196835004852 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 1196835004853 ATP binding site [chemical binding]; other site 1196835004854 putative Mg++ binding site [ion binding]; other site 1196835004855 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 1196835004856 nucleotide binding region [chemical binding]; other site 1196835004857 ATP-binding site [chemical binding]; other site 1196835004858 Transposase domain (DUF772); Region: DUF772; pfam05598 1196835004859 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1196835004860 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1196835004861 putative transposase OrfB; Reviewed; Region: PHA02517 1196835004862 HTH-like domain; Region: HTH_21; pfam13276 1196835004863 Integrase core domain; Region: rve; pfam00665 1196835004864 Integrase core domain; Region: rve_3; pfam13683 1196835004865 Transposase; Region: HTH_Tnp_1; cl17663 1196835004866 Nitrate and nitrite sensing; Region: NIT; pfam08376 1196835004867 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1196835004868 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 1196835004869 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835004870 dimer interface [polypeptide binding]; other site 1196835004871 putative CheW interface [polypeptide binding]; other site 1196835004872 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1196835004873 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 1196835004874 N-terminal plug; other site 1196835004875 ligand-binding site [chemical binding]; other site 1196835004876 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835004877 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835004878 metal binding site [ion binding]; metal-binding site 1196835004879 active site 1196835004880 I-site; other site 1196835004881 SnoaL-like domain; Region: SnoaL_2; pfam12680 1196835004882 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1196835004883 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1196835004884 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1196835004885 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 1196835004886 putative active site [active] 1196835004887 heme pocket [chemical binding]; other site 1196835004888 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 1196835004889 Walker A motif; other site 1196835004890 ATP binding site [chemical binding]; other site 1196835004891 Walker B motif; other site 1196835004892 arginine finger; other site 1196835004893 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196835004894 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 1196835004895 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1196835004896 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 1196835004897 Acid Phosphatase; Region: Acid_PPase; cl17256 1196835004898 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1196835004899 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1196835004900 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835004901 active site 1196835004902 phosphorylation site [posttranslational modification] 1196835004903 intermolecular recognition site; other site 1196835004904 dimerization interface [polypeptide binding]; other site 1196835004905 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 1196835004906 DNA binding residues [nucleotide binding] 1196835004907 dimerization interface [polypeptide binding]; other site 1196835004908 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1196835004909 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196835004910 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 1196835004911 dimer interface [polypeptide binding]; other site 1196835004912 phosphorylation site [posttranslational modification] 1196835004913 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 1196835004914 ATP binding site [chemical binding]; other site 1196835004915 Mg2+ binding site [ion binding]; other site 1196835004916 G-X-G motif; other site 1196835004917 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196835004918 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835004919 active site 1196835004920 phosphorylation site [posttranslational modification] 1196835004921 intermolecular recognition site; other site 1196835004922 dimerization interface [polypeptide binding]; other site 1196835004923 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1196835004924 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1196835004925 putative ligand binding site [chemical binding]; other site 1196835004926 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1196835004927 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 1196835004928 TM-ABC transporter signature motif; other site 1196835004929 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1196835004930 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 1196835004931 TM-ABC transporter signature motif; other site 1196835004932 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1196835004933 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1196835004934 Walker A/P-loop; other site 1196835004935 ATP binding site [chemical binding]; other site 1196835004936 Q-loop/lid; other site 1196835004937 ABC transporter signature motif; other site 1196835004938 Walker B; other site 1196835004939 D-loop; other site 1196835004940 H-loop/switch region; other site 1196835004941 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1196835004942 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1196835004943 Walker A/P-loop; other site 1196835004944 ATP binding site [chemical binding]; other site 1196835004945 Q-loop/lid; other site 1196835004946 ABC transporter signature motif; other site 1196835004947 Walker B; other site 1196835004948 D-loop; other site 1196835004949 H-loop/switch region; other site 1196835004950 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 1196835004951 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 1196835004952 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 1196835004953 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 1196835004954 multimer interface [polypeptide binding]; other site 1196835004955 active site 1196835004956 catalytic triad [active] 1196835004957 dimer interface [polypeptide binding]; other site 1196835004958 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1196835004959 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 1196835004960 Walker A motif; other site 1196835004961 ATP binding site [chemical binding]; other site 1196835004962 Walker B motif; other site 1196835004963 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1196835004964 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1196835004965 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196835004966 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 1196835004967 Predicted deacetylase [General function prediction only]; Region: COG3233 1196835004968 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 1196835004969 putative active site [active] 1196835004970 putative Zn binding site [ion binding]; other site 1196835004971 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1196835004972 CsbD-like; Region: CsbD; pfam05532 1196835004973 Ferredoxin [Energy production and conversion]; Region: COG1146 1196835004974 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1196835004975 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1196835004976 MutS domain I; Region: MutS_I; pfam01624 1196835004977 MutS domain II; Region: MutS_II; pfam05188 1196835004978 MutS domain III; Region: MutS_III; pfam05192 1196835004979 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1196835004980 Walker A/P-loop; other site 1196835004981 ATP binding site [chemical binding]; other site 1196835004982 Q-loop/lid; other site 1196835004983 ABC transporter signature motif; other site 1196835004984 Walker B; other site 1196835004985 D-loop; other site 1196835004986 H-loop/switch region; other site 1196835004987 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 1196835004988 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1196835004989 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 1196835004990 active site 1196835004991 DNA binding site [nucleotide binding] 1196835004992 Int/Topo IB signature motif; other site 1196835004993 TIR domain; Region: TIR_2; pfam13676 1196835004994 AAA ATPase domain; Region: AAA_16; pfam13191 1196835004995 Transposase domain (DUF772); Region: DUF772; pfam05598 1196835004996 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1196835004997 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1196835004998 Transposase domain (DUF772); Region: DUF772; pfam05598 1196835004999 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1196835005000 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1196835005001 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835005002 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835005003 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 1196835005004 dimerization interface [polypeptide binding]; other site 1196835005005 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1196835005006 Thermostable Phosphite Dehydrogenase; Region: PTDH; cd12157 1196835005007 homodimer interface [polypeptide binding]; other site 1196835005008 ligand binding site [chemical binding]; other site 1196835005009 NAD binding site [chemical binding]; other site 1196835005010 catalytic site [active] 1196835005011 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1196835005012 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835005013 dimer interface [polypeptide binding]; other site 1196835005014 conserved gate region; other site 1196835005015 putative PBP binding loops; other site 1196835005016 ABC-ATPase subunit interface; other site 1196835005017 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 1196835005018 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1196835005019 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 1196835005020 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1196835005021 Walker A/P-loop; other site 1196835005022 ATP binding site [chemical binding]; other site 1196835005023 Q-loop/lid; other site 1196835005024 ABC transporter signature motif; other site 1196835005025 Walker B; other site 1196835005026 D-loop; other site 1196835005027 H-loop/switch region; other site 1196835005028 Transposase domain (DUF772); Region: DUF772; pfam05598 1196835005029 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1196835005030 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1196835005031 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1196835005032 putative active site [active] 1196835005033 putative NTP binding site [chemical binding]; other site 1196835005034 putative nucleic acid binding site [nucleotide binding]; other site 1196835005035 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1196835005036 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1196835005037 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1196835005038 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1196835005039 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1196835005040 DNA binding residues [nucleotide binding] 1196835005041 dimer interface [polypeptide binding]; other site 1196835005042 putative metal binding site [ion binding]; other site 1196835005043 Heavy-metal-associated domain; Region: HMA; pfam00403 1196835005044 metal-binding site [ion binding] 1196835005045 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1196835005046 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 1196835005047 metal-binding site [ion binding] 1196835005048 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1196835005049 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1196835005050 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 1196835005051 active site 1196835005052 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1196835005053 lipoprotein signal peptidase; Provisional; Region: PRK14787 1196835005054 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1196835005055 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1196835005056 catalytic residues [active] 1196835005057 catalytic nucleophile [active] 1196835005058 Presynaptic Site I dimer interface [polypeptide binding]; other site 1196835005059 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1196835005060 Synaptic Flat tetramer interface [polypeptide binding]; other site 1196835005061 Synaptic Site I dimer interface [polypeptide binding]; other site 1196835005062 DNA binding site [nucleotide binding] 1196835005063 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1196835005064 DNA-binding interface [nucleotide binding]; DNA binding site 1196835005065 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 1196835005066 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1196835005067 Competence-damaged protein; Region: CinA; pfam02464 1196835005068 recombinase A; Provisional; Region: recA; PRK09354 1196835005069 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 1196835005070 hexamer interface [polypeptide binding]; other site 1196835005071 Walker A motif; other site 1196835005072 ATP binding site [chemical binding]; other site 1196835005073 Walker B motif; other site 1196835005074 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1196835005075 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1196835005076 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1196835005077 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1196835005078 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1196835005079 Beta-Casp domain; Region: Beta-Casp; smart01027 1196835005080 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1196835005081 Phosphoketolase [Carbohydrate transport and metabolism]; Region: COG3957 1196835005082 XFP N-terminal domain; Region: XFP_N; pfam09364 1196835005083 Domain of unknown function (DUF4146); Region: DUF4146; pfam13652 1196835005084 Uncharacterized conserved protein [Function unknown]; Region: COG3148 1196835005085 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1196835005086 EamA-like transporter family; Region: EamA; pfam00892 1196835005087 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1196835005088 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835005089 active site 1196835005090 phosphorylation site [posttranslational modification] 1196835005091 intermolecular recognition site; other site 1196835005092 dimerization interface [polypeptide binding]; other site 1196835005093 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 1196835005094 DNA binding residues [nucleotide binding] 1196835005095 dimerization interface [polypeptide binding]; other site 1196835005096 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1196835005097 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835005098 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 1196835005099 putative dimerization interface [polypeptide binding]; other site 1196835005100 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1196835005101 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 1196835005102 FAD binding pocket [chemical binding]; other site 1196835005103 FAD binding motif [chemical binding]; other site 1196835005104 phosphate binding motif [ion binding]; other site 1196835005105 beta-alpha-beta structure motif; other site 1196835005106 NAD binding pocket [chemical binding]; other site 1196835005107 hypothetical protein; Provisional; Region: PRK00183 1196835005108 SEC-C motif; Region: SEC-C; pfam02810 1196835005109 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1196835005110 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196835005111 ligand binding site [chemical binding]; other site 1196835005112 Predicted integral membrane protein [Function unknown]; Region: COG5615 1196835005113 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 1196835005114 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 1196835005115 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1196835005116 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1196835005117 Beta-lactamase; Region: Beta-lactamase; pfam00144 1196835005118 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1196835005119 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196835005120 ligand binding site [chemical binding]; other site 1196835005121 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1196835005122 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1196835005123 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1196835005124 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1196835005125 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1196835005126 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1196835005127 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1196835005128 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 1196835005129 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1196835005130 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1196835005131 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1196835005132 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1196835005133 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1196835005134 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 1196835005135 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 1196835005136 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1196835005137 metal binding triad; other site 1196835005138 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1196835005139 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1196835005140 Zn2+ binding site [ion binding]; other site 1196835005141 Mg2+ binding site [ion binding]; other site 1196835005142 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 1196835005143 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 1196835005144 methionine aminopeptidase; Provisional; Region: PRK08671 1196835005145 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 1196835005146 active site 1196835005147 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 1196835005148 rRNA interaction site [nucleotide binding]; other site 1196835005149 S8 interaction site; other site 1196835005150 putative laminin-1 binding site; other site 1196835005151 elongation factor Ts; Provisional; Region: tsf; PRK09377 1196835005152 UBA/TS-N domain; Region: UBA; pfam00627 1196835005153 Elongation factor TS; Region: EF_TS; pfam00889 1196835005154 Elongation factor TS; Region: EF_TS; pfam00889 1196835005155 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 1196835005156 putative nucleotide binding site [chemical binding]; other site 1196835005157 uridine monophosphate binding site [chemical binding]; other site 1196835005158 homohexameric interface [polypeptide binding]; other site 1196835005159 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1196835005160 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 1196835005161 hinge region; other site 1196835005162 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1196835005163 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 1196835005164 catalytic residue [active] 1196835005165 putative FPP diphosphate binding site; other site 1196835005166 putative FPP binding hydrophobic cleft; other site 1196835005167 dimer interface [polypeptide binding]; other site 1196835005168 putative IPP diphosphate binding site; other site 1196835005169 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1196835005170 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1196835005171 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1196835005172 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1196835005173 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1196835005174 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1196835005175 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1196835005176 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 1196835005177 active site 1196835005178 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 1196835005179 protein binding site [polypeptide binding]; other site 1196835005180 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 1196835005181 protein binding site [polypeptide binding]; other site 1196835005182 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 1196835005183 putative substrate binding region [chemical binding]; other site 1196835005184 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1196835005185 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1196835005186 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1196835005187 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1196835005188 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1196835005189 Surface antigen; Region: Bac_surface_Ag; pfam01103 1196835005190 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 1196835005191 periplasmic chaperone; Provisional; Region: PRK10780 1196835005192 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1196835005193 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1196835005194 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 1196835005195 trimer interface [polypeptide binding]; other site 1196835005196 active site 1196835005197 UDP-GlcNAc binding site [chemical binding]; other site 1196835005198 lipid binding site [chemical binding]; lipid-binding site 1196835005199 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 1196835005200 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1196835005201 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 1196835005202 active site 1196835005203 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1196835005204 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1196835005205 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1196835005206 RNA/DNA hybrid binding site [nucleotide binding]; other site 1196835005207 active site 1196835005208 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1196835005209 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1196835005210 putative active site [active] 1196835005211 putative PHP Thumb interface [polypeptide binding]; other site 1196835005212 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 1196835005213 generic binding surface II; other site 1196835005214 generic binding surface I; other site 1196835005215 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1196835005216 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1196835005217 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 1196835005218 Ligand Binding Site [chemical binding]; other site 1196835005219 TilS substrate binding domain; Region: TilS; pfam09179 1196835005220 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1196835005221 CTP synthetase; Validated; Region: pyrG; PRK05380 1196835005222 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 1196835005223 Catalytic site [active] 1196835005224 active site 1196835005225 UTP binding site [chemical binding]; other site 1196835005226 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1196835005227 active site 1196835005228 putative oxyanion hole; other site 1196835005229 catalytic triad [active] 1196835005230 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1196835005231 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1196835005232 enolase; Provisional; Region: eno; PRK00077 1196835005233 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 1196835005234 dimer interface [polypeptide binding]; other site 1196835005235 metal binding site [ion binding]; metal-binding site 1196835005236 substrate binding pocket [chemical binding]; other site 1196835005237 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1196835005238 Septum formation initiator; Region: DivIC; cl17659 1196835005239 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1196835005240 substrate binding site; other site 1196835005241 dimer interface; other site 1196835005242 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; cl00250 1196835005243 30S subunit binding site; other site 1196835005244 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835005245 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835005246 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 1196835005247 putative effector binding pocket; other site 1196835005248 putative dimerization interface [polypeptide binding]; other site 1196835005249 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1196835005250 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1196835005251 substrate binding site [chemical binding]; other site 1196835005252 catalytic Zn binding site [ion binding]; other site 1196835005253 NAD binding site [chemical binding]; other site 1196835005254 structural Zn binding site [ion binding]; other site 1196835005255 dimer interface [polypeptide binding]; other site 1196835005256 S-formylglutathione hydrolase; Region: PLN02442 1196835005257 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1196835005258 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1196835005259 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1196835005260 FMN binding site [chemical binding]; other site 1196835005261 active site 1196835005262 substrate binding site [chemical binding]; other site 1196835005263 catalytic residue [active] 1196835005264 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 1196835005265 dimerization interface [polypeptide binding]; other site 1196835005266 putative DNA binding site [nucleotide binding]; other site 1196835005267 putative Zn2+ binding site [ion binding]; other site 1196835005268 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 1196835005269 homotrimer interaction site [polypeptide binding]; other site 1196835005270 zinc binding site [ion binding]; other site 1196835005271 CDP-binding sites; other site 1196835005272 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1196835005273 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1196835005274 Permutation of conserved domain; other site 1196835005275 active site 1196835005276 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1196835005277 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1196835005278 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1196835005279 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 1196835005280 S-adenosylmethionine binding site [chemical binding]; other site 1196835005281 Domain of unknown function (DUF368); Region: DUF368; pfam04018 1196835005282 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1196835005283 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1196835005284 Peptidase family M23; Region: Peptidase_M23; pfam01551 1196835005285 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 1196835005286 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1196835005287 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196835005288 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1196835005289 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 1196835005290 DNA binding residues [nucleotide binding] 1196835005291 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1196835005292 Coenzyme A binding pocket [chemical binding]; other site 1196835005293 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_31; cd04690 1196835005294 nudix motif; other site 1196835005295 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 1196835005296 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1196835005297 Na binding site [ion binding]; other site 1196835005298 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 1196835005299 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 1196835005300 active site 1196835005301 dimerization interface [polypeptide binding]; other site 1196835005302 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1196835005303 heme-binding site [chemical binding]; other site 1196835005304 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 1196835005305 Ligand Binding Site [chemical binding]; other site 1196835005306 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1196835005307 active site 1196835005308 hypothetical protein; Provisional; Region: PRK12378 1196835005309 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1196835005310 EamA-like transporter family; Region: EamA; cl17759 1196835005311 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1196835005312 MOSC domain; Region: MOSC; pfam03473 1196835005313 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 1196835005314 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1196835005315 Zn2+ binding site [ion binding]; other site 1196835005316 Mg2+ binding site [ion binding]; other site 1196835005317 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1196835005318 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1196835005319 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 1196835005320 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1196835005321 putative ligand binding site [chemical binding]; other site 1196835005322 NAD binding site [chemical binding]; other site 1196835005323 dimerization interface [polypeptide binding]; other site 1196835005324 catalytic site [active] 1196835005325 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 1196835005326 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 1196835005327 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1196835005328 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 1196835005329 active site 1196835005330 dimerization interface [polypeptide binding]; other site 1196835005331 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; cl00250 1196835005332 30S subunit binding site; other site 1196835005333 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 1196835005334 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 1196835005335 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1196835005336 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1196835005337 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835005338 dimer interface [polypeptide binding]; other site 1196835005339 putative CheW interface [polypeptide binding]; other site 1196835005340 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1196835005341 Cell division protein ZapA; Region: ZapA; pfam05164 1196835005342 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1196835005343 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1196835005344 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 1196835005345 putative DNA binding site [nucleotide binding]; other site 1196835005346 putative Zn2+ binding site [ion binding]; other site 1196835005347 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1196835005348 glycerol kinase; Provisional; Region: glpK; PRK00047 1196835005349 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1196835005350 N- and C-terminal domain interface [polypeptide binding]; other site 1196835005351 active site 1196835005352 MgATP binding site [chemical binding]; other site 1196835005353 catalytic site [active] 1196835005354 metal binding site [ion binding]; metal-binding site 1196835005355 glycerol binding site [chemical binding]; other site 1196835005356 homotetramer interface [polypeptide binding]; other site 1196835005357 homodimer interface [polypeptide binding]; other site 1196835005358 FBP binding site [chemical binding]; other site 1196835005359 protein IIAGlc interface [polypeptide binding]; other site 1196835005360 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1196835005361 amphipathic channel; other site 1196835005362 Asn-Pro-Ala signature motifs; other site 1196835005363 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1196835005364 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 1196835005365 ATP binding site [chemical binding]; other site 1196835005366 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1196835005367 putative Mg++ binding site [ion binding]; other site 1196835005368 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 1196835005369 nucleotide binding region [chemical binding]; other site 1196835005370 ATP-binding site [chemical binding]; other site 1196835005371 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 1196835005372 Ion transport protein; Region: Ion_trans; pfam00520 1196835005373 Ion channel; Region: Ion_trans_2; pfam07885 1196835005374 Protein of unknown function DUF72; Region: DUF72; pfam01904 1196835005375 short chain dehydrogenase; Provisional; Region: PRK06701 1196835005376 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1196835005377 NAD binding site [chemical binding]; other site 1196835005378 metal binding site [ion binding]; metal-binding site 1196835005379 active site 1196835005380 putative arabinose transporter; Provisional; Region: PRK03545 1196835005381 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 1196835005382 putative substrate translocation pore; other site 1196835005383 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1196835005384 Peptidase family U32; Region: Peptidase_U32; pfam01136 1196835005385 Collagenase; Region: DUF3656; pfam12392 1196835005386 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 1196835005387 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 1196835005388 active site 1196835005389 Putative glucoamylase; Region: Glycoamylase; pfam10091 1196835005390 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 1196835005391 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1196835005392 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 1196835005393 SCP: SCP-like extracellular protein domain, found in eukaryotes and prokaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in...; Region: SCP; cl00133 1196835005394 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1196835005395 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1196835005396 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1196835005397 metal binding site [ion binding]; metal-binding site 1196835005398 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1196835005399 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1196835005400 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1196835005401 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 1196835005402 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 1196835005403 DNA binding residues [nucleotide binding] 1196835005404 dimer interface [polypeptide binding]; other site 1196835005405 putative metal binding site [ion binding]; other site 1196835005406 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 1196835005407 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 1196835005408 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1196835005409 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 1196835005410 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1196835005411 NAD(P) binding site [chemical binding]; other site 1196835005412 active site 1196835005413 Predicted transcriptional regulators [Transcription]; Region: COG1733 1196835005414 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1196835005415 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835005416 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835005417 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 1196835005418 putative substrate binding pocket [chemical binding]; other site 1196835005419 putative dimerization interface [polypeptide binding]; other site 1196835005420 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1196835005421 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1196835005422 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 1196835005423 PAS domain; Region: PAS_9; pfam13426 1196835005424 putative active site [active] 1196835005425 heme pocket [chemical binding]; other site 1196835005426 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 1196835005427 PAS domain; Region: PAS_9; pfam13426 1196835005428 putative active site [active] 1196835005429 heme pocket [chemical binding]; other site 1196835005430 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835005431 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835005432 dimer interface [polypeptide binding]; other site 1196835005433 putative CheW interface [polypeptide binding]; other site 1196835005434 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 1196835005435 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1196835005436 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 1196835005437 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196835005438 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196835005439 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1196835005440 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 1196835005441 S-adenosylmethionine binding site [chemical binding]; other site 1196835005442 Putative amidotransferase; Region: DUF4066; pfam13278 1196835005443 conserved cys residue [active] 1196835005444 cyanate transporter; Region: CynX; TIGR00896 1196835005445 MarR family; Region: MarR_2; cl17246 1196835005446 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1196835005447 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196835005448 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1196835005449 Coenzyme A binding pocket [chemical binding]; other site 1196835005450 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1196835005451 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1196835005452 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1196835005453 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1196835005454 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835005455 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 1196835005456 dimerization interface [polypeptide binding]; other site 1196835005457 substrate binding pocket [chemical binding]; other site 1196835005458 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1196835005459 synthetase active site [active] 1196835005460 NTP binding site [chemical binding]; other site 1196835005461 metal binding site [ion binding]; metal-binding site 1196835005462 AAA domain; Region: AAA_31; pfam13614 1196835005463 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 1196835005464 P-loop; other site 1196835005465 Magnesium ion binding site [ion binding]; other site 1196835005466 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 1196835005467 Magnesium ion binding site [ion binding]; other site 1196835005468 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1196835005469 dimer interface [polypeptide binding]; other site 1196835005470 putative radical transfer pathway; other site 1196835005471 diiron center [ion binding]; other site 1196835005472 tyrosyl radical; other site 1196835005473 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 1196835005474 ATP cone domain; Region: ATP-cone; pfam03477 1196835005475 ATP cone domain; Region: ATP-cone; pfam03477 1196835005476 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1196835005477 active site 1196835005478 dimer interface [polypeptide binding]; other site 1196835005479 catalytic residues [active] 1196835005480 effector binding site; other site 1196835005481 R2 peptide binding site; other site 1196835005482 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1196835005483 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835005484 active site 1196835005485 phosphorylation site [posttranslational modification] 1196835005486 intermolecular recognition site; other site 1196835005487 dimerization interface [polypeptide binding]; other site 1196835005488 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 1196835005489 DNA binding site [nucleotide binding] 1196835005490 sensor protein RstB; Provisional; Region: PRK10604 1196835005491 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 1196835005492 dimerization interface [polypeptide binding]; other site 1196835005493 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 1196835005494 dimer interface [polypeptide binding]; other site 1196835005495 phosphorylation site [posttranslational modification] 1196835005496 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 1196835005497 ATP binding site [chemical binding]; other site 1196835005498 Mg2+ binding site [ion binding]; other site 1196835005499 G-X-G motif; other site 1196835005500 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 1196835005501 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1196835005502 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196835005503 Coenzyme A binding pocket [chemical binding]; other site 1196835005504 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1196835005505 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1196835005506 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1196835005507 putative acyl-acceptor binding pocket; other site 1196835005508 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1196835005509 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1196835005510 dimer interface [polypeptide binding]; other site 1196835005511 active site 1196835005512 heme binding site [chemical binding]; other site 1196835005513 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1196835005514 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 1196835005515 S-adenosylmethionine binding site [chemical binding]; other site 1196835005516 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 1196835005517 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1196835005518 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1196835005519 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1196835005520 Beta-lactamase; Region: Beta-lactamase; pfam00144 1196835005521 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1196835005522 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1196835005523 Walker A/P-loop; other site 1196835005524 ATP binding site [chemical binding]; other site 1196835005525 Q-loop/lid; other site 1196835005526 ABC transporter signature motif; other site 1196835005527 Walker B; other site 1196835005528 D-loop; other site 1196835005529 H-loop/switch region; other site 1196835005530 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 1196835005531 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1196835005532 ABC-type uncharacterized transport system involved in gliding motility, auxiliary component [Cell motility and secretion]; Region: GldG; COG3225 1196835005533 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 1196835005534 DNA-binding site [nucleotide binding]; DNA binding site 1196835005535 RNA-binding motif; other site 1196835005536 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1196835005537 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 1196835005538 S-adenosylmethionine binding site [chemical binding]; other site 1196835005539 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1196835005540 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1196835005541 metal binding site [ion binding]; metal-binding site 1196835005542 dimer interface [polypeptide binding]; other site 1196835005543 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1196835005544 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 1196835005545 putative ATP binding site [chemical binding]; other site 1196835005546 putative substrate interface [chemical binding]; other site 1196835005547 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 1196835005548 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1196835005549 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1196835005550 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1196835005551 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 1196835005552 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 1196835005553 active site 1196835005554 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835005555 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835005556 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1196835005557 dimerization interface [polypeptide binding]; other site 1196835005558 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 1196835005559 helicase 45; Provisional; Region: PTZ00424 1196835005560 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 1196835005561 ATP binding site [chemical binding]; other site 1196835005562 Mg++ binding site [ion binding]; other site 1196835005563 motif III; other site 1196835005564 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 1196835005565 nucleotide binding region [chemical binding]; other site 1196835005566 ATP-binding site [chemical binding]; other site 1196835005567 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835005568 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835005569 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 1196835005570 dimerization interface [polypeptide binding]; other site 1196835005571 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1196835005572 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1196835005573 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 1196835005574 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1196835005575 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1196835005576 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 1196835005577 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 1196835005578 dimerization interface [polypeptide binding]; other site 1196835005579 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 1196835005580 dimer interface [polypeptide binding]; other site 1196835005581 phosphorylation site [posttranslational modification] 1196835005582 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 1196835005583 ATP binding site [chemical binding]; other site 1196835005584 Mg2+ binding site [ion binding]; other site 1196835005585 G-X-G motif; other site 1196835005586 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835005587 active site 1196835005588 phosphorylation site [posttranslational modification] 1196835005589 intermolecular recognition site; other site 1196835005590 dimerization interface [polypeptide binding]; other site 1196835005591 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 1196835005592 putative binding surface; other site 1196835005593 active site 1196835005594 Predicted membrane protein [Function unknown]; Region: COG2860 1196835005595 UPF0126 domain; Region: UPF0126; pfam03458 1196835005596 UPF0126 domain; Region: UPF0126; pfam03458 1196835005597 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 1196835005598 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835005599 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 1196835005600 putative dimerization interface [polypeptide binding]; other site 1196835005601 cysteine synthase B; Region: cysM; TIGR01138 1196835005602 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 1196835005603 dimer interface [polypeptide binding]; other site 1196835005604 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835005605 catalytic residue [active] 1196835005606 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1196835005607 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 1196835005608 S-adenosylmethionine binding site [chemical binding]; other site 1196835005609 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1196835005610 HD domain; Region: HD_4; pfam13328 1196835005611 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1196835005612 synthetase active site [active] 1196835005613 NTP binding site [chemical binding]; other site 1196835005614 metal binding site [ion binding]; metal-binding site 1196835005615 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 1196835005616 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1196835005617 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1196835005618 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 1196835005619 homodimer interface [polypeptide binding]; other site 1196835005620 metal binding site [ion binding]; metal-binding site 1196835005621 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 1196835005622 homodimer interface [polypeptide binding]; other site 1196835005623 active site 1196835005624 putative chemical substrate binding site [chemical binding]; other site 1196835005625 metal binding site [ion binding]; metal-binding site 1196835005626 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 1196835005627 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 1196835005628 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1196835005629 putative active site [active] 1196835005630 putative metal binding site [ion binding]; other site 1196835005631 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 1196835005632 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 1196835005633 ATP binding site [chemical binding]; other site 1196835005634 putative Mg++ binding site [ion binding]; other site 1196835005635 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 1196835005636 nucleotide binding region [chemical binding]; other site 1196835005637 ATP-binding site [chemical binding]; other site 1196835005638 DEAD/H associated; Region: DEAD_assoc; pfam08494 1196835005639 ATP-dependent DNA ligase; Validated; Region: PRK09247 1196835005640 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 1196835005641 active site 1196835005642 DNA binding site [nucleotide binding] 1196835005643 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 1196835005644 DNA binding site [nucleotide binding] 1196835005645 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 1196835005646 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1196835005647 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1196835005648 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1196835005649 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1196835005650 active site 1196835005651 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1196835005652 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1196835005653 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1196835005654 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 1196835005655 active site residue [active] 1196835005656 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 1196835005657 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1196835005658 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1196835005659 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1196835005660 Zn2+ binding site [ion binding]; other site 1196835005661 Mg2+ binding site [ion binding]; other site 1196835005662 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1196835005663 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1196835005664 substrate binding site [chemical binding]; other site 1196835005665 oxyanion hole (OAH) forming residues; other site 1196835005666 trimer interface [polypeptide binding]; other site 1196835005667 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1196835005668 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 1196835005669 inhibitor-cofactor binding pocket; inhibition site 1196835005670 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835005671 catalytic residue [active] 1196835005672 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1196835005673 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1196835005674 active site 1196835005675 Zn binding site [ion binding]; other site 1196835005676 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1196835005677 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835005678 Walker A/P-loop; other site 1196835005679 ATP binding site [chemical binding]; other site 1196835005680 Q-loop/lid; other site 1196835005681 ABC transporter signature motif; other site 1196835005682 Walker B; other site 1196835005683 D-loop; other site 1196835005684 H-loop/switch region; other site 1196835005685 inner membrane transport permease; Provisional; Region: PRK15066 1196835005686 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1196835005687 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1196835005688 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1196835005689 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1196835005690 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 1196835005691 VacJ like lipoprotein; Region: VacJ; cl01073 1196835005692 PilZ domain; Region: PilZ; pfam07238 1196835005693 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835005694 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835005695 active site 1196835005696 phosphorylation site [posttranslational modification] 1196835005697 intermolecular recognition site; other site 1196835005698 dimerization interface [polypeptide binding]; other site 1196835005699 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1196835005700 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 1196835005701 anti sigma factor interaction site; other site 1196835005702 regulatory phosphorylation site [posttranslational modification]; other site 1196835005703 transaldolase-like protein; Provisional; Region: PTZ00411 1196835005704 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1196835005705 active site 1196835005706 dimer interface [polypeptide binding]; other site 1196835005707 catalytic residue [active] 1196835005708 tRNA dihydrouridine synthase A; Region: yjbN; TIGR00742 1196835005709 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 1196835005710 FMN binding site [chemical binding]; other site 1196835005711 active site 1196835005712 catalytic residues [active] 1196835005713 substrate binding site [chemical binding]; other site 1196835005714 potential frameshift: common BLAST hit: gi|386020315|ref|YP_005938339.1| benABC operon transcriptional activator BenR 1196835005715 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 1196835005716 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 1196835005717 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 1196835005718 putative alpha subunit interface [polypeptide binding]; other site 1196835005719 putative active site [active] 1196835005720 putative substrate binding site [chemical binding]; other site 1196835005721 Fe binding site [ion binding]; other site 1196835005722 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 1196835005723 inter-subunit interface; other site 1196835005724 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 1196835005725 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 1196835005726 catalytic loop [active] 1196835005727 iron binding site [ion binding]; other site 1196835005728 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 1196835005729 FAD binding pocket [chemical binding]; other site 1196835005730 FAD binding motif [chemical binding]; other site 1196835005731 phosphate binding motif [ion binding]; other site 1196835005732 beta-alpha-beta structure motif; other site 1196835005733 NAD binding pocket [chemical binding]; other site 1196835005734 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 1196835005735 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 1196835005736 putative NAD(P) binding site [chemical binding]; other site 1196835005737 active site 1196835005738 benzoate transport; Region: 2A0115; TIGR00895 1196835005739 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 1196835005740 putative substrate translocation pore; other site 1196835005741 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 1196835005742 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 1196835005743 octamer interface [polypeptide binding]; other site 1196835005744 active site 1196835005745 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 1196835005746 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1196835005747 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 1196835005748 dimer interface [polypeptide binding]; other site 1196835005749 active site 1196835005750 Benzoate membrane transport protein; Region: BenE; pfam03594 1196835005751 benzoate transporter; Region: benE; TIGR00843 1196835005752 outer membrane porin, OprD family; Region: OprD; pfam03573 1196835005753 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1196835005754 active site 1196835005755 Predicted permease [General function prediction only]; Region: COG2056 1196835005756 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1196835005757 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1196835005758 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1196835005759 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 1196835005760 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1196835005761 tetramer interface [polypeptide binding]; other site 1196835005762 active site 1196835005763 Mg2+/Mn2+ binding site [ion binding]; other site 1196835005764 isocitrate lyase; Region: PLN02892 1196835005765 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1196835005766 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1196835005767 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1196835005768 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196835005769 Coenzyme A binding pocket [chemical binding]; other site 1196835005770 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1196835005771 adenylosuccinate lyase; Provisional; Region: PRK09285 1196835005772 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1196835005773 tetramer interface [polypeptide binding]; other site 1196835005774 active site 1196835005775 putative lysogenization regulator; Reviewed; Region: PRK00218 1196835005776 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1196835005777 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 1196835005778 Ligand Binding Site [chemical binding]; other site 1196835005779 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 1196835005780 nudix motif; other site 1196835005781 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 1196835005782 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 1196835005783 isocitrate dehydrogenase; Validated; Region: PRK07362 1196835005784 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1196835005785 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 1196835005786 DNA-binding site [nucleotide binding]; DNA binding site 1196835005787 RNA-binding motif; other site 1196835005788 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 1196835005789 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 1196835005790 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 1196835005791 Walker A motif; other site 1196835005792 ATP binding site [chemical binding]; other site 1196835005793 Walker B motif; other site 1196835005794 arginine finger; other site 1196835005795 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 1196835005796 Walker A motif; other site 1196835005797 ATP binding site [chemical binding]; other site 1196835005798 Walker B motif; other site 1196835005799 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1196835005800 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 1196835005801 rRNA binding site [nucleotide binding]; other site 1196835005802 predicted 30S ribosome binding site; other site 1196835005803 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1196835005804 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1196835005805 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1196835005806 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1196835005807 thioredoxin reductase; Provisional; Region: PRK10262 1196835005808 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1196835005809 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196835005810 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1196835005811 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1196835005812 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1196835005813 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1196835005814 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1196835005815 recombination factor protein RarA; Reviewed; Region: PRK13342 1196835005816 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 1196835005817 Walker A motif; other site 1196835005818 ATP binding site [chemical binding]; other site 1196835005819 Walker B motif; other site 1196835005820 arginine finger; other site 1196835005821 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1196835005822 camphor resistance protein CrcB; Provisional; Region: PRK14234 1196835005823 seryl-tRNA synthetase; Provisional; Region: PRK05431 1196835005824 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1196835005825 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 1196835005826 dimer interface [polypeptide binding]; other site 1196835005827 active site 1196835005828 motif 1; other site 1196835005829 motif 2; other site 1196835005830 motif 3; other site 1196835005831 siroheme synthase; Provisional; Region: cysG; PRK10637 1196835005832 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1196835005833 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1196835005834 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1196835005835 active site 1196835005836 SAM binding site [chemical binding]; other site 1196835005837 homodimer interface [polypeptide binding]; other site 1196835005838 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1196835005839 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835005840 active site 1196835005841 phosphorylation site [posttranslational modification] 1196835005842 intermolecular recognition site; other site 1196835005843 dimerization interface [polypeptide binding]; other site 1196835005844 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 1196835005845 DNA binding residues [nucleotide binding] 1196835005846 dimerization interface [polypeptide binding]; other site 1196835005847 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 1196835005848 active site residue [active] 1196835005849 alcohol ABC transporter, permease protein; Region: phenyl_ABC_PedC; TIGR03861 1196835005850 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1196835005851 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 1196835005852 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835005853 Walker A/P-loop; other site 1196835005854 ATP binding site [chemical binding]; other site 1196835005855 Q-loop/lid; other site 1196835005856 ABC transporter signature motif; other site 1196835005857 Walker B; other site 1196835005858 D-loop; other site 1196835005859 H-loop/switch region; other site 1196835005860 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1196835005861 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1196835005862 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1196835005863 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1196835005864 Sel1 repeat; Region: Sel1; cl02723 1196835005865 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1196835005866 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 1196835005867 ligand binding site [chemical binding]; other site 1196835005868 Cache domain; Region: Cache_1; pfam02743 1196835005869 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 1196835005870 dimerization interface [polypeptide binding]; other site 1196835005871 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835005872 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835005873 dimer interface [polypeptide binding]; other site 1196835005874 putative CheW interface [polypeptide binding]; other site 1196835005875 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1196835005876 dimerization interface [polypeptide binding]; other site 1196835005877 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1196835005878 Histidine kinase; Region: HisKA_3; pfam07730 1196835005879 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1196835005880 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835005881 active site 1196835005882 phosphorylation site [posttranslational modification] 1196835005883 intermolecular recognition site; other site 1196835005884 dimerization interface [polypeptide binding]; other site 1196835005885 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 1196835005886 DNA binding residues [nucleotide binding] 1196835005887 dimerization interface [polypeptide binding]; other site 1196835005888 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1196835005889 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 1196835005890 N-terminal plug; other site 1196835005891 ligand-binding site [chemical binding]; other site 1196835005892 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196835005893 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 1196835005894 putative substrate translocation pore; other site 1196835005895 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 1196835005896 catalytic site [active] 1196835005897 putative active site [active] 1196835005898 putative substrate binding site [chemical binding]; other site 1196835005899 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 1196835005900 PAS domain; Region: PAS_9; pfam13426 1196835005901 putative active site [active] 1196835005902 heme pocket [chemical binding]; other site 1196835005903 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 1196835005904 PAS domain; Region: PAS_9; pfam13426 1196835005905 putative active site [active] 1196835005906 heme pocket [chemical binding]; other site 1196835005907 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835005908 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835005909 dimer interface [polypeptide binding]; other site 1196835005910 putative CheW interface [polypeptide binding]; other site 1196835005911 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1196835005912 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1196835005913 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1196835005914 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1196835005915 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1196835005916 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1196835005917 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1196835005918 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 1196835005919 dimer interface [polypeptide binding]; other site 1196835005920 Trp docking motif [polypeptide binding]; other site 1196835005921 active site 1196835005922 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1196835005923 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 1196835005924 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196835005925 substrate binding pocket [chemical binding]; other site 1196835005926 membrane-bound complex binding site; other site 1196835005927 hinge residues; other site 1196835005928 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 1196835005929 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 1196835005930 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1196835005931 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1196835005932 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1196835005933 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1196835005934 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 1196835005935 dimer interface [polypeptide binding]; other site 1196835005936 Trp docking motif [polypeptide binding]; other site 1196835005937 active site 1196835005938 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1196835005939 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835005940 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835005941 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196835005942 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196835005943 active site 1196835005944 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 1196835005945 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1196835005946 NAD binding site [chemical binding]; other site 1196835005947 homotetramer interface [polypeptide binding]; other site 1196835005948 homodimer interface [polypeptide binding]; other site 1196835005949 substrate binding site [chemical binding]; other site 1196835005950 active site 1196835005951 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1196835005952 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1196835005953 Walker A/P-loop; other site 1196835005954 ATP binding site [chemical binding]; other site 1196835005955 Q-loop/lid; other site 1196835005956 ABC transporter signature motif; other site 1196835005957 Walker B; other site 1196835005958 D-loop; other site 1196835005959 H-loop/switch region; other site 1196835005960 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1196835005961 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1196835005962 Walker A/P-loop; other site 1196835005963 ATP binding site [chemical binding]; other site 1196835005964 Q-loop/lid; other site 1196835005965 ABC transporter signature motif; other site 1196835005966 Walker B; other site 1196835005967 D-loop; other site 1196835005968 H-loop/switch region; other site 1196835005969 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1196835005970 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1196835005971 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835005972 dimer interface [polypeptide binding]; other site 1196835005973 conserved gate region; other site 1196835005974 putative PBP binding loops; other site 1196835005975 ABC-ATPase subunit interface; other site 1196835005976 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1196835005977 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835005978 dimer interface [polypeptide binding]; other site 1196835005979 conserved gate region; other site 1196835005980 putative PBP binding loops; other site 1196835005981 ABC-ATPase subunit interface; other site 1196835005982 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1196835005983 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 1196835005984 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1196835005985 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 1196835005986 HDOD domain; Region: HDOD; pfam08668 1196835005987 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 1196835005988 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1196835005989 catalytic residue [active] 1196835005990 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1196835005991 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1196835005992 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1196835005993 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1196835005994 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 1196835005995 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1196835005996 RNA/DNA hybrid binding site [nucleotide binding]; other site 1196835005997 active site 1196835005998 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1196835005999 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 1196835006000 active site 1196835006001 catalytic site [active] 1196835006002 substrate binding site [chemical binding]; other site 1196835006003 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1196835006004 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1196835006005 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 1196835006006 homodimer interface [polypeptide binding]; other site 1196835006007 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835006008 catalytic residue [active] 1196835006009 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1196835006010 enoyl-CoA hydratase; Provisional; Region: PRK06142 1196835006011 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1196835006012 substrate binding site [chemical binding]; other site 1196835006013 oxyanion hole (OAH) forming residues; other site 1196835006014 trimer interface [polypeptide binding]; other site 1196835006015 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1196835006016 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1196835006017 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1196835006018 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 1196835006019 putative NADH binding site [chemical binding]; other site 1196835006020 putative active site [active] 1196835006021 nudix motif; other site 1196835006022 putative metal binding site [ion binding]; other site 1196835006023 hypothetical protein; Provisional; Region: PRK10621 1196835006024 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1196835006025 short chain dehydrogenase; Provisional; Region: PRK07035 1196835006026 classical (c) SDRs; Region: SDR_c; cd05233 1196835006027 NAD(P) binding site [chemical binding]; other site 1196835006028 active site 1196835006029 Phosphotransferase enzyme family; Region: APH; pfam01636 1196835006030 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 1196835006031 putative active site [active] 1196835006032 putative substrate binding site [chemical binding]; other site 1196835006033 ATP binding site [chemical binding]; other site 1196835006034 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1196835006035 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 1196835006036 catalytic core [active] 1196835006037 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1196835006038 putative inner membrane peptidase; Provisional; Region: PRK11778 1196835006039 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1196835006040 tandem repeat interface [polypeptide binding]; other site 1196835006041 oligomer interface [polypeptide binding]; other site 1196835006042 active site residues [active] 1196835006043 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 1196835006044 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1196835006045 NADP binding site [chemical binding]; other site 1196835006046 dimer interface [polypeptide binding]; other site 1196835006047 imidazolonepropionase; Validated; Region: PRK09356 1196835006048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 1196835006049 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1196835006050 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1196835006051 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1196835006052 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1196835006053 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1196835006054 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 1196835006055 putative dimer interface [polypeptide binding]; other site 1196835006056 Leucine rich repeat; Region: LRR_8; pfam13855 1196835006057 Leucine rich repeat; Region: LRR_8; pfam13855 1196835006058 Protein tyrosine kinase; Region: Pkinase_Tyr; pfam07714 1196835006059 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1196835006060 active site 1196835006061 ATP binding site [chemical binding]; other site 1196835006062 substrate binding site [chemical binding]; other site 1196835006063 activation loop (A-loop); other site 1196835006064 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14464 1196835006065 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 1196835006066 FeS/SAM binding site; other site 1196835006067 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1196835006068 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 1196835006069 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1196835006070 AAA domain; Region: AAA_28; pfam13521 1196835006071 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1196835006072 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1196835006073 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1196835006074 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1196835006075 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 1196835006076 substrate binding pocket [chemical binding]; other site 1196835006077 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 1196835006078 B12 binding site [chemical binding]; other site 1196835006079 cobalt ligand [ion binding]; other site 1196835006080 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1196835006081 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 1196835006082 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1196835006083 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 1196835006084 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1196835006085 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835006086 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835006087 active site 1196835006088 phosphorylation site [posttranslational modification] 1196835006089 intermolecular recognition site; other site 1196835006090 dimerization interface [polypeptide binding]; other site 1196835006091 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1196835006092 PAS domain; Region: PAS; smart00091 1196835006093 PAS fold; Region: PAS_4; pfam08448 1196835006094 putative active site [active] 1196835006095 heme pocket [chemical binding]; other site 1196835006096 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835006097 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835006098 metal binding site [ion binding]; metal-binding site 1196835006099 active site 1196835006100 I-site; other site 1196835006101 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 1196835006102 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 1196835006103 active site 1196835006104 DNA binding site [nucleotide binding] 1196835006105 Int/Topo IB signature motif; other site 1196835006106 catalytic residues [active] 1196835006107 Predicted membrane protein [Function unknown]; Region: COG2323 1196835006108 Cache domain; Region: Cache_2; pfam08269 1196835006109 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 1196835006110 dimerization interface [polypeptide binding]; other site 1196835006111 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835006112 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835006113 dimer interface [polypeptide binding]; other site 1196835006114 putative CheW interface [polypeptide binding]; other site 1196835006115 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1196835006116 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1196835006117 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1196835006118 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196835006119 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835006120 Walker A/P-loop; other site 1196835006121 ATP binding site [chemical binding]; other site 1196835006122 ABC transporter signature motif; other site 1196835006123 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196835006124 Walker B; other site 1196835006125 ABC transporter; Region: ABC_tran_2; pfam12848 1196835006126 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196835006127 potential frameshift: common BLAST hit: gi|339494170|ref|YP_004714463.1| TonB-dependent siderophore receptor 1196835006128 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1196835006129 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1196835006130 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 1196835006131 homotrimer interaction site [polypeptide binding]; other site 1196835006132 putative active site [active] 1196835006133 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1196835006134 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196835006135 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1196835006136 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1196835006137 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835006138 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 1196835006139 dimerization interface [polypeptide binding]; other site 1196835006140 Predicted ATPase [General function prediction only]; Region: COG1485 1196835006141 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1196835006142 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 1196835006143 ATP-binding site [chemical binding]; other site 1196835006144 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1196835006145 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1196835006146 DctM-like transporters; Region: DctM; pfam06808 1196835006147 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1196835006148 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1196835006149 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1196835006150 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1196835006151 DNA binding site [nucleotide binding] 1196835006152 domain linker motif; other site 1196835006153 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 1196835006154 putative ligand binding site [chemical binding]; other site 1196835006155 putative dimerization interface [polypeptide binding]; other site 1196835006156 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1196835006157 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835006158 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1196835006159 substrate binding pocket [chemical binding]; other site 1196835006160 dimerization interface [polypeptide binding]; other site 1196835006161 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1196835006162 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 1196835006163 FAD binding site [chemical binding]; other site 1196835006164 substrate binding site [chemical binding]; other site 1196835006165 catalytic base [active] 1196835006166 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 1196835006167 N- and C-terminal domain interface [polypeptide binding]; other site 1196835006168 D-xylulose kinase; Region: XylB; TIGR01312 1196835006169 active site 1196835006170 MgATP binding site [chemical binding]; other site 1196835006171 catalytic site [active] 1196835006172 metal binding site [ion binding]; metal-binding site 1196835006173 xylulose binding site [chemical binding]; other site 1196835006174 putative homodimer interface [polypeptide binding]; other site 1196835006175 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1196835006176 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1196835006177 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1196835006178 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1196835006179 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1196835006180 Walker A/P-loop; other site 1196835006181 ATP binding site [chemical binding]; other site 1196835006182 Q-loop/lid; other site 1196835006183 ABC transporter signature motif; other site 1196835006184 Walker B; other site 1196835006185 D-loop; other site 1196835006186 H-loop/switch region; other site 1196835006187 TOBE domain; Region: TOBE; cl01440 1196835006188 TOBE domain; Region: TOBE_2; pfam08402 1196835006189 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1196835006190 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835006191 dimer interface [polypeptide binding]; other site 1196835006192 conserved gate region; other site 1196835006193 putative PBP binding loops; other site 1196835006194 ABC-ATPase subunit interface; other site 1196835006195 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835006196 dimer interface [polypeptide binding]; other site 1196835006197 conserved gate region; other site 1196835006198 putative PBP binding loops; other site 1196835006199 ABC-ATPase subunit interface; other site 1196835006200 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1196835006201 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1196835006202 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1196835006203 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1196835006204 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835006205 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835006206 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 1196835006207 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1196835006208 putative substrate binding site [chemical binding]; other site 1196835006209 putative ATP binding site [chemical binding]; other site 1196835006210 PBP superfamily domain; Region: PBP_like_2; cl17296 1196835006211 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1196835006212 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1196835006213 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196835006214 ligand binding site [chemical binding]; other site 1196835006215 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 1196835006216 putative catalytic site [active] 1196835006217 putative phosphate binding site [ion binding]; other site 1196835006218 active site 1196835006219 metal binding site A [ion binding]; metal-binding site 1196835006220 DNA binding site [nucleotide binding] 1196835006221 putative AP binding site [nucleotide binding]; other site 1196835006222 putative metal binding site B [ion binding]; other site 1196835006223 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1196835006224 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1196835006225 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1196835006226 Surface antigen; Region: Bac_surface_Ag; pfam01103 1196835006227 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1196835006228 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1196835006229 Family of unknown function (DUF490); Region: DUF490; pfam04357 1196835006230 Family of unknown function (DUF490); Region: DUF490; pfam04357 1196835006231 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1196835006232 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1196835006233 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 1196835006234 dimer interface [polypeptide binding]; other site 1196835006235 catalytic triad [active] 1196835006236 peroxidatic and resolving cysteines [active] 1196835006237 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 1196835006238 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 1196835006239 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1196835006240 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1196835006241 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196835006242 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196835006243 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1196835006244 Protein export membrane protein; Region: SecD_SecF; cl14618 1196835006245 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1196835006246 Protein export membrane protein; Region: SecD_SecF; cl14618 1196835006247 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1196835006248 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1196835006249 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1196835006250 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1196835006251 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1196835006252 potential frameshift: common BLAST hit: gi|339494131|ref|YP_004714424.1| RND multidrug efflux membrane fusion protein MexE 1196835006253 potential frameshift: common BLAST hit: gi|146282520|ref|YP_001172673.1| RND multidrug efflux membrane fusion protein MexE 1196835006254 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835006255 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835006256 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 1196835006257 putative substrate binding pocket [chemical binding]; other site 1196835006258 putative dimerization interface [polypeptide binding]; other site 1196835006259 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1196835006260 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1196835006261 putative NAD(P) binding site [chemical binding]; other site 1196835006262 short chain dehydrogenase; Provisional; Region: PRK06701 1196835006263 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1196835006264 NAD binding site [chemical binding]; other site 1196835006265 metal binding site [ion binding]; metal-binding site 1196835006266 active site 1196835006267 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1196835006268 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 1196835006269 putative DNA binding site [nucleotide binding]; other site 1196835006270 putative homodimer interface [polypeptide binding]; other site 1196835006271 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 1196835006272 nucleotide binding site [chemical binding]; other site 1196835006273 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 1196835006274 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 1196835006275 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1196835006276 active site 1196835006277 homodimer interface [polypeptide binding]; other site 1196835006278 catalytic site [active] 1196835006279 acceptor binding site [chemical binding]; other site 1196835006280 trehalose synthase; Region: treS_nterm; TIGR02456 1196835006281 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1196835006282 active site 1196835006283 catalytic site [active] 1196835006284 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 1196835006285 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 1196835006286 glycogen branching enzyme; Provisional; Region: PRK05402 1196835006287 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1196835006288 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1196835006289 active site 1196835006290 catalytic site [active] 1196835006291 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1196835006292 Predicted integral membrane protein [Function unknown]; Region: COG0392 1196835006293 cardiolipin synthase 2; Provisional; Region: PRK11263 1196835006294 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1196835006295 putative active site [active] 1196835006296 catalytic site [active] 1196835006297 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1196835006298 putative active site [active] 1196835006299 catalytic site [active] 1196835006300 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1196835006301 putative catalytic site [active] 1196835006302 putative metal binding site [ion binding]; other site 1196835006303 putative phosphate binding site [ion binding]; other site 1196835006304 Protein of unknown function DUF72; Region: DUF72; pfam01904 1196835006305 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835006306 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835006307 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 1196835006308 putative effector binding pocket; other site 1196835006309 dimerization interface [polypeptide binding]; other site 1196835006310 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 1196835006311 putative active site [active] 1196835006312 metal binding site [ion binding]; metal-binding site 1196835006313 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1196835006314 classical (c) SDRs; Region: SDR_c; cd05233 1196835006315 NAD(P) binding site [chemical binding]; other site 1196835006316 active site 1196835006317 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 1196835006318 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1196835006319 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1196835006320 Peptidase family M23; Region: Peptidase_M23; pfam01551 1196835006321 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1196835006322 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 1196835006323 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1196835006324 active site 1196835006325 catalytic site [active] 1196835006326 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 1196835006327 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 1196835006328 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1196835006329 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 1196835006330 active site 1196835006331 catalytic site [active] 1196835006332 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 1196835006333 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1196835006334 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1196835006335 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 1196835006336 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 1196835006337 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 1196835006338 catalytic site [active] 1196835006339 active site 1196835006340 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1196835006341 glycogen synthase; Provisional; Region: glgA; PRK00654 1196835006342 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1196835006343 ADP-binding pocket [chemical binding]; other site 1196835006344 homodimer interface [polypeptide binding]; other site 1196835006345 Competence-damaged protein; Region: CinA; pfam02464 1196835006346 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1196835006347 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1196835006348 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1196835006349 dinuclear metal binding motif [ion binding]; other site 1196835006350 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 1196835006351 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 1196835006352 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1196835006353 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 1196835006354 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1196835006355 active site 1196835006356 DNA binding site [nucleotide binding] 1196835006357 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1196835006358 DNA binding site [nucleotide binding] 1196835006359 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 1196835006360 nucleotide binding site [chemical binding]; other site 1196835006361 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 1196835006362 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1196835006363 transcriptional regulator; Provisional; Region: PRK10632 1196835006364 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835006365 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 1196835006366 putative effector binding pocket; other site 1196835006367 dimerization interface [polypeptide binding]; other site 1196835006368 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1196835006369 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1196835006370 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196835006371 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196835006372 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1196835006373 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1196835006374 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1196835006375 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 1196835006376 Cupin domain; Region: Cupin_2; cl17218 1196835006377 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835006378 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1196835006379 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1196835006380 Sulfatase; Region: Sulfatase; pfam00884 1196835006381 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 1196835006382 BNR repeat-like domain; Region: BNR_2; pfam13088 1196835006383 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1196835006384 glutathione reductase; Validated; Region: PRK06116 1196835006385 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1196835006386 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196835006387 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1196835006388 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1196835006389 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 1196835006390 active site 1196835006391 metal binding site [ion binding]; metal-binding site 1196835006392 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1196835006393 active site 1196835006394 tetramer interface; other site 1196835006395 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 1196835006396 dimerization interface [polypeptide binding]; other site 1196835006397 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835006398 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835006399 dimer interface [polypeptide binding]; other site 1196835006400 putative CheW interface [polypeptide binding]; other site 1196835006401 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1196835006402 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 1196835006403 FeS/SAM binding site; other site 1196835006404 HemN C-terminal domain; Region: HemN_C; pfam06969 1196835006405 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 1196835006406 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1196835006407 DEAD_2; Region: DEAD_2; pfam06733 1196835006408 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1196835006409 Uncharacterized conserved protein [Function unknown]; Region: COG4748 1196835006410 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1196835006411 RES domain; Region: RES; pfam08808 1196835006412 lysophospholipid transporter LplT; Provisional; Region: PRK11195 1196835006413 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 1196835006414 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1196835006415 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1196835006416 hypothetical protein; Provisional; Region: PRK02237 1196835006417 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 1196835006418 active site 1196835006419 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 1196835006420 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1196835006421 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1196835006422 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1196835006423 active site 1196835006424 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 1196835006425 dimerization interface [polypeptide binding]; other site 1196835006426 putative DNA binding site [nucleotide binding]; other site 1196835006427 putative Zn2+ binding site [ion binding]; other site 1196835006428 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1196835006429 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1196835006430 active site 1196835006431 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1196835006432 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1196835006433 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1196835006434 arsenical-resistance protein; Region: acr3; TIGR00832 1196835006435 Predicted permease; Region: DUF318; cl17795 1196835006436 Predicted permease; Region: DUF318; cl17795 1196835006437 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 1196835006438 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1196835006439 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1196835006440 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1196835006441 GIY-YIG motif/motif A; other site 1196835006442 active site 1196835006443 catalytic site [active] 1196835006444 putative DNA binding site [nucleotide binding]; other site 1196835006445 metal binding site [ion binding]; metal-binding site 1196835006446 UvrB/uvrC motif; Region: UVR; pfam02151 1196835006447 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1196835006448 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1196835006449 putative DNA binding site [nucleotide binding]; other site 1196835006450 response regulator; Provisional; Region: PRK09483 1196835006451 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835006452 active site 1196835006453 phosphorylation site [posttranslational modification] 1196835006454 intermolecular recognition site; other site 1196835006455 dimerization interface [polypeptide binding]; other site 1196835006456 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 1196835006457 DNA binding residues [nucleotide binding] 1196835006458 dimerization interface [polypeptide binding]; other site 1196835006459 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1196835006460 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1196835006461 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196835006462 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1196835006463 Outer membrane efflux protein; Region: OEP; pfam02321 1196835006464 Outer membrane efflux protein; Region: OEP; pfam02321 1196835006465 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 1196835006466 PAS domain; Region: PAS_9; pfam13426 1196835006467 putative active site [active] 1196835006468 heme pocket [chemical binding]; other site 1196835006469 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196835006470 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 1196835006471 dimer interface [polypeptide binding]; other site 1196835006472 phosphorylation site [posttranslational modification] 1196835006473 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 1196835006474 ATP binding site [chemical binding]; other site 1196835006475 Mg2+ binding site [ion binding]; other site 1196835006476 G-X-G motif; other site 1196835006477 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196835006478 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835006479 active site 1196835006480 phosphorylation site [posttranslational modification] 1196835006481 intermolecular recognition site; other site 1196835006482 dimerization interface [polypeptide binding]; other site 1196835006483 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 1196835006484 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1196835006485 putative active site [active] 1196835006486 metal binding site [ion binding]; metal-binding site 1196835006487 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1196835006488 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1196835006489 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1196835006490 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 1196835006491 FeS/SAM binding site; other site 1196835006492 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1196835006493 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 1196835006494 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 1196835006495 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 1196835006496 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 1196835006497 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 1196835006498 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1196835006499 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 1196835006500 active site 1196835006501 FMN binding site [chemical binding]; other site 1196835006502 substrate binding site [chemical binding]; other site 1196835006503 putative catalytic residue [active] 1196835006504 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1196835006505 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1196835006506 NAD(P) binding site [chemical binding]; other site 1196835006507 catalytic residues [active] 1196835006508 PqqA family; Region: PqqA; pfam08042 1196835006509 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 1196835006510 coenzyme PQQ biosynthesis enzyme PqqE; Region: PQQ_syn_pqqE; TIGR02109 1196835006511 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 1196835006512 FeS/SAM binding site; other site 1196835006513 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1196835006514 Predicted membrane protein [Function unknown]; Region: COG3748 1196835006515 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 1196835006516 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1196835006517 catalytic residue [active] 1196835006518 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 1196835006519 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 1196835006520 phosphate binding site [ion binding]; other site 1196835006521 periplasmic folding chaperone; Provisional; Region: PRK10788 1196835006522 SurA N-terminal domain; Region: SurA_N_3; pfam13624 1196835006523 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1196835006524 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 1196835006525 IHF dimer interface [polypeptide binding]; other site 1196835006526 IHF - DNA interface [nucleotide binding]; other site 1196835006527 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1196835006528 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1196835006529 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 1196835006530 Walker A motif; other site 1196835006531 ATP binding site [chemical binding]; other site 1196835006532 Walker B motif; other site 1196835006533 arginine finger; other site 1196835006534 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1196835006535 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1196835006536 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1196835006537 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 1196835006538 Walker A motif; other site 1196835006539 ATP binding site [chemical binding]; other site 1196835006540 Walker B motif; other site 1196835006541 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1196835006542 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1196835006543 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1196835006544 oligomer interface [polypeptide binding]; other site 1196835006545 active site residues [active] 1196835006546 trigger factor; Provisional; Region: tig; PRK01490 1196835006547 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1196835006548 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1196835006549 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 1196835006550 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1196835006551 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 1196835006552 metal ion-dependent adhesion site (MIDAS); other site 1196835006553 MoxR-like ATPases [General function prediction only]; Region: COG0714 1196835006554 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 1196835006555 Walker A motif; other site 1196835006556 ATP binding site [chemical binding]; other site 1196835006557 Walker B motif; other site 1196835006558 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 1196835006559 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1196835006560 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1196835006561 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1196835006562 Cytochrome c; Region: Cytochrom_C; pfam00034 1196835006563 Cytochrome c; Region: Cytochrom_C; pfam00034 1196835006564 rusticyanin; Region: rusti_cyanin; TIGR03095 1196835006565 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 1196835006566 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1196835006567 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1196835006568 Transposase domain (DUF772); Region: DUF772; pfam05598 1196835006569 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1196835006570 DDE superfamily endonuclease; Region: DDE_4; cl17710 1196835006571 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1196835006572 MarR family; Region: MarR; pfam01047 1196835006573 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1196835006574 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1196835006575 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 1196835006576 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196835006577 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 1196835006578 dimerization interface [polypeptide binding]; other site 1196835006579 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 1196835006580 dimer interface [polypeptide binding]; other site 1196835006581 phosphorylation site [posttranslational modification] 1196835006582 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 1196835006583 ATP binding site [chemical binding]; other site 1196835006584 Mg2+ binding site [ion binding]; other site 1196835006585 G-X-G motif; other site 1196835006586 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1196835006587 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835006588 active site 1196835006589 phosphorylation site [posttranslational modification] 1196835006590 intermolecular recognition site; other site 1196835006591 dimerization interface [polypeptide binding]; other site 1196835006592 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 1196835006593 DNA binding site [nucleotide binding] 1196835006594 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1196835006595 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1196835006596 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196835006597 DNA-binding site [nucleotide binding]; DNA binding site 1196835006598 FCD domain; Region: FCD; pfam07729 1196835006599 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1196835006600 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1196835006601 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1196835006602 homodimer interface [polypeptide binding]; other site 1196835006603 NADP binding site [chemical binding]; other site 1196835006604 substrate binding site [chemical binding]; other site 1196835006605 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1196835006606 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1196835006607 active site 1196835006608 HIGH motif; other site 1196835006609 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1196835006610 KMSKS motif; other site 1196835006611 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1196835006612 tRNA binding surface [nucleotide binding]; other site 1196835006613 anticodon binding site; other site 1196835006614 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1196835006615 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1196835006616 active site 1196835006617 HIGH motif; other site 1196835006618 nucleotide binding site [chemical binding]; other site 1196835006619 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1196835006620 KMSKS motif; other site 1196835006621 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1196835006622 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 1196835006623 substrate binding site [chemical binding]; other site 1196835006624 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1196835006625 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1196835006626 putative active site [active] 1196835006627 putative metal binding site [ion binding]; other site 1196835006628 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 1196835006629 active site 1196835006630 dinuclear metal binding site [ion binding]; other site 1196835006631 dimerization interface [polypeptide binding]; other site 1196835006632 universal stress protein UspE; Provisional; Region: PRK11175 1196835006633 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 1196835006634 Ligand Binding Site [chemical binding]; other site 1196835006635 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 1196835006636 Ligand Binding Site [chemical binding]; other site 1196835006637 Predicted Fe-S protein [General function prediction only]; Region: COG3313 1196835006638 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1196835006639 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 1196835006640 substrate binding site [chemical binding]; other site 1196835006641 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1196835006642 substrate binding site [chemical binding]; other site 1196835006643 ligand binding site [chemical binding]; other site 1196835006644 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 1196835006645 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1196835006646 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196835006647 ligand binding site [chemical binding]; other site 1196835006648 RNA polymerase sigma factor SigX; Reviewed; Region: PRK09640 1196835006649 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196835006650 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 1196835006651 DNA binding residues [nucleotide binding] 1196835006652 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1196835006653 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1196835006654 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1196835006655 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 1196835006656 Cl binding site [ion binding]; other site 1196835006657 oligomer interface [polypeptide binding]; other site 1196835006658 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1196835006659 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1196835006660 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1196835006661 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1196835006662 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1196835006663 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1196835006664 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1196835006665 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1196835006666 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1196835006667 substrate binding site [chemical binding]; other site 1196835006668 ligand binding site [chemical binding]; other site 1196835006669 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 1196835006670 substrate binding site [chemical binding]; other site 1196835006671 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1196835006672 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 1196835006673 dimer interface [polypeptide binding]; other site 1196835006674 active site 1196835006675 citrylCoA binding site [chemical binding]; other site 1196835006676 oxalacetate/citrate binding site [chemical binding]; other site 1196835006677 coenzyme A binding site [chemical binding]; other site 1196835006678 catalytic triad [active] 1196835006679 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1196835006680 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1196835006681 tetramer interface [polypeptide binding]; other site 1196835006682 active site 1196835006683 Mg2+/Mn2+ binding site [ion binding]; other site 1196835006684 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1196835006685 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196835006686 DNA-binding site [nucleotide binding]; DNA binding site 1196835006687 FCD domain; Region: FCD; pfam07729 1196835006688 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1196835006689 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 1196835006690 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 1196835006691 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 1196835006692 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1196835006693 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1196835006694 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1196835006695 phosphoserine phosphatase; Provisional; Region: thrH; PRK13582 1196835006696 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1196835006697 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 1196835006698 Active Sites [active] 1196835006699 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1196835006700 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835006701 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1196835006702 substrate binding site [chemical binding]; other site 1196835006703 dimerization interface [polypeptide binding]; other site 1196835006704 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 1196835006705 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1196835006706 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1196835006707 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1196835006708 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1196835006709 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1196835006710 L,D-transpeptidase; Provisional; Region: PRK10260 1196835006711 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1196835006712 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 1196835006713 active site 1196835006714 catalytic triad [active] 1196835006715 oxyanion hole [active] 1196835006716 switch loop; other site 1196835006717 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1196835006718 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1196835006719 Walker A/P-loop; other site 1196835006720 ATP binding site [chemical binding]; other site 1196835006721 Q-loop/lid; other site 1196835006722 ABC transporter signature motif; other site 1196835006723 Walker B; other site 1196835006724 D-loop; other site 1196835006725 H-loop/switch region; other site 1196835006726 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1196835006727 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1196835006728 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1196835006729 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1196835006730 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1196835006731 lipase chaperone; Provisional; Region: PRK01294 1196835006732 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 1196835006733 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 1196835006734 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 1196835006735 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1196835006736 catalytic residue [active] 1196835006737 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1196835006738 active site 1196835006739 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1196835006740 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 1196835006741 dimerization interface [polypeptide binding]; other site 1196835006742 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835006743 dimer interface [polypeptide binding]; other site 1196835006744 putative CheW interface [polypeptide binding]; other site 1196835006745 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1196835006746 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835006747 dimer interface [polypeptide binding]; other site 1196835006748 conserved gate region; other site 1196835006749 putative PBP binding loops; other site 1196835006750 ABC-ATPase subunit interface; other site 1196835006751 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1196835006752 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1196835006753 Walker A/P-loop; other site 1196835006754 ATP binding site [chemical binding]; other site 1196835006755 Q-loop/lid; other site 1196835006756 ABC transporter signature motif; other site 1196835006757 Walker B; other site 1196835006758 D-loop; other site 1196835006759 H-loop/switch region; other site 1196835006760 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 1196835006761 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 1196835006762 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 1196835006763 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 1196835006764 urea carboxylase; Region: urea_carbox; TIGR02712 1196835006765 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1196835006766 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1196835006767 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 1196835006768 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 1196835006769 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 1196835006770 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 1196835006771 carboxyltransferase (CT) interaction site; other site 1196835006772 biotinylation site [posttranslational modification]; other site 1196835006773 allophanate hydrolase; Provisional; Region: PRK08186 1196835006774 Amidase; Region: Amidase; cl11426 1196835006775 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1196835006776 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1196835006777 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1196835006778 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 1196835006779 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1196835006780 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 1196835006781 putative di-iron ligands [ion binding]; other site 1196835006782 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1196835006783 classical (c) SDRs; Region: SDR_c; cd05233 1196835006784 NAD(P) binding site [chemical binding]; other site 1196835006785 active site 1196835006786 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1196835006787 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196835006788 NAD(P) binding site [chemical binding]; other site 1196835006789 active site 1196835006790 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1196835006791 Creatinine amidohydrolase; Region: Creatininase; pfam02633 1196835006792 Isochorismatase family; Region: Isochorismatase; pfam00857 1196835006793 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 1196835006794 catalytic triad [active] 1196835006795 conserved cis-peptide bond; other site 1196835006796 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1196835006797 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1196835006798 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835006799 dimer interface [polypeptide binding]; other site 1196835006800 conserved gate region; other site 1196835006801 putative PBP binding loops; other site 1196835006802 ABC-ATPase subunit interface; other site 1196835006803 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1196835006804 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1196835006805 Walker A/P-loop; other site 1196835006806 ATP binding site [chemical binding]; other site 1196835006807 Q-loop/lid; other site 1196835006808 ABC transporter signature motif; other site 1196835006809 Walker B; other site 1196835006810 D-loop; other site 1196835006811 H-loop/switch region; other site 1196835006812 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 1196835006813 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1196835006814 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 1196835006815 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1196835006816 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1196835006817 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 1196835006818 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1196835006819 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196835006820 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1196835006821 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1196835006822 YccA-like proteins; Region: YccA_like; cd10433 1196835006823 enterobactin exporter EntS; Provisional; Region: PRK10489 1196835006824 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 1196835006825 putative substrate translocation pore; other site 1196835006826 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 1196835006827 sulfur relay protein TusC; Validated; Region: PRK00211 1196835006828 sulfur relay protein TusB/DsrH; Region: sulf_tusB_dsrH; TIGR03011 1196835006829 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1196835006830 DsrC like protein; Region: DsrC; cl01101 1196835006831 hypothetical protein; Validated; Region: PRK09071 1196835006832 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1196835006833 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1196835006834 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1196835006835 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1196835006836 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1196835006837 putative dimer interface [polypeptide binding]; other site 1196835006838 N-terminal domain interface [polypeptide binding]; other site 1196835006839 putative substrate binding pocket (H-site) [chemical binding]; other site 1196835006840 PAS fold; Region: PAS_7; pfam12860 1196835006841 PAS fold; Region: PAS_7; pfam12860 1196835006842 PAS domain S-box; Region: sensory_box; TIGR00229 1196835006843 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 1196835006844 putative active site [active] 1196835006845 heme pocket [chemical binding]; other site 1196835006846 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196835006847 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 1196835006848 dimer interface [polypeptide binding]; other site 1196835006849 phosphorylation site [posttranslational modification] 1196835006850 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 1196835006851 ATP binding site [chemical binding]; other site 1196835006852 Mg2+ binding site [ion binding]; other site 1196835006853 G-X-G motif; other site 1196835006854 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196835006855 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835006856 active site 1196835006857 phosphorylation site [posttranslational modification] 1196835006858 intermolecular recognition site; other site 1196835006859 dimerization interface [polypeptide binding]; other site 1196835006860 Uncharacterized conserved protein [Function unknown]; Region: COG3287 1196835006861 FIST N domain; Region: FIST; pfam08495 1196835006862 FIST C domain; Region: FIST_C; pfam10442 1196835006863 Gram-negative porin; Region: Porin_4; pfam13609 1196835006864 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 1196835006865 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1196835006866 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1196835006867 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 1196835006868 DNA binding residues [nucleotide binding] 1196835006869 B12 binding domain; Region: B12-binding_2; pfam02607 1196835006870 Protein of unknown function, DUF393; Region: DUF393; cl01136 1196835006871 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1196835006872 homodecamer interface [polypeptide binding]; other site 1196835006873 GTP cyclohydrolase I; Provisional; Region: PLN03044 1196835006874 active site 1196835006875 putative catalytic site residues [active] 1196835006876 zinc binding site [ion binding]; other site 1196835006877 GTP-CH-I/GFRP interaction surface; other site 1196835006878 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1196835006879 homooctamer interface [polypeptide binding]; other site 1196835006880 active site 1196835006881 MFS/sugar transport protein; Region: MFS_2; pfam13347 1196835006882 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 1196835006883 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 1196835006884 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 1196835006885 PAS domain; Region: PAS_9; pfam13426 1196835006886 putative active site [active] 1196835006887 heme pocket [chemical binding]; other site 1196835006888 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1196835006889 PAS fold; Region: PAS_4; pfam08448 1196835006890 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 1196835006891 putative active site [active] 1196835006892 heme pocket [chemical binding]; other site 1196835006893 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 1196835006894 PAS domain; Region: PAS_9; pfam13426 1196835006895 putative active site [active] 1196835006896 heme pocket [chemical binding]; other site 1196835006897 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835006898 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835006899 metal binding site [ion binding]; metal-binding site 1196835006900 active site 1196835006901 I-site; other site 1196835006902 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 1196835006903 ferrochelatase; Reviewed; Region: hemH; PRK00035 1196835006904 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 1196835006905 C-terminal domain interface [polypeptide binding]; other site 1196835006906 active site 1196835006907 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 1196835006908 active site 1196835006909 N-terminal domain interface [polypeptide binding]; other site 1196835006910 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1196835006911 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196835006912 NAD(P) binding site [chemical binding]; other site 1196835006913 active site 1196835006914 Protein of unknown function (DUF523); Region: DUF523; pfam04463 1196835006915 Uncharacterized conserved protein [Function unknown]; Region: COG3272 1196835006916 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 1196835006917 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 1196835006918 DNA binding residues [nucleotide binding] 1196835006919 B12 binding domain; Region: B12-binding_2; pfam02607 1196835006920 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 1196835006921 DNA photolyase; Region: DNA_photolyase; pfam00875 1196835006922 SnoaL-like domain; Region: SnoaL_2; pfam12680 1196835006923 short chain dehydrogenase; Provisional; Region: PRK08251 1196835006924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196835006925 NAD(P) binding site [chemical binding]; other site 1196835006926 active site 1196835006927 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 1196835006928 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1196835006929 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 1196835006930 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1196835006931 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 1196835006932 S-adenosylmethionine binding site [chemical binding]; other site 1196835006933 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835006934 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835006935 dimer interface [polypeptide binding]; other site 1196835006936 putative CheW interface [polypeptide binding]; other site 1196835006937 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1196835006938 HemN C-terminal domain; Region: HemN_C; pfam06969 1196835006939 NAD-dependent deacetylase; Provisional; Region: PRK00481 1196835006940 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 1196835006941 NAD+ binding site [chemical binding]; other site 1196835006942 substrate binding site [chemical binding]; other site 1196835006943 Zn binding site [ion binding]; other site 1196835006944 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1196835006945 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196835006946 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1196835006947 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 1196835006948 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 1196835006949 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; cd00143 1196835006950 Protein phosphatase 2C; Region: PP2C; pfam00481 1196835006951 active site 1196835006952 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1196835006953 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1196835006954 active site 1196835006955 ATP binding site [chemical binding]; other site 1196835006956 substrate binding site [chemical binding]; other site 1196835006957 activation loop (A-loop); other site 1196835006958 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1196835006959 Family description; Region: UvrD_C_2; pfam13538 1196835006960 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1196835006961 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1196835006962 GAF domain; Region: GAF; pfam01590 1196835006963 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1196835006964 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 1196835006965 dimer interface [polypeptide binding]; other site 1196835006966 phosphorylation site [posttranslational modification] 1196835006967 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 1196835006968 ATP binding site [chemical binding]; other site 1196835006969 G-X-G motif; other site 1196835006970 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835006971 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835006972 active site 1196835006973 phosphorylation site [posttranslational modification] 1196835006974 intermolecular recognition site; other site 1196835006975 dimerization interface [polypeptide binding]; other site 1196835006976 potassium/proton antiporter; Reviewed; Region: PRK05326 1196835006977 TrkA-C domain; Region: TrkA_C; pfam02080 1196835006978 Transporter associated domain; Region: CorC_HlyC; smart01091 1196835006979 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1196835006980 tetramer interfaces [polypeptide binding]; other site 1196835006981 binuclear metal-binding site [ion binding]; other site 1196835006982 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1196835006983 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1196835006984 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1196835006985 TolR protein; Region: tolR; TIGR02801 1196835006986 TolQ protein; Region: tolQ; TIGR02796 1196835006987 Phytase; Region: Phytase; cl17685 1196835006988 Phytase; Region: Phytase; cl17685 1196835006989 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1196835006990 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 1196835006991 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 1196835006992 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835006993 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835006994 metal binding site [ion binding]; metal-binding site 1196835006995 active site 1196835006996 I-site; other site 1196835006997 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1196835006998 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1196835006999 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835007000 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835007001 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835007002 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 1196835007003 dimerization interface [polypeptide binding]; other site 1196835007004 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 1196835007005 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1196835007006 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 1196835007007 putative molybdopterin cofactor binding site [chemical binding]; other site 1196835007008 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 1196835007009 putative molybdopterin cofactor binding site; other site 1196835007010 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1196835007011 TrkA-N domain; Region: TrkA_N; pfam02254 1196835007012 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1196835007013 TrkA-C domain; Region: TrkA_C; pfam02080 1196835007014 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1196835007015 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1196835007016 PAS domain S-box; Region: sensory_box; TIGR00229 1196835007017 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 1196835007018 putative active site [active] 1196835007019 heme pocket [chemical binding]; other site 1196835007020 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 1196835007021 PAS fold; Region: PAS_3; pfam08447 1196835007022 putative active site [active] 1196835007023 heme pocket [chemical binding]; other site 1196835007024 PAS domain S-box; Region: sensory_box; TIGR00229 1196835007025 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 1196835007026 putative active site [active] 1196835007027 heme pocket [chemical binding]; other site 1196835007028 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196835007029 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 1196835007030 ATP binding site [chemical binding]; other site 1196835007031 Mg2+ binding site [ion binding]; other site 1196835007032 G-X-G motif; other site 1196835007033 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835007034 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835007035 active site 1196835007036 phosphorylation site [posttranslational modification] 1196835007037 intermolecular recognition site; other site 1196835007038 dimerization interface [polypeptide binding]; other site 1196835007039 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1196835007040 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 1196835007041 Bacterial SH3 domain; Region: SH3_3; pfam08239 1196835007042 AzlC protein; Region: AzlC; pfam03591 1196835007043 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1196835007044 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1196835007045 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835007046 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1196835007047 Transglycosylase; Region: Transgly; pfam00912 1196835007048 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1196835007049 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1196835007050 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 1196835007051 putative homodimer interface [polypeptide binding]; other site 1196835007052 putative active site pocket [active] 1196835007053 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 1196835007054 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835007055 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835007056 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 1196835007057 dimerization interface [polypeptide binding]; other site 1196835007058 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1196835007059 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1196835007060 tetrameric interface [polypeptide binding]; other site 1196835007061 NAD binding site [chemical binding]; other site 1196835007062 catalytic residues [active] 1196835007063 enoyl-CoA hydratase; Provisional; Region: PRK05862 1196835007064 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1196835007065 substrate binding site [chemical binding]; other site 1196835007066 oxyanion hole (OAH) forming residues; other site 1196835007067 trimer interface [polypeptide binding]; other site 1196835007068 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1196835007069 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1196835007070 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1196835007071 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1196835007072 substrate binding site [chemical binding]; other site 1196835007073 oxyanion hole (OAH) forming residues; other site 1196835007074 trimer interface [polypeptide binding]; other site 1196835007075 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1196835007076 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1196835007077 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196835007078 active site 1196835007079 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1196835007080 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1196835007081 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 1196835007082 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1196835007083 dimer interface [polypeptide binding]; other site 1196835007084 acyl-activating enzyme (AAE) consensus motif; other site 1196835007085 putative active site [active] 1196835007086 AMP binding site [chemical binding]; other site 1196835007087 putative CoA binding site [chemical binding]; other site 1196835007088 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1196835007089 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196835007090 active site 1196835007091 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1196835007092 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1196835007093 dimer interface [polypeptide binding]; other site 1196835007094 active site 1196835007095 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1196835007096 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 1196835007097 NAD binding site [chemical binding]; other site 1196835007098 homodimer interface [polypeptide binding]; other site 1196835007099 homotetramer interface [polypeptide binding]; other site 1196835007100 active site 1196835007101 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1196835007102 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1196835007103 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835007104 Predicted membrane protein [Function unknown]; Region: COG1238 1196835007105 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1196835007106 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 1196835007107 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 1196835007108 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 1196835007109 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1196835007110 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 1196835007111 active site residue [active] 1196835007112 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1196835007113 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 1196835007114 active site 1196835007115 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 1196835007116 active site 2 [active] 1196835007117 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 1196835007118 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1196835007119 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1196835007120 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1196835007121 Protein of unknown function DUF58; Region: DUF58; pfam01882 1196835007122 MoxR-like ATPases [General function prediction only]; Region: COG0714 1196835007123 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 1196835007124 Walker A motif; other site 1196835007125 ATP binding site [chemical binding]; other site 1196835007126 Walker B motif; other site 1196835007127 arginine finger; other site 1196835007128 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1196835007129 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 1196835007130 active site residue [active] 1196835007131 selenophosphate synthetase; Provisional; Region: PRK00943 1196835007132 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 1196835007133 dimerization interface [polypeptide binding]; other site 1196835007134 putative ATP binding site [chemical binding]; other site 1196835007135 hypothetical protein; Provisional; Region: PRK10279 1196835007136 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 1196835007137 active site 1196835007138 nucleophile elbow; other site 1196835007139 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1196835007140 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1196835007141 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1196835007142 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1196835007143 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 1196835007144 CoenzymeA binding site [chemical binding]; other site 1196835007145 subunit interaction site [polypeptide binding]; other site 1196835007146 PHB binding site; other site 1196835007147 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 1196835007148 catalytic core [active] 1196835007149 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 1196835007150 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1196835007151 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1196835007152 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1196835007153 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 1196835007154 active site 1 [active] 1196835007155 dimer interface [polypeptide binding]; other site 1196835007156 active site 2 [active] 1196835007157 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1196835007158 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 1196835007159 dimer interface [polypeptide binding]; other site 1196835007160 active site 1196835007161 serine/threonine transporter SstT; Provisional; Region: PRK13628 1196835007162 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1196835007163 potential frameshift: common BLAST hit: gi|146282253|ref|YP_001172406.1| chemotaxis transducer 1196835007164 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1196835007165 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1196835007166 HAMP domain; Region: HAMP; pfam00672 1196835007167 dimerization interface [polypeptide binding]; other site 1196835007168 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835007169 dimer interface [polypeptide binding]; other site 1196835007170 putative CheW interface [polypeptide binding]; other site 1196835007171 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 1196835007172 Amidohydrolase; Region: Amidohydro_2; pfam04909 1196835007173 OsmC-like protein; Region: OsmC; pfam02566 1196835007174 heat shock protein 90; Provisional; Region: PRK05218 1196835007175 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 1196835007176 ATP binding site [chemical binding]; other site 1196835007177 Mg2+ binding site [ion binding]; other site 1196835007178 G-X-G motif; other site 1196835007179 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 1196835007180 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1196835007181 CoenzymeA binding site [chemical binding]; other site 1196835007182 subunit interaction site [polypeptide binding]; other site 1196835007183 PHB binding site; other site 1196835007184 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 1196835007185 CoenzymeA binding site [chemical binding]; other site 1196835007186 subunit interaction site [polypeptide binding]; other site 1196835007187 PHB binding site; other site 1196835007188 Predicted membrane protein [Function unknown]; Region: COG3821 1196835007189 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 1196835007190 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1196835007191 CoA binding domain; Region: CoA_binding; smart00881 1196835007192 CoA-ligase; Region: Ligase_CoA; pfam00549 1196835007193 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1196835007194 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1196835007195 CoA-ligase; Region: Ligase_CoA; pfam00549 1196835007196 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1196835007197 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1196835007198 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196835007199 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1196835007200 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1196835007201 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 1196835007202 E3 interaction surface; other site 1196835007203 lipoyl attachment site [posttranslational modification]; other site 1196835007204 e3 binding domain; Region: E3_binding; pfam02817 1196835007205 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1196835007206 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1196835007207 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 1196835007208 TPP-binding site [chemical binding]; other site 1196835007209 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1196835007210 PYR/PP interface [polypeptide binding]; other site 1196835007211 dimer interface [polypeptide binding]; other site 1196835007212 TPP binding site [chemical binding]; other site 1196835007213 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1196835007214 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1196835007215 L-aspartate oxidase; Provisional; Region: PRK06175 1196835007216 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 1196835007217 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1196835007218 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 1196835007219 SdhC subunit interface [polypeptide binding]; other site 1196835007220 proximal heme binding site [chemical binding]; other site 1196835007221 cardiolipin binding site; other site 1196835007222 Iron-sulfur protein interface; other site 1196835007223 proximal quinone binding site [chemical binding]; other site 1196835007224 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 1196835007225 Iron-sulfur protein interface; other site 1196835007226 proximal quinone binding site [chemical binding]; other site 1196835007227 SdhD (CybS) interface [polypeptide binding]; other site 1196835007228 proximal heme binding site [chemical binding]; other site 1196835007229 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 1196835007230 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1196835007231 dimer interface [polypeptide binding]; other site 1196835007232 active site 1196835007233 citrylCoA binding site [chemical binding]; other site 1196835007234 NADH binding [chemical binding]; other site 1196835007235 cationic pore residues; other site 1196835007236 oxalacetate/citrate binding site [chemical binding]; other site 1196835007237 coenzyme A binding site [chemical binding]; other site 1196835007238 catalytic triad [active] 1196835007239 Protein of unknown function, DUF486; Region: DUF486; pfam04342 1196835007240 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 1196835007241 flagellar protein FliS; Validated; Region: fliS; PRK05685 1196835007242 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 1196835007243 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1196835007244 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1196835007245 FlaG protein; Region: FlaG; pfam03646 1196835007246 flagellin; Reviewed; Region: PRK08869 1196835007247 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1196835007248 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1196835007249 Ligase N family; Region: LIGANc; smart00532 1196835007250 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 1196835007251 nucleotide binding pocket [chemical binding]; other site 1196835007252 K-X-D-G motif; other site 1196835007253 catalytic site [active] 1196835007254 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1196835007255 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 1196835007256 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 1196835007257 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 1196835007258 Dimer interface [polypeptide binding]; other site 1196835007259 BRCT sequence motif; other site 1196835007260 cell division protein ZipA; Reviewed; Region: zipA; PRK00269 1196835007261 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 1196835007262 FtsZ protein binding site [polypeptide binding]; other site 1196835007263 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1196835007264 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1196835007265 Walker A/P-loop; other site 1196835007266 ATP binding site [chemical binding]; other site 1196835007267 Q-loop/lid; other site 1196835007268 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1196835007269 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1196835007270 ABC transporter signature motif; other site 1196835007271 Walker B; other site 1196835007272 D-loop; other site 1196835007273 H-loop/switch region; other site 1196835007274 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 1196835007275 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 1196835007276 FeS/SAM binding site; other site 1196835007277 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1196835007278 Ion transport protein; Region: Ion_trans; pfam00520 1196835007279 Ion channel; Region: Ion_trans_2; pfam07885 1196835007280 Double zinc ribbon; Region: DZR; pfam12773 1196835007281 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1196835007282 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 1196835007283 Predicted membrane protein [Function unknown]; Region: COG4244 1196835007284 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1196835007285 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1196835007286 Cytochrome c; Region: Cytochrom_C; pfam00034 1196835007287 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1196835007288 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1196835007289 D-pathway; other site 1196835007290 Putative ubiquinol binding site [chemical binding]; other site 1196835007291 Low-spin heme (heme b) binding site [chemical binding]; other site 1196835007292 Putative water exit pathway; other site 1196835007293 Binuclear center (heme o3/CuB) [ion binding]; other site 1196835007294 K-pathway; other site 1196835007295 Putative proton exit pathway; other site 1196835007296 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 1196835007297 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 1196835007298 CPxP motif; other site 1196835007299 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1196835007300 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1196835007301 aconitate hydratase; Validated; Region: PRK09277 1196835007302 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1196835007303 substrate binding site [chemical binding]; other site 1196835007304 ligand binding site [chemical binding]; other site 1196835007305 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 1196835007306 substrate binding site [chemical binding]; other site 1196835007307 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 1196835007308 PAS domain; Region: PAS_9; pfam13426 1196835007309 putative active site [active] 1196835007310 heme pocket [chemical binding]; other site 1196835007311 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835007312 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835007313 dimer interface [polypeptide binding]; other site 1196835007314 putative CheW interface [polypeptide binding]; other site 1196835007315 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 1196835007316 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 1196835007317 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 1196835007318 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1196835007319 Low-spin heme binding site [chemical binding]; other site 1196835007320 Putative water exit pathway; other site 1196835007321 Binuclear center (active site) [active] 1196835007322 Putative proton exit pathway; other site 1196835007323 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1196835007324 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1196835007325 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1196835007326 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1196835007327 Cytochrome c; Region: Cytochrom_C; pfam00034 1196835007328 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 1196835007329 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1196835007330 Low-spin heme binding site [chemical binding]; other site 1196835007331 Putative water exit pathway; other site 1196835007332 Binuclear center (active site) [active] 1196835007333 Putative proton exit pathway; other site 1196835007334 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1196835007335 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1196835007336 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 1196835007337 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1196835007338 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1196835007339 Cytochrome c; Region: Cytochrom_C; pfam00034 1196835007340 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1196835007341 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1196835007342 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1196835007343 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 1196835007344 FixH; Region: FixH; pfam05751 1196835007345 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1196835007346 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1196835007347 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 1196835007348 metal-binding site [ion binding] 1196835007349 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1196835007350 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1196835007351 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 1196835007352 Uncharacterized conserved protein [Function unknown]; Region: COG2836 1196835007353 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1196835007354 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 1196835007355 homodimer interface [polypeptide binding]; other site 1196835007356 NAD binding pocket [chemical binding]; other site 1196835007357 ATP binding pocket [chemical binding]; other site 1196835007358 Mg binding site [ion binding]; other site 1196835007359 active-site loop [active] 1196835007360 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1196835007361 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 1196835007362 FeS/SAM binding site; other site 1196835007363 HemN C-terminal domain; Region: HemN_C; pfam06969 1196835007364 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1196835007365 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 1196835007366 ligand binding site [chemical binding]; other site 1196835007367 flexible hinge region; other site 1196835007368 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 1196835007369 putative switch regulator; other site 1196835007370 non-specific DNA interactions [nucleotide binding]; other site 1196835007371 DNA binding site [nucleotide binding] 1196835007372 sequence specific DNA binding site [nucleotide binding]; other site 1196835007373 putative cAMP binding site [chemical binding]; other site 1196835007374 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1196835007375 active site 1196835007376 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 1196835007377 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1196835007378 Cu(I) binding site [ion binding]; other site 1196835007379 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 1196835007380 membrane-bound complex binding site; other site 1196835007381 hinge residues; other site 1196835007382 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1196835007383 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835007384 dimer interface [polypeptide binding]; other site 1196835007385 conserved gate region; other site 1196835007386 putative PBP binding loops; other site 1196835007387 ABC-ATPase subunit interface; other site 1196835007388 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1196835007389 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1196835007390 Walker A/P-loop; other site 1196835007391 ATP binding site [chemical binding]; other site 1196835007392 Q-loop/lid; other site 1196835007393 ABC transporter signature motif; other site 1196835007394 Walker B; other site 1196835007395 D-loop; other site 1196835007396 H-loop/switch region; other site 1196835007397 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1196835007398 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 1196835007399 substrate binding pocket [chemical binding]; other site 1196835007400 membrane-bound complex binding site; other site 1196835007401 hinge residues; other site 1196835007402 recombination protein RecR; Reviewed; Region: recR; PRK00076 1196835007403 RecR protein; Region: RecR; pfam02132 1196835007404 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 1196835007405 putative active site [active] 1196835007406 putative metal-binding site [ion binding]; other site 1196835007407 tetramer interface [polypeptide binding]; other site 1196835007408 hypothetical protein; Validated; Region: PRK00153 1196835007409 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1196835007410 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 1196835007411 Walker A motif; other site 1196835007412 ATP binding site [chemical binding]; other site 1196835007413 Walker B motif; other site 1196835007414 arginine finger; other site 1196835007415 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1196835007416 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 1196835007417 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 1196835007418 ligand binding site [chemical binding]; other site 1196835007419 NAD binding site [chemical binding]; other site 1196835007420 catalytic site [active] 1196835007421 homodimer interface [polypeptide binding]; other site 1196835007422 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1196835007423 multidrug efflux protein; Reviewed; Region: PRK01766 1196835007424 cation binding site [ion binding]; other site 1196835007425 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1196835007426 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 1196835007427 ligand binding site [chemical binding]; other site 1196835007428 flexible hinge region; other site 1196835007429 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 1196835007430 active site residue [active] 1196835007431 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 1196835007432 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 1196835007433 SnoaL-like domain; Region: SnoaL_2; pfam12680 1196835007434 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1196835007435 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 1196835007436 active site 1196835007437 FMN binding site [chemical binding]; other site 1196835007438 2,4-decadienoyl-CoA binding site; other site 1196835007439 catalytic residue [active] 1196835007440 4Fe-4S cluster binding site [ion binding]; other site 1196835007441 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1196835007442 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1196835007443 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1196835007444 active site 1196835007445 catalytic triad [active] 1196835007446 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1196835007447 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1196835007448 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835007449 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 1196835007450 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1196835007451 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1196835007452 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1196835007453 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 1196835007454 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 1196835007455 active site 1196835007456 Zn binding site [ion binding]; other site 1196835007457 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1196835007458 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 1196835007459 putative active site [active] 1196835007460 heme pocket [chemical binding]; other site 1196835007461 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 1196835007462 putative active site [active] 1196835007463 heme pocket [chemical binding]; other site 1196835007464 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835007465 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835007466 metal binding site [ion binding]; metal-binding site 1196835007467 active site 1196835007468 I-site; other site 1196835007469 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 1196835007470 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 1196835007471 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196835007472 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1196835007473 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1196835007474 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835007475 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835007476 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1196835007477 dimerization interface [polypeptide binding]; other site 1196835007478 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1196835007479 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 1196835007480 tetramer interface [polypeptide binding]; other site 1196835007481 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835007482 catalytic residue [active] 1196835007483 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1196835007484 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1196835007485 tetramer interface [polypeptide binding]; other site 1196835007486 active site 1196835007487 Mg2+/Mn2+ binding site [ion binding]; other site 1196835007488 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1196835007489 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1196835007490 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1196835007491 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1196835007492 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1196835007493 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1196835007494 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 1196835007495 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 1196835007496 homodimer interface [polypeptide binding]; other site 1196835007497 substrate-cofactor binding pocket; other site 1196835007498 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835007499 catalytic residue [active] 1196835007500 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1196835007501 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 1196835007502 active site 1196835007503 tetramer interface [polypeptide binding]; other site 1196835007504 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1196835007505 active site 1196835007506 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1196835007507 Colicin V production protein; Region: Colicin_V; cl00567 1196835007508 Sporulation related domain; Region: SPOR; pfam05036 1196835007509 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1196835007510 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1196835007511 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1196835007512 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1196835007513 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1196835007514 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 1196835007515 active site 1196835007516 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1196835007517 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1196835007518 dimerization interface 3.5A [polypeptide binding]; other site 1196835007519 active site 1196835007520 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 1196835007521 FimV N-terminal domain; Region: FimV_core; TIGR03505 1196835007522 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1196835007523 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK05671 1196835007524 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1196835007525 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1196835007526 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1196835007527 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1196835007528 tartrate dehydrogenase; Region: TTC; TIGR02089 1196835007529 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1196835007530 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 1196835007531 substrate binding site [chemical binding]; other site 1196835007532 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1196835007533 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1196835007534 substrate binding site [chemical binding]; other site 1196835007535 ligand binding site [chemical binding]; other site 1196835007536 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835007537 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835007538 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 1196835007539 dimerization interface [polypeptide binding]; other site 1196835007540 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1196835007541 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1196835007542 putative dimer interface [polypeptide binding]; other site 1196835007543 short chain dehydrogenase; Provisional; Region: PRK06123 1196835007544 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196835007545 NAD(P) binding site [chemical binding]; other site 1196835007546 active site 1196835007547 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1196835007548 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 1196835007549 FMN binding site [chemical binding]; other site 1196835007550 active site 1196835007551 catalytic residues [active] 1196835007552 substrate binding site [chemical binding]; other site 1196835007553 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1196835007554 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 1196835007555 inhibitor-cofactor binding pocket; inhibition site 1196835007556 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835007557 catalytic residue [active] 1196835007558 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1196835007559 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1196835007560 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1196835007561 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 1196835007562 active site 1196835007563 tyrosine kinase; Provisional; Region: PRK11519 1196835007564 Chain length determinant protein; Region: Wzz; pfam02706 1196835007565 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1196835007566 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1196835007567 P loop; other site 1196835007568 Nucleotide binding site [chemical binding]; other site 1196835007569 DTAP/Switch II; other site 1196835007570 Switch I; other site 1196835007571 WbqC-like protein family; Region: WbqC; pfam08889 1196835007572 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 1196835007573 transcriptional activator RfaH; Region: RfaH; TIGR01955 1196835007574 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 1196835007575 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196835007576 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 1196835007577 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196835007578 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 1196835007579 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1196835007580 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 1196835007581 putative ADP-binding pocket [chemical binding]; other site 1196835007582 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1196835007583 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 1196835007584 active site 1196835007585 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1196835007586 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1196835007587 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1196835007588 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 1196835007589 FeS/SAM binding site; other site 1196835007590 choline dehydrogenase; Validated; Region: PRK02106 1196835007591 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1196835007592 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1196835007593 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1196835007594 NAD(P) binding site [chemical binding]; other site 1196835007595 catalytic residues [active] 1196835007596 choline transport protein BetT; Provisional; Region: PRK09928 1196835007597 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1196835007598 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 1196835007599 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835007600 catalytic residue [active] 1196835007601 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1196835007602 homodimer interaction site [polypeptide binding]; other site 1196835007603 cofactor binding site; other site 1196835007604 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1196835007605 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 1196835007606 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 1196835007607 active site 1196835007608 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 1196835007609 SEC-C motif; Region: SEC-C; pfam02810 1196835007610 Water Stress and Hypersensitive response; Region: WHy; smart00769 1196835007611 5'-methylthioadenosine phosphorylase; Validated; Region: PRK09136 1196835007612 beta-hexosaminidase; Provisional; Region: PRK05337 1196835007613 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1196835007614 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1196835007615 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1196835007616 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196835007617 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196835007618 LexA repressor; Validated; Region: PRK00215 1196835007619 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1196835007620 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 1196835007621 Catalytic site [active] 1196835007622 Cell division inhibitor SulA; Region: SulA; cl01880 1196835007623 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1196835007624 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 1196835007625 active site 1196835007626 interdomain interaction site; other site 1196835007627 putative metal-binding site [ion binding]; other site 1196835007628 nucleotide binding site [chemical binding]; other site 1196835007629 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 1196835007630 domain I; other site 1196835007631 DNA binding groove [nucleotide binding] 1196835007632 phosphate binding site [ion binding]; other site 1196835007633 domain II; other site 1196835007634 domain III; other site 1196835007635 nucleotide binding site [chemical binding]; other site 1196835007636 catalytic site [active] 1196835007637 domain IV; other site 1196835007638 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1196835007639 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1196835007640 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1196835007641 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1196835007642 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1196835007643 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 1196835007644 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1196835007645 dimer interface [polypeptide binding]; other site 1196835007646 active site 1196835007647 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 1196835007648 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1196835007649 substrate binding site [chemical binding]; other site 1196835007650 oxyanion hole (OAH) forming residues; other site 1196835007651 trimer interface [polypeptide binding]; other site 1196835007652 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1196835007653 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1196835007654 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1196835007655 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1196835007656 acetyl-CoA synthetase; Provisional; Region: PRK00174 1196835007657 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1196835007658 active site 1196835007659 CoA binding site [chemical binding]; other site 1196835007660 acyl-activating enzyme (AAE) consensus motif; other site 1196835007661 AMP binding site [chemical binding]; other site 1196835007662 acetate binding site [chemical binding]; other site 1196835007663 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1196835007664 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1196835007665 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835007666 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835007667 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1196835007668 putative dimerization interface [polypeptide binding]; other site 1196835007669 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1196835007670 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1196835007671 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1196835007672 active site 1196835007673 catalytic residues [active] 1196835007674 metal binding site [ion binding]; metal-binding site 1196835007675 TIR domain; Region: TIR_2; pfam13676 1196835007676 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1196835007677 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1196835007678 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1196835007679 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1196835007680 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1196835007681 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1196835007682 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1196835007683 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1196835007684 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 1196835007685 dimer interface [polypeptide binding]; other site 1196835007686 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1196835007687 metal binding site [ion binding]; metal-binding site 1196835007688 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1196835007689 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196835007690 active site 1196835007691 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 1196835007692 Uncharacterized conserved protein [Function unknown]; Region: COG3777 1196835007693 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 1196835007694 active site 2 [active] 1196835007695 active site 1 [active] 1196835007696 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835007697 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835007698 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1196835007699 putative dimerization interface [polypeptide binding]; other site 1196835007700 Predicted membrane protein [Function unknown]; Region: COG4325 1196835007701 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 1196835007702 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 1196835007703 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 1196835007704 hypothetical protein; Provisional; Region: PRK09256 1196835007705 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1196835007706 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1196835007707 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 1196835007708 dimerization interface [polypeptide binding]; other site 1196835007709 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835007710 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835007711 dimer interface [polypeptide binding]; other site 1196835007712 putative CheW interface [polypeptide binding]; other site 1196835007713 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1196835007714 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1196835007715 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835007716 Walker A/P-loop; other site 1196835007717 ATP binding site [chemical binding]; other site 1196835007718 Q-loop/lid; other site 1196835007719 ABC transporter signature motif; other site 1196835007720 Walker B; other site 1196835007721 D-loop; other site 1196835007722 H-loop/switch region; other site 1196835007723 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 1196835007724 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 1196835007725 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1196835007726 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1196835007727 active site residue [active] 1196835007728 BolA-like protein; Region: BolA; cl00386 1196835007729 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 1196835007730 fumarate hydratase; Provisional; Region: PRK12425 1196835007731 Class II fumarases; Region: Fumarase_classII; cd01362 1196835007732 active site 1196835007733 tetramer interface [polypeptide binding]; other site 1196835007734 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 1196835007735 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 1196835007736 active site 1196835007737 putative substrate binding pocket [chemical binding]; other site 1196835007738 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1196835007739 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 1196835007740 S-adenosylmethionine binding site [chemical binding]; other site 1196835007741 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1196835007742 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; cl17915 1196835007743 active site 1196835007744 motif I; other site 1196835007745 motif II; other site 1196835007746 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 1196835007747 motif II; other site 1196835007748 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1196835007749 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196835007750 NAD(P) binding site [chemical binding]; other site 1196835007751 active site 1196835007752 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1196835007753 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 1196835007754 RNA binding surface [nucleotide binding]; other site 1196835007755 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1196835007756 probable active site [active] 1196835007757 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1196835007758 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1196835007759 active site 1196835007760 intersubunit interface [polypeptide binding]; other site 1196835007761 catalytic residue [active] 1196835007762 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1196835007763 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 1196835007764 putative active site [active] 1196835007765 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1196835007766 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1196835007767 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1196835007768 HemK family putative methylases; Region: hemK_fam; TIGR00536 1196835007769 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 1196835007770 S-adenosylmethionine binding site [chemical binding]; other site 1196835007771 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 1196835007772 Isochorismatase family; Region: Isochorismatase; pfam00857 1196835007773 catalytic triad [active] 1196835007774 conserved cis-peptide bond; other site 1196835007775 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1196835007776 Smr domain; Region: Smr; pfam01713 1196835007777 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1196835007778 homodecamer interface [polypeptide binding]; other site 1196835007779 GTP cyclohydrolase I; Provisional; Region: PLN03044 1196835007780 active site 1196835007781 putative catalytic site residues [active] 1196835007782 zinc binding site [ion binding]; other site 1196835007783 GTP-CH-I/GFRP interaction surface; other site 1196835007784 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1196835007785 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 1196835007786 putative C-terminal domain interface [polypeptide binding]; other site 1196835007787 putative GSH binding site (G-site) [chemical binding]; other site 1196835007788 putative dimer interface [polypeptide binding]; other site 1196835007789 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1196835007790 N-terminal domain interface [polypeptide binding]; other site 1196835007791 dimer interface [polypeptide binding]; other site 1196835007792 substrate binding pocket (H-site) [chemical binding]; other site 1196835007793 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1196835007794 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 1196835007795 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835007796 homodimer interface [polypeptide binding]; other site 1196835007797 catalytic residue [active] 1196835007798 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1196835007799 MarR family; Region: MarR_2; pfam12802 1196835007800 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1196835007801 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 1196835007802 RNA binding site [nucleotide binding]; other site 1196835007803 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 1196835007804 RNA binding site [nucleotide binding]; other site 1196835007805 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 1196835007806 RNA binding site [nucleotide binding]; other site 1196835007807 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 1196835007808 RNA binding site [nucleotide binding]; other site 1196835007809 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 1196835007810 RNA binding site [nucleotide binding]; other site 1196835007811 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 1196835007812 RNA binding site [nucleotide binding]; other site 1196835007813 cytidylate kinase; Provisional; Region: cmk; PRK00023 1196835007814 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 1196835007815 CMP-binding site; other site 1196835007816 The sites determining sugar specificity; other site 1196835007817 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 1196835007818 prephenate dehydrogenase; Validated; Region: PRK08507 1196835007819 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 1196835007820 hinge; other site 1196835007821 active site 1196835007822 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1196835007823 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 1196835007824 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835007825 homodimer interface [polypeptide binding]; other site 1196835007826 catalytic residue [active] 1196835007827 chorismate mutase domain of proteobacterial P-protein, clade 2; Region: CM_P2; TIGR01807 1196835007828 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1196835007829 Prephenate dehydratase; Region: PDT; pfam00800 1196835007830 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 1196835007831 putative L-Phe binding site [chemical binding]; other site 1196835007832 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 1196835007833 homodimer interface [polypeptide binding]; other site 1196835007834 substrate-cofactor binding pocket; other site 1196835007835 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835007836 catalytic residue [active] 1196835007837 DNA gyrase subunit A; Validated; Region: PRK05560 1196835007838 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 1196835007839 CAP-like domain; other site 1196835007840 active site 1196835007841 primary dimer interface [polypeptide binding]; other site 1196835007842 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1196835007843 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1196835007844 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1196835007845 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1196835007846 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1196835007847 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1196835007848 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1196835007849 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 1196835007850 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1196835007851 DNA Polymerase Y-family; Region: PolY_like; cd03468 1196835007852 active site 1196835007853 DNA binding site [nucleotide binding] 1196835007854 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1196835007855 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1196835007856 putative active site [active] 1196835007857 putative PHP Thumb interface [polypeptide binding]; other site 1196835007858 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 1196835007859 generic binding surface I; other site 1196835007860 generic binding surface II; other site 1196835007861 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 1196835007862 DNA binding site [nucleotide binding] 1196835007863 active site 1196835007864 Int/Topo IB signature motif; other site 1196835007865 Predicted transcriptional regulator [Transcription]; Region: COG2944 1196835007866 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1196835007867 Uncharacterized conserved protein [Function unknown]; Region: COG4278 1196835007868 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 1196835007869 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 1196835007870 FeS/SAM binding site; other site 1196835007871 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1196835007872 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 1196835007873 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835007874 Walker A/P-loop; other site 1196835007875 ATP binding site [chemical binding]; other site 1196835007876 Q-loop/lid; other site 1196835007877 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835007878 ABC transporter signature motif; other site 1196835007879 Walker B; other site 1196835007880 D-loop; other site 1196835007881 H-loop/switch region; other site 1196835007882 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835007883 Walker A/P-loop; other site 1196835007884 ATP binding site [chemical binding]; other site 1196835007885 Q-loop/lid; other site 1196835007886 ABC transporter signature motif; other site 1196835007887 Walker B; other site 1196835007888 D-loop; other site 1196835007889 H-loop/switch region; other site 1196835007890 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 1196835007891 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 1196835007892 Walker A motif; other site 1196835007893 ATP binding site [chemical binding]; other site 1196835007894 Walker B motif; other site 1196835007895 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 1196835007896 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 1196835007897 ATP binding site [chemical binding]; other site 1196835007898 Walker A motif; other site 1196835007899 hexamer interface [polypeptide binding]; other site 1196835007900 Walker B motif; other site 1196835007901 TrbC/VIRB2 family; Region: TrbC; pfam04956 1196835007902 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 1196835007903 potential frameshift: common BLAST hit: gi|386021053|ref|YP_005939077.1| conjugal transfer ATPase TrbE 1196835007904 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 1196835007905 conjugal transfer protein TrbL; Provisional; Region: PRK13875 1196835007906 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 1196835007907 conjugal transfer protein TrbF; Provisional; Region: PRK13872 1196835007908 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1196835007909 VirB7 interaction site; other site 1196835007910 potential frameshift: common BLAST hit: gi|330503824|ref|YP_004380693.1| conjugation TrbI family protein 1196835007911 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 1196835007912 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 1196835007913 non-specific DNA binding site [nucleotide binding]; other site 1196835007914 salt bridge; other site 1196835007915 sequence-specific DNA binding site [nucleotide binding]; other site 1196835007916 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1196835007917 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1196835007918 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1196835007919 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 1196835007920 active site 1196835007921 DNA binding site [nucleotide binding] 1196835007922 Int/Topo IB signature motif; other site 1196835007923 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1196835007924 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1196835007925 DNA binding residues [nucleotide binding] 1196835007926 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 1196835007927 IHF dimer interface [polypeptide binding]; other site 1196835007928 IHF - DNA interface [nucleotide binding]; other site 1196835007929 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1196835007930 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 1196835007931 putative tRNA-binding site [nucleotide binding]; other site 1196835007932 B3/4 domain; Region: B3_4; pfam03483 1196835007933 tRNA synthetase B5 domain; Region: B5; smart00874 1196835007934 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 1196835007935 dimer interface [polypeptide binding]; other site 1196835007936 motif 1; other site 1196835007937 motif 3; other site 1196835007938 motif 2; other site 1196835007939 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1196835007940 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1196835007941 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1196835007942 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 1196835007943 dimer interface [polypeptide binding]; other site 1196835007944 motif 1; other site 1196835007945 active site 1196835007946 motif 2; other site 1196835007947 motif 3; other site 1196835007948 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1196835007949 23S rRNA binding site [nucleotide binding]; other site 1196835007950 L21 binding site [polypeptide binding]; other site 1196835007951 L13 binding site [polypeptide binding]; other site 1196835007952 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1196835007953 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1196835007954 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1196835007955 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1196835007956 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1196835007957 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 1196835007958 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1196835007959 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 1196835007960 active site 1196835007961 dimer interface [polypeptide binding]; other site 1196835007962 motif 1; other site 1196835007963 motif 2; other site 1196835007964 motif 3; other site 1196835007965 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 1196835007966 anticodon binding site; other site 1196835007967 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1196835007968 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1196835007969 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 1196835007970 putative active site [active] 1196835007971 TPR repeat; Region: TPR_11; pfam13414 1196835007972 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 1196835007973 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 1196835007974 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1196835007975 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1196835007976 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1196835007977 GTP binding site; other site 1196835007978 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1196835007979 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1196835007980 Transposase domain (DUF772); Region: DUF772; pfam05598 1196835007981 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1196835007982 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1196835007983 outer membrane porin, OprD family; Region: OprD; pfam03573 1196835007984 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1196835007985 Predicted membrane protein [Function unknown]; Region: COG5393 1196835007986 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 1196835007987 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1196835007988 Zn2+ binding site [ion binding]; other site 1196835007989 Mg2+ binding site [ion binding]; other site 1196835007990 Protein with unknown function (DUF469); Region: DUF469; cl01237 1196835007991 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 1196835007992 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1196835007993 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1196835007994 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1196835007995 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 1196835007996 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 1196835007997 S-adenosylmethionine binding site [chemical binding]; other site 1196835007998 Ribosome modulation factor [Translation, ribosomal structure and biogenesis]; Region: Rmf; COG3130 1196835007999 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1196835008000 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 1196835008001 quinone interaction residues [chemical binding]; other site 1196835008002 active site 1196835008003 catalytic residues [active] 1196835008004 FMN binding site [chemical binding]; other site 1196835008005 substrate binding site [chemical binding]; other site 1196835008006 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 1196835008007 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1196835008008 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 1196835008009 MoxR-like ATPases [General function prediction only]; Region: COG0714 1196835008010 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 1196835008011 Walker A motif; other site 1196835008012 ATP binding site [chemical binding]; other site 1196835008013 Walker B motif; other site 1196835008014 arginine finger; other site 1196835008015 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1196835008016 Protein of unknown function DUF58; Region: DUF58; pfam01882 1196835008017 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 1196835008018 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 1196835008019 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 1196835008020 metal ion-dependent adhesion site (MIDAS); other site 1196835008021 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1196835008022 metal ion-dependent adhesion site (MIDAS); other site 1196835008023 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 1196835008024 TPR motif; other site 1196835008025 binding surface 1196835008026 TPR repeat; Region: TPR_11; pfam13414 1196835008027 Oxygen tolerance; Region: BatD; pfam13584 1196835008028 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1196835008029 NMT1-like family; Region: NMT1_2; pfam13379 1196835008030 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1196835008031 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835008032 active site 1196835008033 phosphorylation site [posttranslational modification] 1196835008034 intermolecular recognition site; other site 1196835008035 dimerization interface [polypeptide binding]; other site 1196835008036 ANTAR domain; Region: ANTAR; pfam03861 1196835008037 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 1196835008038 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 1196835008039 active site 1196835008040 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1196835008041 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1196835008042 putative substrate binding site [chemical binding]; other site 1196835008043 putative ATP binding site [chemical binding]; other site 1196835008044 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1196835008045 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 1196835008046 putative substrate translocation pore; other site 1196835008047 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 1196835008048 active site 1196835008049 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1196835008050 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1196835008051 active site 1196835008052 ATP binding site [chemical binding]; other site 1196835008053 substrate binding site [chemical binding]; other site 1196835008054 activation loop (A-loop); other site 1196835008055 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 1196835008056 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 1196835008057 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196835008058 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1196835008059 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1196835008060 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1196835008061 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 1196835008062 [2Fe-2S] cluster binding site [ion binding]; other site 1196835008063 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 1196835008064 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1196835008065 [4Fe-4S] binding site [ion binding]; other site 1196835008066 molybdopterin cofactor binding site; other site 1196835008067 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 1196835008068 molybdopterin cofactor binding site; other site 1196835008069 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1196835008070 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1196835008071 active site 1196835008072 SAM binding site [chemical binding]; other site 1196835008073 homodimer interface [polypeptide binding]; other site 1196835008074 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1196835008075 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1196835008076 aminopeptidase N; Provisional; Region: pepN; PRK14015 1196835008077 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1196835008078 active site 1196835008079 Zn binding site [ion binding]; other site 1196835008080 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 1196835008081 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 1196835008082 Rhomboid family; Region: Rhomboid; pfam01694 1196835008083 Pseudomonas aeruginosa PA3087 and related proteins, metallophosphatase domain; Region: MPP_PA3087; cd07413 1196835008084 active site 1196835008085 metal binding site [ion binding]; metal-binding site 1196835008086 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 1196835008087 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1196835008088 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 1196835008089 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1196835008090 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1196835008091 Chromate transporter; Region: Chromate_transp; pfam02417 1196835008092 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1196835008093 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835008094 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835008095 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 1196835008096 putative effector binding pocket; other site 1196835008097 dimerization interface [polypeptide binding]; other site 1196835008098 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1196835008099 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 1196835008100 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 1196835008101 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1196835008102 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1196835008103 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1196835008104 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1196835008105 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1196835008106 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1196835008107 spermidine synthase; Provisional; Region: PRK00811 1196835008108 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 1196835008109 S-adenosylmethionine binding site [chemical binding]; other site 1196835008110 AlkA N-terminal domain; Region: AlkA_N; pfam06029 1196835008111 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1196835008112 minor groove reading motif; other site 1196835008113 helix-hairpin-helix signature motif; other site 1196835008114 active site 1196835008115 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 1196835008116 catalytic core [active] 1196835008117 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 1196835008118 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1196835008119 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 1196835008120 motif II; other site 1196835008121 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 1196835008122 Cupin domain; Region: Cupin_2; cl17218 1196835008123 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 1196835008124 intersubunit interface [polypeptide binding]; other site 1196835008125 active site 1196835008126 Zn2+ binding site [ion binding]; other site 1196835008127 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 1196835008128 putative substrate translocation pore; other site 1196835008129 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1196835008130 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1196835008131 Tetramer interface [polypeptide binding]; other site 1196835008132 active site 1196835008133 FMN-binding site [chemical binding]; other site 1196835008134 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1196835008135 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 1196835008136 trimer interface; other site 1196835008137 sugar binding site [chemical binding]; other site 1196835008138 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1196835008139 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1196835008140 Walker A/P-loop; other site 1196835008141 ATP binding site [chemical binding]; other site 1196835008142 Q-loop/lid; other site 1196835008143 ABC transporter signature motif; other site 1196835008144 Walker B; other site 1196835008145 D-loop; other site 1196835008146 H-loop/switch region; other site 1196835008147 TOBE domain; Region: TOBE_2; pfam08402 1196835008148 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1196835008149 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835008150 dimer interface [polypeptide binding]; other site 1196835008151 conserved gate region; other site 1196835008152 putative PBP binding loops; other site 1196835008153 ABC-ATPase subunit interface; other site 1196835008154 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835008155 dimer interface [polypeptide binding]; other site 1196835008156 conserved gate region; other site 1196835008157 putative PBP binding loops; other site 1196835008158 ABC-ATPase subunit interface; other site 1196835008159 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1196835008160 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1196835008161 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 1196835008162 dimerization interface [polypeptide binding]; other site 1196835008163 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 1196835008164 ATP binding site [chemical binding]; other site 1196835008165 Mg2+ binding site [ion binding]; other site 1196835008166 G-X-G motif; other site 1196835008167 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1196835008168 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835008169 active site 1196835008170 phosphorylation site [posttranslational modification] 1196835008171 intermolecular recognition site; other site 1196835008172 dimerization interface [polypeptide binding]; other site 1196835008173 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 1196835008174 DNA binding site [nucleotide binding] 1196835008175 glucokinase, proteobacterial type; Region: glk; TIGR00749 1196835008176 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1196835008177 nucleotide binding site [chemical binding]; other site 1196835008178 phosphogluconate dehydratase; Validated; Region: PRK09054 1196835008179 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1196835008180 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1196835008181 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1196835008182 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1196835008183 active site 1196835008184 HIGH motif; other site 1196835008185 dimer interface [polypeptide binding]; other site 1196835008186 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1196835008187 active site 1196835008188 KMSKS motif; other site 1196835008189 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1196835008190 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1196835008191 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1196835008192 active site 1196835008193 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1196835008194 YciI-like protein; Reviewed; Region: PRK11370 1196835008195 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1196835008196 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835008197 active site 1196835008198 phosphorylation site [posttranslational modification] 1196835008199 intermolecular recognition site; other site 1196835008200 dimerization interface [polypeptide binding]; other site 1196835008201 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 1196835008202 DNA binding site [nucleotide binding] 1196835008203 synthase/transferase; Region: PLN02316 1196835008204 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196835008205 HAMP domain; Region: HAMP; pfam00672 1196835008206 dimerization interface [polypeptide binding]; other site 1196835008207 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 1196835008208 phosphorylation site [posttranslational modification] 1196835008209 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 1196835008210 ATP binding site [chemical binding]; other site 1196835008211 G-X-G motif; other site 1196835008212 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 1196835008213 putative FMN binding site [chemical binding]; other site 1196835008214 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1196835008215 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1196835008216 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1196835008217 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1196835008218 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1196835008219 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1196835008220 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835008221 Protein of unknown function (DUF962); Region: DUF962; cl01879 1196835008222 MASE2 domain; Region: MASE2; pfam05230 1196835008223 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1196835008224 cyclase homology domain; Region: CHD; cd07302 1196835008225 nucleotidyl binding site; other site 1196835008226 metal binding site [ion binding]; metal-binding site 1196835008227 dimer interface [polypeptide binding]; other site 1196835008228 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1196835008229 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835008230 EamA-like transporter family; Region: EamA; pfam00892 1196835008231 Rdx family; Region: Rdx; cl01407 1196835008232 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1196835008233 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1196835008234 active site 1196835008235 nucleophile elbow; other site 1196835008236 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1196835008237 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1196835008238 Surface antigen; Region: Bac_surface_Ag; pfam01103 1196835008239 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1196835008240 MarR family; Region: MarR_2; pfam12802 1196835008241 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1196835008242 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 1196835008243 ATP binding site [chemical binding]; other site 1196835008244 putative Mg++ binding site [ion binding]; other site 1196835008245 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 1196835008246 nucleotide binding region [chemical binding]; other site 1196835008247 ATP-binding site [chemical binding]; other site 1196835008248 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1196835008249 HRDC domain; Region: HRDC; pfam00570 1196835008250 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 1196835008251 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 1196835008252 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1196835008253 DTW domain; Region: DTW; cl01221 1196835008254 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1196835008255 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1196835008256 putative C-terminal domain interface [polypeptide binding]; other site 1196835008257 putative GSH binding site (G-site) [chemical binding]; other site 1196835008258 putative dimer interface [polypeptide binding]; other site 1196835008259 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 1196835008260 putative N-terminal domain interface [polypeptide binding]; other site 1196835008261 putative dimer interface [polypeptide binding]; other site 1196835008262 putative substrate binding pocket (H-site) [chemical binding]; other site 1196835008263 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1196835008264 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 1196835008265 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1196835008266 EamA-like transporter family; Region: EamA; pfam00892 1196835008267 EamA-like transporter family; Region: EamA; pfam00892 1196835008268 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1196835008269 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 1196835008270 dimer interface [polypeptide binding]; other site 1196835008271 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835008272 catalytic residue [active] 1196835008273 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1196835008274 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1196835008275 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 1196835008276 Walker A motif; other site 1196835008277 ATP binding site [chemical binding]; other site 1196835008278 Walker B motif; other site 1196835008279 arginine finger; other site 1196835008280 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1196835008281 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1196835008282 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 1196835008283 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1196835008284 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 1196835008285 putative active site [active] 1196835008286 putative dimer interface [polypeptide binding]; other site 1196835008287 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 1196835008288 Ligand Binding Site [chemical binding]; other site 1196835008289 ABC transporter ATPase component; Reviewed; Region: PRK11147 1196835008290 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196835008291 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196835008292 ABC transporter; Region: ABC_tran_2; pfam12848 1196835008293 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196835008294 lytic murein transglycosylase; Provisional; Region: PRK11619 1196835008295 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 1196835008296 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1196835008297 catalytic residue [active] 1196835008298 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1196835008299 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1196835008300 MOSC domain; Region: MOSC; pfam03473 1196835008301 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1196835008302 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196835008303 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835008304 active site 1196835008305 phosphorylation site [posttranslational modification] 1196835008306 intermolecular recognition site; other site 1196835008307 dimerization interface [polypeptide binding]; other site 1196835008308 lipid kinase; Reviewed; Region: PRK13054 1196835008309 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1196835008310 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 1196835008311 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 1196835008312 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1196835008313 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1196835008314 active site 1196835008315 tyrosine kinase; Provisional; Region: PRK11519 1196835008316 Chain length determinant protein; Region: Wzz; pfam02706 1196835008317 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1196835008318 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 1196835008319 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 1196835008320 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 1196835008321 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 1196835008322 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1196835008323 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1196835008324 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 1196835008325 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 1196835008326 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1196835008327 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1196835008328 Probable Catalytic site; other site 1196835008329 metal-binding site 1196835008330 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1196835008331 polysaccharide export protein Wza; Provisional; Region: PRK15078 1196835008332 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1196835008333 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 1196835008334 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1196835008335 dimer interface [polypeptide binding]; other site 1196835008336 active site 1196835008337 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 1196835008338 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1196835008339 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1196835008340 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 1196835008341 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1196835008342 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 1196835008343 IHF dimer interface [polypeptide binding]; other site 1196835008344 IHF - DNA interface [nucleotide binding]; other site 1196835008345 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1196835008346 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 1196835008347 ATP binding site [chemical binding]; other site 1196835008348 Mg++ binding site [ion binding]; other site 1196835008349 motif III; other site 1196835008350 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 1196835008351 nucleotide binding region [chemical binding]; other site 1196835008352 ATP-binding site [chemical binding]; other site 1196835008353 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1196835008354 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 1196835008355 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835008356 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835008357 dimer interface [polypeptide binding]; other site 1196835008358 putative CheW interface [polypeptide binding]; other site 1196835008359 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 1196835008360 S-adenosylmethionine binding site [chemical binding]; other site 1196835008361 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1196835008362 elongation factor P; Validated; Region: PRK00529 1196835008363 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1196835008364 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 1196835008365 RNA binding site [nucleotide binding]; other site 1196835008366 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 1196835008367 RNA binding site [nucleotide binding]; other site 1196835008368 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 1196835008369 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1196835008370 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1196835008371 putative active site [active] 1196835008372 putative NTP binding site [chemical binding]; other site 1196835008373 putative nucleic acid binding site [nucleotide binding]; other site 1196835008374 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1196835008375 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1196835008376 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1196835008377 active site 1196835008378 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 1196835008379 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 1196835008380 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 1196835008381 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1196835008382 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1196835008383 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1196835008384 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196835008385 ligand binding site [chemical binding]; other site 1196835008386 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1196835008387 ZIP Zinc transporter; Region: Zip; pfam02535 1196835008388 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1196835008389 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196835008390 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1196835008391 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1196835008392 FtsX-like permease family; Region: FtsX; pfam02687 1196835008393 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1196835008394 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1196835008395 Walker A/P-loop; other site 1196835008396 ATP binding site [chemical binding]; other site 1196835008397 Q-loop/lid; other site 1196835008398 ABC transporter signature motif; other site 1196835008399 Walker B; other site 1196835008400 D-loop; other site 1196835008401 H-loop/switch region; other site 1196835008402 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1196835008403 Putative phosphatase (DUF442); Region: DUF442; cl17385 1196835008404 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1196835008405 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1196835008406 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1196835008407 high affinity sulphate transporter 1; Region: sulP; TIGR00815 1196835008408 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1196835008409 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 1196835008410 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 1196835008411 active site residue [active] 1196835008412 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1196835008413 Predicted transporter component [General function prediction only]; Region: COG2391 1196835008414 Sulphur transport; Region: Sulf_transp; pfam04143 1196835008415 Predicted transporter component [General function prediction only]; Region: COG2391 1196835008416 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 1196835008417 dimerization interface [polypeptide binding]; other site 1196835008418 putative DNA binding site [nucleotide binding]; other site 1196835008419 putative Zn2+ binding site [ion binding]; other site 1196835008420 Uncharacterized family 4; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_4; cd10161 1196835008421 putative homodimer interface [polypeptide binding]; other site 1196835008422 putative homotetramer interface [polypeptide binding]; other site 1196835008423 putative metal binding site [ion binding]; other site 1196835008424 putative homodimer-homodimer interface [polypeptide binding]; other site 1196835008425 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1196835008426 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1196835008427 C-terminal domain interface [polypeptide binding]; other site 1196835008428 GSH binding site (G-site) [chemical binding]; other site 1196835008429 dimer interface [polypeptide binding]; other site 1196835008430 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1196835008431 N-terminal domain interface [polypeptide binding]; other site 1196835008432 dimer interface [polypeptide binding]; other site 1196835008433 substrate binding pocket (H-site) [chemical binding]; other site 1196835008434 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1196835008435 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 1196835008436 Walker A motif; other site 1196835008437 ATP binding site [chemical binding]; other site 1196835008438 Walker B motif; other site 1196835008439 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 1196835008440 catalytic residues [active] 1196835008441 dimer interface [polypeptide binding]; other site 1196835008442 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1196835008443 SelR domain; Region: SelR; pfam01641 1196835008444 aminotransferase AlaT; Validated; Region: PRK09265 1196835008445 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 1196835008446 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835008447 homodimer interface [polypeptide binding]; other site 1196835008448 catalytic residue [active] 1196835008449 heat shock protein HtpX; Provisional; Region: PRK05457 1196835008450 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1196835008451 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 1196835008452 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 1196835008453 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1196835008454 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835008455 active site 1196835008456 phosphorylation site [posttranslational modification] 1196835008457 intermolecular recognition site; other site 1196835008458 dimerization interface [polypeptide binding]; other site 1196835008459 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 1196835008460 Walker A motif; other site 1196835008461 ATP binding site [chemical binding]; other site 1196835008462 Walker B motif; other site 1196835008463 arginine finger; other site 1196835008464 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196835008465 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 1196835008466 dimer interface [polypeptide binding]; other site 1196835008467 phosphorylation site [posttranslational modification] 1196835008468 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 1196835008469 ATP binding site [chemical binding]; other site 1196835008470 Mg2+ binding site [ion binding]; other site 1196835008471 G-X-G motif; other site 1196835008472 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 1196835008473 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1196835008474 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 1196835008475 Walker A motif; other site 1196835008476 ATP binding site [chemical binding]; other site 1196835008477 Walker B motif; other site 1196835008478 arginine finger; other site 1196835008479 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196835008480 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1196835008481 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 1196835008482 TPR motif; other site 1196835008483 TPR repeat; Region: TPR_11; pfam13414 1196835008484 binding surface 1196835008485 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1196835008486 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 1196835008487 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1196835008488 catalytic residues [active] 1196835008489 central insert; other site 1196835008490 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1196835008491 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1196835008492 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1196835008493 heme exporter protein CcmC; Region: ccmC; TIGR01191 1196835008494 heme exporter protein CcmB; Region: ccmB; TIGR01190 1196835008495 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1196835008496 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 1196835008497 Walker A/P-loop; other site 1196835008498 ATP binding site [chemical binding]; other site 1196835008499 Q-loop/lid; other site 1196835008500 ABC transporter signature motif; other site 1196835008501 Walker B; other site 1196835008502 D-loop; other site 1196835008503 H-loop/switch region; other site 1196835008504 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1196835008505 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1196835008506 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 1196835008507 active site residue [active] 1196835008508 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 1196835008509 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 1196835008510 putative CheA interaction surface; other site 1196835008511 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; cd00588 1196835008512 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1196835008513 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 1196835008514 P-loop; other site 1196835008515 Magnesium ion binding site [ion binding]; other site 1196835008516 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 1196835008517 Magnesium ion binding site [ion binding]; other site 1196835008518 flagellar motor protein MotD; Reviewed; Region: PRK09038 1196835008519 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1196835008520 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196835008521 ligand binding site [chemical binding]; other site 1196835008522 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1196835008523 flagellar motor protein; Reviewed; Region: motC; PRK09109 1196835008524 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1196835008525 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835008526 active site 1196835008527 phosphorylation site [posttranslational modification] 1196835008528 intermolecular recognition site; other site 1196835008529 dimerization interface [polypeptide binding]; other site 1196835008530 CheB methylesterase; Region: CheB_methylest; pfam01339 1196835008531 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1196835008532 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 1196835008533 putative binding surface; other site 1196835008534 active site 1196835008535 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1196835008536 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 1196835008537 ATP binding site [chemical binding]; other site 1196835008538 Mg2+ binding site [ion binding]; other site 1196835008539 G-X-G motif; other site 1196835008540 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 1196835008541 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 1196835008542 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1196835008543 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835008544 active site 1196835008545 phosphorylation site [posttranslational modification] 1196835008546 intermolecular recognition site; other site 1196835008547 dimerization interface [polypeptide binding]; other site 1196835008548 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1196835008549 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196835008550 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1196835008551 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 1196835008552 DNA binding residues [nucleotide binding] 1196835008553 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1196835008554 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 1196835008555 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 1196835008556 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1196835008557 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 1196835008558 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1196835008559 FHIPEP family; Region: FHIPEP; pfam00771 1196835008560 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1196835008561 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 1196835008562 E-class dimer interface [polypeptide binding]; other site 1196835008563 P-class dimer interface [polypeptide binding]; other site 1196835008564 active site 1196835008565 Cu2+ binding site [ion binding]; other site 1196835008566 Zn2+ binding site [ion binding]; other site 1196835008567 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1196835008568 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1196835008569 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1196835008570 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1196835008571 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1196835008572 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1196835008573 flagellar motor switch protein; Validated; Region: fliN; PRK05698 1196835008574 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1196835008575 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1196835008576 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1196835008577 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 1196835008578 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1196835008579 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 1196835008580 putative binding surface; other site 1196835008581 active site 1196835008582 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835008583 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835008584 active site 1196835008585 phosphorylation site [posttranslational modification] 1196835008586 intermolecular recognition site; other site 1196835008587 dimerization interface [polypeptide binding]; other site 1196835008588 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1196835008589 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1196835008590 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1196835008591 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 1196835008592 anti sigma factor interaction site; other site 1196835008593 regulatory phosphorylation site [posttranslational modification]; other site 1196835008594 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1196835008595 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 1196835008596 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 1196835008597 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 1196835008598 Walker A motif/ATP binding site; other site 1196835008599 Walker B motif; other site 1196835008600 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1196835008601 Flagellar assembly protein FliH; Region: FliH; pfam02108 1196835008602 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1196835008603 MgtE intracellular N domain; Region: MgtE_N; smart00924 1196835008604 FliG C-terminal domain; Region: FliG_C; pfam01706 1196835008605 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1196835008606 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1196835008607 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1196835008608 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 1196835008609 benzoate transporter; Region: benE; TIGR00843 1196835008610 Benzoate membrane transport protein; Region: BenE; pfam03594 1196835008611 short chain dehydrogenase; Provisional; Region: PRK06172 1196835008612 classical (c) SDRs; Region: SDR_c; cd05233 1196835008613 NAD(P) binding site [chemical binding]; other site 1196835008614 active site 1196835008615 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1196835008616 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1196835008617 NAD(P) binding site [chemical binding]; other site 1196835008618 substrate binding site [chemical binding]; other site 1196835008619 dimer interface [polypeptide binding]; other site 1196835008620 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 1196835008621 active site 1196835008622 dimer interface [polypeptide binding]; other site 1196835008623 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 1196835008624 CHASE4 domain; Region: CHASE4; pfam05228 1196835008625 PAS domain S-box; Region: sensory_box; TIGR00229 1196835008626 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 1196835008627 putative active site [active] 1196835008628 heme pocket [chemical binding]; other site 1196835008629 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835008630 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835008631 metal binding site [ion binding]; metal-binding site 1196835008632 active site 1196835008633 I-site; other site 1196835008634 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 1196835008635 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 1196835008636 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196835008637 DNA-binding site [nucleotide binding]; DNA binding site 1196835008638 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 1196835008639 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835008640 homodimer interface [polypeptide binding]; other site 1196835008641 catalytic residue [active] 1196835008642 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1196835008643 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196835008644 ligand binding site [chemical binding]; other site 1196835008645 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1196835008646 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 1196835008647 substrate binding pocket [chemical binding]; other site 1196835008648 membrane-bound complex binding site; other site 1196835008649 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1196835008650 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1196835008651 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1196835008652 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1196835008653 Ligand binding site [chemical binding]; other site 1196835008654 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1196835008655 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1196835008656 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1196835008657 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1196835008658 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 1196835008659 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 1196835008660 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 1196835008661 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1196835008662 FeS/SAM binding site; other site 1196835008663 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196835008664 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196835008665 WHG domain; Region: WHG; pfam13305 1196835008666 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1196835008667 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1196835008668 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1196835008669 catalytic residue [active] 1196835008670 aromatic amino acid transporter; Provisional; Region: PRK10238 1196835008671 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1196835008672 active site 1196835008673 PilZ domain; Region: PilZ; cl01260 1196835008674 DNA polymerase III subunit delta'; Validated; Region: PRK05707 1196835008675 thymidylate kinase; Validated; Region: tmk; PRK00698 1196835008676 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 1196835008677 TMP-binding site; other site 1196835008678 ATP-binding site [chemical binding]; other site 1196835008679 YceG-like family; Region: YceG; pfam02618 1196835008680 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1196835008681 dimerization interface [polypeptide binding]; other site 1196835008682 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1196835008683 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 1196835008684 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835008685 catalytic residue [active] 1196835008686 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1196835008687 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 1196835008688 dimer interface [polypeptide binding]; other site 1196835008689 active site 1196835008690 acyl carrier protein; Provisional; Region: acpP; PRK00982 1196835008691 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1196835008692 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1196835008693 NAD(P) binding site [chemical binding]; other site 1196835008694 homotetramer interface [polypeptide binding]; other site 1196835008695 homodimer interface [polypeptide binding]; other site 1196835008696 active site 1196835008697 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1196835008698 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1196835008699 putative phosphate acyltransferase; Provisional; Region: PRK05331 1196835008700 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1196835008701 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1196835008702 Maf-like protein; Region: Maf; pfam02545 1196835008703 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 1196835008704 active site 1196835008705 dimer interface [polypeptide binding]; other site 1196835008706 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1196835008707 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1196835008708 tandem repeat interface [polypeptide binding]; other site 1196835008709 oligomer interface [polypeptide binding]; other site 1196835008710 active site residues [active] 1196835008711 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1196835008712 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 1196835008713 motif II; other site 1196835008714 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1196835008715 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 1196835008716 RNA binding surface [nucleotide binding]; other site 1196835008717 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1196835008718 active site 1196835008719 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1196835008720 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 1196835008721 homodimer interface [polypeptide binding]; other site 1196835008722 oligonucleotide binding site [chemical binding]; other site 1196835008723 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1196835008724 FAD binding domain; Region: FAD_binding_4; pfam01565 1196835008725 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1196835008726 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1196835008727 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1196835008728 active site 1196835008729 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1196835008730 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1196835008731 Ligand binding site; other site 1196835008732 oligomer interface; other site 1196835008733 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1196835008734 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1196835008735 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1196835008736 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1196835008737 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1196835008738 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1196835008739 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1196835008740 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1196835008741 Competence protein; Region: Competence; pfam03772 1196835008742 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1196835008743 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1196835008744 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 1196835008745 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1196835008746 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1196835008747 FtsX-like permease family; Region: FtsX; pfam02687 1196835008748 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1196835008749 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1196835008750 Walker A/P-loop; other site 1196835008751 ATP binding site [chemical binding]; other site 1196835008752 Q-loop/lid; other site 1196835008753 ABC transporter signature motif; other site 1196835008754 Walker B; other site 1196835008755 D-loop; other site 1196835008756 H-loop/switch region; other site 1196835008757 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1196835008758 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1196835008759 FtsX-like permease family; Region: FtsX; pfam02687 1196835008760 PilZ domain; Region: PilZ; pfam07238 1196835008761 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1196835008762 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 1196835008763 active site 1196835008764 catalytic site [active] 1196835008765 metal binding site [ion binding]; metal-binding site 1196835008766 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 1196835008767 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1196835008768 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196835008769 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1196835008770 Protein of unknown function (DUF539); Region: DUF539; cl01129 1196835008771 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1196835008772 ApbE family; Region: ApbE; pfam02424 1196835008773 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1196835008774 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 1196835008775 catalytic loop [active] 1196835008776 iron binding site [ion binding]; other site 1196835008777 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 1196835008778 FAD binding pocket [chemical binding]; other site 1196835008779 FAD binding motif [chemical binding]; other site 1196835008780 phosphate binding motif [ion binding]; other site 1196835008781 beta-alpha-beta structure motif; other site 1196835008782 NAD binding pocket [chemical binding]; other site 1196835008783 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 1196835008784 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 1196835008785 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 1196835008786 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1196835008787 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 1196835008788 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 1196835008789 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1196835008790 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 1196835008791 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1196835008792 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1196835008793 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1196835008794 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1196835008795 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 1196835008796 ATP binding site [chemical binding]; other site 1196835008797 putative Mg++ binding site [ion binding]; other site 1196835008798 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 1196835008799 nucleotide binding region [chemical binding]; other site 1196835008800 ATP-binding site [chemical binding]; other site 1196835008801 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1196835008802 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1196835008803 potential frameshift: common BLAST hit: gi|146282998|ref|YP_001173151.1| helicase/SNF2 domain-containing protein 1196835008804 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1196835008805 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1196835008806 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 1196835008807 active site 1196835008808 catalytic tetrad [active] 1196835008809 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 1196835008810 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1196835008811 tetrameric interface [polypeptide binding]; other site 1196835008812 activator binding site; other site 1196835008813 NADP binding site [chemical binding]; other site 1196835008814 substrate binding site [chemical binding]; other site 1196835008815 catalytic residues [active] 1196835008816 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1196835008817 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1196835008818 active site 1196835008819 intersubunit interface [polypeptide binding]; other site 1196835008820 catalytic residue [active] 1196835008821 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1196835008822 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 1196835008823 putative active site [active] 1196835008824 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1196835008825 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1196835008826 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1196835008827 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1196835008828 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1196835008829 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1196835008830 putative active site [active] 1196835008831 glucokinase; Provisional; Region: glk; PRK00292 1196835008832 glucokinase, proteobacterial type; Region: glk; TIGR00749 1196835008833 phosphogluconate dehydratase; Validated; Region: PRK09054 1196835008834 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1196835008835 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 1196835008836 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196835008837 putative substrate translocation pore; other site 1196835008838 Fe2+ transport protein; Region: Iron_transport; pfam10634 1196835008839 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1196835008840 Iron permease FTR1 family; Region: FTR1; cl00475 1196835008841 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1196835008842 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1196835008843 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 1196835008844 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 1196835008845 FeS/SAM binding site; other site 1196835008846 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 1196835008847 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 1196835008848 ATP cone domain; Region: ATP-cone; pfam03477 1196835008849 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1196835008850 effector binding site; other site 1196835008851 active site 1196835008852 Zn binding site [ion binding]; other site 1196835008853 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1196835008854 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 1196835008855 ligand binding site [chemical binding]; other site 1196835008856 flexible hinge region; other site 1196835008857 putative switch regulator; other site 1196835008858 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 1196835008859 non-specific DNA interactions [nucleotide binding]; other site 1196835008860 DNA binding site [nucleotide binding] 1196835008861 sequence specific DNA binding site [nucleotide binding]; other site 1196835008862 putative cAMP binding site [chemical binding]; other site 1196835008863 DGC domain; Region: DGC; pfam08859 1196835008864 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 1196835008865 putative protease; Provisional; Region: PRK15447 1196835008866 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1196835008867 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1196835008868 Peptidase family U32; Region: Peptidase_U32; pfam01136 1196835008869 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 1196835008870 GAF domain; Region: GAF; pfam01590 1196835008871 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 1196835008872 Walker A motif; other site 1196835008873 ATP binding site [chemical binding]; other site 1196835008874 Walker B motif; other site 1196835008875 arginine finger; other site 1196835008876 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1196835008877 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 1196835008878 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 1196835008879 Hemerythrin-like domain; Region: Hr-like; cd12108 1196835008880 Fe binding site [ion binding]; other site 1196835008881 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1196835008882 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 1196835008883 ligand binding site [chemical binding]; other site 1196835008884 flexible hinge region; other site 1196835008885 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1196835008886 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 1196835008887 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 1196835008888 dimerization domain [polypeptide binding]; other site 1196835008889 dimer interface [polypeptide binding]; other site 1196835008890 catalytic residues [active] 1196835008891 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 1196835008892 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1196835008893 catalytic residues [active] 1196835008894 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1196835008895 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1196835008896 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 1196835008897 DsbD alpha interface [polypeptide binding]; other site 1196835008898 catalytic residues [active] 1196835008899 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1196835008900 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835008901 active site 1196835008902 phosphorylation site [posttranslational modification] 1196835008903 intermolecular recognition site; other site 1196835008904 dimerization interface [polypeptide binding]; other site 1196835008905 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 1196835008906 DNA binding site [nucleotide binding] 1196835008907 sensor protein QseC; Provisional; Region: PRK10337 1196835008908 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 1196835008909 dimer interface [polypeptide binding]; other site 1196835008910 phosphorylation site [posttranslational modification] 1196835008911 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 1196835008912 ATP binding site [chemical binding]; other site 1196835008913 Mg2+ binding site [ion binding]; other site 1196835008914 G-X-G motif; other site 1196835008915 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1196835008916 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 1196835008917 dimerization interface [polypeptide binding]; other site 1196835008918 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 1196835008919 dimer interface [polypeptide binding]; other site 1196835008920 phosphorylation site [posttranslational modification] 1196835008921 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 1196835008922 ATP binding site [chemical binding]; other site 1196835008923 G-X-G motif; other site 1196835008924 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1196835008925 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835008926 active site 1196835008927 phosphorylation site [posttranslational modification] 1196835008928 intermolecular recognition site; other site 1196835008929 dimerization interface [polypeptide binding]; other site 1196835008930 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 1196835008931 DNA binding site [nucleotide binding] 1196835008932 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 1196835008933 metal-binding site [ion binding] 1196835008934 Predicted metal-binding protein [General function prediction only]; Region: COG3019 1196835008935 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1196835008936 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1196835008937 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1196835008938 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1196835008939 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1196835008940 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1196835008941 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 1196835008942 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1196835008943 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196835008944 Coenzyme A binding pocket [chemical binding]; other site 1196835008945 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 1196835008946 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1196835008947 Pirin-related protein [General function prediction only]; Region: COG1741 1196835008948 Pirin; Region: Pirin; pfam02678 1196835008949 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1196835008950 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1196835008951 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1196835008952 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1196835008953 Ligand binding site; other site 1196835008954 DXD motif; other site 1196835008955 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1196835008956 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 1196835008957 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1196835008958 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1196835008959 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1196835008960 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1196835008961 LrgB-like family; Region: LrgB; pfam04172 1196835008962 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1196835008963 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1196835008964 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 1196835008965 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1196835008966 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 1196835008967 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196835008968 DNA-binding site [nucleotide binding]; DNA binding site 1196835008969 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 1196835008970 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835008971 homodimer interface [polypeptide binding]; other site 1196835008972 catalytic residue [active] 1196835008973 PAS domain S-box; Region: sensory_box; TIGR00229 1196835008974 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 1196835008975 putative active site [active] 1196835008976 heme pocket [chemical binding]; other site 1196835008977 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1196835008978 GAF domain; Region: GAF; pfam01590 1196835008979 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835008980 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835008981 metal binding site [ion binding]; metal-binding site 1196835008982 active site 1196835008983 I-site; other site 1196835008984 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1196835008985 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 1196835008986 putative C-terminal domain interface [polypeptide binding]; other site 1196835008987 putative GSH binding site (G-site) [chemical binding]; other site 1196835008988 putative dimer interface [polypeptide binding]; other site 1196835008989 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 1196835008990 putative N-terminal domain interface [polypeptide binding]; other site 1196835008991 putative dimer interface [polypeptide binding]; other site 1196835008992 putative substrate binding pocket (H-site) [chemical binding]; other site 1196835008993 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196835008994 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196835008995 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1196835008996 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1196835008997 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196835008998 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196835008999 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196835009000 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196835009001 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1196835009002 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 1196835009003 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1196835009004 Protein of unknown function DUF72; Region: DUF72; cl00777 1196835009005 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1196835009006 Glycoprotease family; Region: Peptidase_M22; pfam00814 1196835009007 adenylate kinase; Reviewed; Region: adk; PRK00279 1196835009008 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 1196835009009 AMP-binding site [chemical binding]; other site 1196835009010 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1196835009011 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1196835009012 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1196835009013 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 1196835009014 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1196835009015 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196835009016 ligand binding site [chemical binding]; other site 1196835009017 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 1196835009018 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 1196835009019 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 1196835009020 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1196835009021 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 1196835009022 dimer interface [polypeptide binding]; other site 1196835009023 putative anticodon binding site; other site 1196835009024 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 1196835009025 motif 1; other site 1196835009026 active site 1196835009027 motif 2; other site 1196835009028 motif 3; other site 1196835009029 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1196835009030 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1196835009031 RF-1 domain; Region: RF-1; pfam00472 1196835009032 Protein of unknown function (DUF533); Region: DUF533; pfam04391 1196835009033 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1196835009034 putative metal binding site [ion binding]; other site 1196835009035 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1196835009036 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 1196835009037 active site 1196835009038 FMN binding site [chemical binding]; other site 1196835009039 substrate binding site [chemical binding]; other site 1196835009040 homotetramer interface [polypeptide binding]; other site 1196835009041 catalytic residue [active] 1196835009042 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1196835009043 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 1196835009044 putative [Fe4-S4] binding site [ion binding]; other site 1196835009045 putative molybdopterin cofactor binding site [chemical binding]; other site 1196835009046 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 1196835009047 putative molybdopterin cofactor binding site; other site 1196835009048 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1196835009049 DHH family; Region: DHH; pfam01368 1196835009050 DHHA1 domain; Region: DHHA1; pfam02272 1196835009051 MarR family; Region: MarR_2; cl17246 1196835009052 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1196835009053 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1196835009054 putative active site [active] 1196835009055 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1196835009056 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1196835009057 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 1196835009058 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1196835009059 YaeQ protein; Region: YaeQ; pfam07152 1196835009060 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 1196835009061 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1196835009062 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1196835009063 heme binding site [chemical binding]; other site 1196835009064 ferroxidase pore; other site 1196835009065 ferroxidase diiron center [ion binding]; other site 1196835009066 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1196835009067 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1196835009068 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1196835009069 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1196835009070 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 1196835009071 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 1196835009072 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1196835009073 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1196835009074 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1196835009075 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1196835009076 Na binding site [ion binding]; other site 1196835009077 PAS domain; Region: PAS; smart00091 1196835009078 PAS fold; Region: PAS_7; pfam12860 1196835009079 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196835009080 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 1196835009081 dimer interface [polypeptide binding]; other site 1196835009082 phosphorylation site [posttranslational modification] 1196835009083 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 1196835009084 ATP binding site [chemical binding]; other site 1196835009085 Mg2+ binding site [ion binding]; other site 1196835009086 G-X-G motif; other site 1196835009087 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196835009088 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835009089 active site 1196835009090 phosphorylation site [posttranslational modification] 1196835009091 intermolecular recognition site; other site 1196835009092 dimerization interface [polypeptide binding]; other site 1196835009093 Predicted membrane protein [Function unknown]; Region: COG3174 1196835009094 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 1196835009095 RmuC family; Region: RmuC; pfam02646 1196835009096 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1196835009097 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 1196835009098 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1196835009099 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 1196835009100 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1196835009101 DNA polymerase family B; Region: DNA_pol_B; pfam00136 1196835009102 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 1196835009103 active site 1196835009104 metal-binding site 1196835009105 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 1196835009106 active site 1196835009107 DNA binding site [nucleotide binding] 1196835009108 Int/Topo IB signature motif; other site 1196835009109 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1196835009110 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 1196835009111 active site 1196835009112 AAA domain; Region: AAA_23; pfam13476 1196835009113 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 1196835009114 dimer interface [polypeptide binding]; other site 1196835009115 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835009116 Q-loop/lid; other site 1196835009117 ABC transporter signature motif; other site 1196835009118 Walker B; other site 1196835009119 D-loop; other site 1196835009120 H-loop/switch region; other site 1196835009121 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1196835009122 ATP binding site [chemical binding]; other site 1196835009123 active site 1196835009124 substrate binding site [chemical binding]; other site 1196835009125 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1196835009126 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1196835009127 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1196835009128 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1196835009129 dimer interface [polypeptide binding]; other site 1196835009130 active site 1196835009131 catalytic residue [active] 1196835009132 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1196835009133 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1196835009134 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1196835009135 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1196835009136 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 1196835009137 catalytic triad [active] 1196835009138 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1196835009139 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1196835009140 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1196835009141 CPxP motif; other site 1196835009142 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1196835009143 Peptidase family M48; Region: Peptidase_M48; cl12018 1196835009144 quinolinate synthetase; Provisional; Region: PRK09375 1196835009145 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1196835009146 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1196835009147 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1196835009148 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 1196835009149 Ligand Binding Site [chemical binding]; other site 1196835009150 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1196835009151 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 1196835009152 FeS/SAM binding site; other site 1196835009153 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1196835009154 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1196835009155 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1196835009156 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196835009157 ligand binding site [chemical binding]; other site 1196835009158 translocation protein TolB; Provisional; Region: tolB; PRK00178 1196835009159 TolB amino-terminal domain; Region: TolB_N; pfam04052 1196835009160 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1196835009161 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1196835009162 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1196835009163 TolA protein; Region: tolA_full; TIGR02794 1196835009164 TolA protein; Region: tolA_full; TIGR02794 1196835009165 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 1196835009166 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1196835009167 TolR protein; Region: tolR; TIGR02801 1196835009168 TolQ protein; Region: tolQ; TIGR02796 1196835009169 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 1196835009170 active site 1196835009171 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1196835009172 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 1196835009173 Walker A motif; other site 1196835009174 ATP binding site [chemical binding]; other site 1196835009175 Walker B motif; other site 1196835009176 arginine finger; other site 1196835009177 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1196835009178 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1196835009179 RuvA N terminal domain; Region: RuvA_N; pfam01330 1196835009180 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1196835009181 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 1196835009182 active site 1196835009183 putative DNA-binding cleft [nucleotide binding]; other site 1196835009184 dimer interface [polypeptide binding]; other site 1196835009185 hypothetical protein; Validated; Region: PRK00110 1196835009186 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1196835009187 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 1196835009188 dimer interface [polypeptide binding]; other site 1196835009189 anticodon binding site; other site 1196835009190 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 1196835009191 homodimer interface [polypeptide binding]; other site 1196835009192 motif 1; other site 1196835009193 active site 1196835009194 motif 2; other site 1196835009195 GAD domain; Region: GAD; pfam02938 1196835009196 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 1196835009197 active site 1196835009198 motif 3; other site 1196835009199 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1196835009200 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1196835009201 dimerization interface [polypeptide binding]; other site 1196835009202 DPS ferroxidase diiron center [ion binding]; other site 1196835009203 ion pore; other site 1196835009204 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 1196835009205 DNA-binding site [nucleotide binding]; DNA binding site 1196835009206 RNA-binding motif; other site 1196835009207 hypothetical protein; Provisional; Region: PRK00295 1196835009208 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 1196835009209 outer membrane porin, OprD family; Region: OprD; pfam03573 1196835009210 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1196835009211 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 1196835009212 dimer interface [polypeptide binding]; other site 1196835009213 motif 1; other site 1196835009214 active site 1196835009215 motif 2; other site 1196835009216 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 1196835009217 putative deacylase active site [active] 1196835009218 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 1196835009219 active site 1196835009220 motif 3; other site 1196835009221 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 1196835009222 anticodon binding site; other site 1196835009223 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1196835009224 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 1196835009225 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1196835009226 catalytic residue [active] 1196835009227 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 1196835009228 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1196835009229 catalytic residues [active] 1196835009230 HI0933-like protein; Region: HI0933_like; pfam03486 1196835009231 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1196835009232 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 1196835009233 ArsC family; Region: ArsC; pfam03960 1196835009234 catalytic residues [active] 1196835009235 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1196835009236 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1196835009237 Predicted membrane protein [Function unknown]; Region: COG3308 1196835009238 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 1196835009239 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1196835009240 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1196835009241 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1196835009242 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 1196835009243 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1196835009244 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 1196835009245 dimerization interface [polypeptide binding]; other site 1196835009246 putative ATP binding site [chemical binding]; other site 1196835009247 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1196835009248 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1196835009249 active site 1196835009250 substrate binding site [chemical binding]; other site 1196835009251 cosubstrate binding site; other site 1196835009252 catalytic site [active] 1196835009253 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1196835009254 Predicted membrane protein [Function unknown]; Region: COG3650 1196835009255 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 1196835009256 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 1196835009257 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835009258 homodimer interface [polypeptide binding]; other site 1196835009259 catalytic residue [active] 1196835009260 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 1196835009261 catalytic residues [active] 1196835009262 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 1196835009263 ArsC family; Region: ArsC; pfam03960 1196835009264 putative catalytic residues [active] 1196835009265 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 1196835009266 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 1196835009267 putative trimer interface [polypeptide binding]; other site 1196835009268 putative CoA binding site [chemical binding]; other site 1196835009269 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1196835009270 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 1196835009271 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1196835009272 catalytic residue [active] 1196835009273 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 1196835009274 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 1196835009275 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 1196835009276 dimer interface [polypeptide binding]; other site 1196835009277 active site 1196835009278 CoA binding pocket [chemical binding]; other site 1196835009279 Cytochrome c [Energy production and conversion]; Region: COG3258 1196835009280 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1196835009281 Cytochrome c; Region: Cytochrom_C; cl11414 1196835009282 Cytochrome c; Region: Cytochrom_C; cl11414 1196835009283 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 1196835009284 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1196835009285 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 1196835009286 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1196835009287 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 1196835009288 putative deacylase active site [active] 1196835009289 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1196835009290 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1196835009291 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 1196835009292 THF binding site; other site 1196835009293 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1196835009294 substrate binding site [chemical binding]; other site 1196835009295 THF binding site; other site 1196835009296 zinc-binding site [ion binding]; other site 1196835009297 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 1196835009298 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1196835009299 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835009300 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 1196835009301 putative dimerization interface [polypeptide binding]; other site 1196835009302 short chain dehydrogenase; Provisional; Region: PRK06181 1196835009303 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196835009304 NAD(P) binding site [chemical binding]; other site 1196835009305 active site 1196835009306 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_14; cd08355 1196835009307 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1196835009308 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1196835009309 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 1196835009310 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 1196835009311 DNA binding residues [nucleotide binding] 1196835009312 dimerization interface [polypeptide binding]; other site 1196835009313 curli assembly protein CsgE; Provisional; Region: PRK10386 1196835009314 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 1196835009315 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 1196835009316 Curlin associated repeat; Region: Curlin_rpt; pfam07012 1196835009317 Curlin associated repeat; Region: Curlin_rpt; pfam07012 1196835009318 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1196835009319 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1196835009320 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1196835009321 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1196835009322 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 1196835009323 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1196835009324 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196835009325 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1196835009326 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835009327 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835009328 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 1196835009329 dimerization interface [polypeptide binding]; other site 1196835009330 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1196835009331 Domain of unknown function (DUF305); Region: DUF305; cl17794 1196835009332 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1196835009333 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 1196835009334 catecholate siderophore receptor CirA; Provisional; Region: PRK10064 1196835009335 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 1196835009336 N-terminal plug; other site 1196835009337 ligand-binding site [chemical binding]; other site 1196835009338 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 1196835009339 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1196835009340 dimer interface [polypeptide binding]; other site 1196835009341 putative PBP binding regions; other site 1196835009342 ABC-ATPase subunit interface; other site 1196835009343 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1196835009344 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 1196835009345 ABC-ATPase subunit interface; other site 1196835009346 dimer interface [polypeptide binding]; other site 1196835009347 putative PBP binding regions; other site 1196835009348 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1196835009349 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1196835009350 Walker A/P-loop; other site 1196835009351 ATP binding site [chemical binding]; other site 1196835009352 Q-loop/lid; other site 1196835009353 ABC transporter signature motif; other site 1196835009354 Walker B; other site 1196835009355 D-loop; other site 1196835009356 H-loop/switch region; other site 1196835009357 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 1196835009358 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 1196835009359 intersubunit interface [polypeptide binding]; other site 1196835009360 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 1196835009361 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 1196835009362 S-adenosylmethionine binding site [chemical binding]; other site 1196835009363 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 1196835009364 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1196835009365 putative NAD(P) binding site [chemical binding]; other site 1196835009366 TLC ATP/ADP transporter; Region: TLC; cl03940 1196835009367 short chain dehydrogenase; Provisional; Region: PRK06197 1196835009368 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 1196835009369 putative NAD(P) binding site [chemical binding]; other site 1196835009370 active site 1196835009371 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835009372 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835009373 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1196835009374 putative effector binding pocket; other site 1196835009375 putative dimerization interface [polypeptide binding]; other site 1196835009376 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1196835009377 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1196835009378 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1196835009379 Biofilm formation and stress response factor; Region: BsmA; pfam10014 1196835009380 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1196835009381 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835009382 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 1196835009383 dimerization interface [polypeptide binding]; other site 1196835009384 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1196835009385 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 1196835009386 putative C-terminal domain interface [polypeptide binding]; other site 1196835009387 putative GSH binding site (G-site) [chemical binding]; other site 1196835009388 putative dimer interface [polypeptide binding]; other site 1196835009389 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 1196835009390 putative N-terminal domain interface [polypeptide binding]; other site 1196835009391 putative dimer interface [polypeptide binding]; other site 1196835009392 putative substrate binding pocket (H-site) [chemical binding]; other site 1196835009393 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1196835009394 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 1196835009395 active site 1196835009396 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835009397 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835009398 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 1196835009399 putative effector binding pocket; other site 1196835009400 putative dimerization interface [polypeptide binding]; other site 1196835009401 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1196835009402 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 1196835009403 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1196835009404 potential frameshift: common BLAST hit: gi|386021601|ref|YP_005939625.1| gamma-glutamyltranspeptidase 1196835009405 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 1196835009406 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1196835009407 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 1196835009408 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1196835009409 NADP binding site [chemical binding]; other site 1196835009410 homodimer interface [polypeptide binding]; other site 1196835009411 active site 1196835009412 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1196835009413 ABC1 family; Region: ABC1; pfam03109 1196835009414 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 1196835009415 active site 1196835009416 ATP binding site [chemical binding]; other site 1196835009417 circadian clock protein KaiC; Reviewed; Region: PRK09302 1196835009418 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 1196835009419 Walker A motif; other site 1196835009420 ATP binding site [chemical binding]; other site 1196835009421 Walker B motif; other site 1196835009422 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 1196835009423 Walker A motif; other site 1196835009424 ATP binding site [chemical binding]; other site 1196835009425 Walker B motif; other site 1196835009426 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196835009427 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 1196835009428 dimer interface [polypeptide binding]; other site 1196835009429 phosphorylation site [posttranslational modification] 1196835009430 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 1196835009431 ATP binding site [chemical binding]; other site 1196835009432 G-X-G motif; other site 1196835009433 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835009434 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835009435 active site 1196835009436 phosphorylation site [posttranslational modification] 1196835009437 intermolecular recognition site; other site 1196835009438 dimerization interface [polypeptide binding]; other site 1196835009439 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196835009440 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 1196835009441 dimer interface [polypeptide binding]; other site 1196835009442 phosphorylation site [posttranslational modification] 1196835009443 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 1196835009444 ATP binding site [chemical binding]; other site 1196835009445 Mg2+ binding site [ion binding]; other site 1196835009446 G-X-G motif; other site 1196835009447 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196835009448 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835009449 active site 1196835009450 phosphorylation site [posttranslational modification] 1196835009451 intermolecular recognition site; other site 1196835009452 dimerization interface [polypeptide binding]; other site 1196835009453 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1196835009454 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1196835009455 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1196835009456 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1196835009457 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1196835009458 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 1196835009459 NMT1/THI5 like; Region: NMT1; pfam09084 1196835009460 substrate binding pocket [chemical binding]; other site 1196835009461 membrane-bound complex binding site; other site 1196835009462 hinge residues; other site 1196835009463 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1196835009464 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1196835009465 Walker A/P-loop; other site 1196835009466 ATP binding site [chemical binding]; other site 1196835009467 Q-loop/lid; other site 1196835009468 ABC transporter signature motif; other site 1196835009469 Walker B; other site 1196835009470 D-loop; other site 1196835009471 H-loop/switch region; other site 1196835009472 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1196835009473 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835009474 putative PBP binding loops; other site 1196835009475 dimer interface [polypeptide binding]; other site 1196835009476 ABC-ATPase subunit interface; other site 1196835009477 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 1196835009478 nucleoside/Zn binding site; other site 1196835009479 dimer interface [polypeptide binding]; other site 1196835009480 catalytic motif [active] 1196835009481 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1196835009482 classical (c) SDRs; Region: SDR_c; cd05233 1196835009483 NAD(P) binding site [chemical binding]; other site 1196835009484 active site 1196835009485 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1196835009486 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1196835009487 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1196835009488 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835009489 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1196835009490 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1196835009491 Walker A/P-loop; other site 1196835009492 ATP binding site [chemical binding]; other site 1196835009493 Q-loop/lid; other site 1196835009494 ABC transporter signature motif; other site 1196835009495 Walker B; other site 1196835009496 D-loop; other site 1196835009497 H-loop/switch region; other site 1196835009498 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1196835009499 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1196835009500 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 1196835009501 TM-ABC transporter signature motif; other site 1196835009502 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1196835009503 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 1196835009504 TM-ABC transporter signature motif; other site 1196835009505 Nuclease-related domain; Region: NERD; pfam08378 1196835009506 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1196835009507 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 1196835009508 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 1196835009509 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1196835009510 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1196835009511 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 1196835009512 DNA topoisomerase III; Provisional; Region: PRK07726 1196835009513 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1196835009514 active site 1196835009515 putative interdomain interaction site [polypeptide binding]; other site 1196835009516 putative metal-binding site [ion binding]; other site 1196835009517 putative nucleotide binding site [chemical binding]; other site 1196835009518 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 1196835009519 domain I; other site 1196835009520 DNA binding groove [nucleotide binding] 1196835009521 phosphate binding site [ion binding]; other site 1196835009522 domain II; other site 1196835009523 domain III; other site 1196835009524 nucleotide binding site [chemical binding]; other site 1196835009525 catalytic site [active] 1196835009526 domain IV; other site 1196835009527 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1196835009528 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1196835009529 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1196835009530 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 1196835009531 transmembrane helices; other site 1196835009532 TrkA-C domain; Region: TrkA_C; pfam02080 1196835009533 TrkA-C domain; Region: TrkA_C; pfam02080 1196835009534 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 1196835009535 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1196835009536 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 1196835009537 hypothetical protein; Provisional; Region: PRK09272 1196835009538 Nitrate and nitrite sensing; Region: NIT; pfam08376 1196835009539 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 1196835009540 dimerization interface [polypeptide binding]; other site 1196835009541 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835009542 dimer interface [polypeptide binding]; other site 1196835009543 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1196835009544 putative CheW interface [polypeptide binding]; other site 1196835009545 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1196835009546 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 1196835009547 putative substrate translocation pore; other site 1196835009548 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1196835009549 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1196835009550 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1196835009551 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 1196835009552 dimerization interface [polypeptide binding]; other site 1196835009553 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835009554 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835009555 dimer interface [polypeptide binding]; other site 1196835009556 putative CheW interface [polypeptide binding]; other site 1196835009557 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 1196835009558 potential frameshift: common BLAST hit: gi|339495044|ref|YP_004715337.1| AraC family transcriptional regulator 1196835009559 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1196835009560 Protein of unknown function (DUF445); Region: DUF445; pfam04286 1196835009561 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 1196835009562 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835009563 Walker A/P-loop; other site 1196835009564 ATP binding site [chemical binding]; other site 1196835009565 Q-loop/lid; other site 1196835009566 ABC transporter signature motif; other site 1196835009567 Walker B; other site 1196835009568 D-loop; other site 1196835009569 H-loop/switch region; other site 1196835009570 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1196835009571 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835009572 dimer interface [polypeptide binding]; other site 1196835009573 conserved gate region; other site 1196835009574 putative PBP binding loops; other site 1196835009575 ABC-ATPase subunit interface; other site 1196835009576 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1196835009577 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 1196835009578 membrane-bound complex binding site; other site 1196835009579 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 1196835009580 HIT family signature motif; other site 1196835009581 catalytic residue [active] 1196835009582 glutamate carboxypeptidase; Reviewed; Region: PRK06133 1196835009583 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 1196835009584 metal binding site [ion binding]; metal-binding site 1196835009585 dimer interface [polypeptide binding]; other site 1196835009586 Predicted periplasmic protein [Function unknown]; Region: COG3904 1196835009587 CAAX protease self-immunity; Region: Abi; pfam02517 1196835009588 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1196835009589 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1196835009590 dimer interface [polypeptide binding]; other site 1196835009591 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1196835009592 Predicted membrane protein [Function unknown]; Region: COG3503 1196835009593 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1196835009594 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1196835009595 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1196835009596 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1196835009597 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1196835009598 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1196835009599 Ion channel; Region: Ion_trans_2; pfam07885 1196835009600 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1196835009601 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 1196835009602 S-adenosylmethionine binding site [chemical binding]; other site 1196835009603 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1196835009604 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1196835009605 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1196835009606 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1196835009607 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1196835009608 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 1196835009609 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196835009610 dimer interface [polypeptide binding]; other site 1196835009611 phosphorylation site [posttranslational modification] 1196835009612 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 1196835009613 ATP binding site [chemical binding]; other site 1196835009614 Mg2+ binding site [ion binding]; other site 1196835009615 G-X-G motif; other site 1196835009616 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; cd00143 1196835009617 Protein phosphatase 2C; Region: PP2C; pfam00481 1196835009618 active site 1196835009619 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1196835009620 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1196835009621 active site 1196835009622 ATP binding site [chemical binding]; other site 1196835009623 substrate binding site [chemical binding]; other site 1196835009624 activation loop (A-loop); other site 1196835009625 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1196835009626 phosphopeptide binding site; other site 1196835009627 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1196835009628 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1196835009629 phosphopeptide binding site; other site 1196835009630 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1196835009631 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1196835009632 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 1196835009633 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 1196835009634 ATP binding site [chemical binding]; other site 1196835009635 putative Mg++ binding site [ion binding]; other site 1196835009636 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 1196835009637 nucleotide binding region [chemical binding]; other site 1196835009638 ATP-binding site [chemical binding]; other site 1196835009639 Helicase associated domain (HA2); Region: HA2; pfam04408 1196835009640 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1196835009641 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1196835009642 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1196835009643 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 1196835009644 PA/protease or protease-like domain interface [polypeptide binding]; other site 1196835009645 M28 Zn-peptidase Streptomyces griseus Aminopeptidase and similar proteins; Region: M28_SGAP_like; cd03876 1196835009646 Peptidase family M28; Region: Peptidase_M28; pfam04389 1196835009647 active site 1196835009648 metal binding site [ion binding]; metal-binding site 1196835009649 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 1196835009650 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1196835009651 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 1196835009652 dimerization interface [polypeptide binding]; other site 1196835009653 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835009654 dimer interface [polypeptide binding]; other site 1196835009655 putative CheW interface [polypeptide binding]; other site 1196835009656 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 1196835009657 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 1196835009658 dimerization interface [polypeptide binding]; other site 1196835009659 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835009660 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835009661 dimer interface [polypeptide binding]; other site 1196835009662 putative CheW interface [polypeptide binding]; other site 1196835009663 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 1196835009664 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1196835009665 acyl-activating enzyme (AAE) consensus motif; other site 1196835009666 putative AMP binding site [chemical binding]; other site 1196835009667 putative active site [active] 1196835009668 putative CoA binding site [chemical binding]; other site 1196835009669 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 1196835009670 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1196835009671 acyl-activating enzyme (AAE) consensus motif; other site 1196835009672 putative AMP binding site [chemical binding]; other site 1196835009673 putative active site [active] 1196835009674 putative CoA binding site [chemical binding]; other site 1196835009675 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 1196835009676 dimer interaction site [polypeptide binding]; other site 1196835009677 substrate-binding tunnel; other site 1196835009678 active site 1196835009679 catalytic site [active] 1196835009680 substrate binding site [chemical binding]; other site 1196835009681 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 1196835009682 carbohydrate binding site [chemical binding]; other site 1196835009683 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 1196835009684 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 1196835009685 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 1196835009686 Ca binding site [ion binding]; other site 1196835009687 active site 1196835009688 catalytic site [active] 1196835009689 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 1196835009690 Alkylated DNA repair protein [DNA replication, recombination, and repair]; Region: AlkB; COG3145 1196835009691 ATP-dependent helicase HepA; Validated; Region: PRK04914 1196835009692 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 1196835009693 ATP binding site [chemical binding]; other site 1196835009694 putative Mg++ binding site [ion binding]; other site 1196835009695 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 1196835009696 nucleotide binding region [chemical binding]; other site 1196835009697 ATP-binding site [chemical binding]; other site 1196835009698 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 1196835009699 putative chaperone; Provisional; Region: PRK11678 1196835009700 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1196835009701 nucleotide binding site [chemical binding]; other site 1196835009702 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1196835009703 SBD interface [polypeptide binding]; other site 1196835009704 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 1196835009705 putative substrate translocation pore; other site 1196835009706 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196835009707 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1196835009708 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1196835009709 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1196835009710 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1196835009711 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1196835009712 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 1196835009713 substrate binding pocket [chemical binding]; other site 1196835009714 membrane-bound complex binding site; other site 1196835009715 hinge residues; other site 1196835009716 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1196835009717 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835009718 Walker A/P-loop; other site 1196835009719 ATP binding site [chemical binding]; other site 1196835009720 Q-loop/lid; other site 1196835009721 ABC transporter signature motif; other site 1196835009722 Walker B; other site 1196835009723 D-loop; other site 1196835009724 H-loop/switch region; other site 1196835009725 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 1196835009726 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1196835009727 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1196835009728 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1196835009729 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 1196835009730 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1196835009731 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 1196835009732 dimerization interface [polypeptide binding]; other site 1196835009733 ligand binding site [chemical binding]; other site 1196835009734 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1196835009735 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 1196835009736 TM-ABC transporter signature motif; other site 1196835009737 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1196835009738 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1196835009739 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 1196835009740 TM-ABC transporter signature motif; other site 1196835009741 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1196835009742 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1196835009743 Walker A/P-loop; other site 1196835009744 ATP binding site [chemical binding]; other site 1196835009745 Q-loop/lid; other site 1196835009746 ABC transporter signature motif; other site 1196835009747 Walker B; other site 1196835009748 D-loop; other site 1196835009749 H-loop/switch region; other site 1196835009750 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1196835009751 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1196835009752 Walker A/P-loop; other site 1196835009753 ATP binding site [chemical binding]; other site 1196835009754 Q-loop/lid; other site 1196835009755 ABC transporter signature motif; other site 1196835009756 Walker B; other site 1196835009757 D-loop; other site 1196835009758 H-loop/switch region; other site 1196835009759 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1196835009760 META domain; Region: META; pfam03724 1196835009761 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1196835009762 legume lectins; Region: lectin_L-type; cl14058 1196835009763 homotetramer interaction site [polypeptide binding]; other site 1196835009764 carbohydrate binding site [chemical binding]; other site 1196835009765 metal binding site [ion binding]; metal-binding site 1196835009766 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1196835009767 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1196835009768 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1196835009769 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1196835009770 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1196835009771 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1196835009772 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1196835009773 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 1196835009774 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1196835009775 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 1196835009776 Walker A motif; other site 1196835009777 ATP binding site [chemical binding]; other site 1196835009778 Walker B motif; other site 1196835009779 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1196835009780 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 1196835009781 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 1196835009782 Walker A motif; other site 1196835009783 ATP binding site [chemical binding]; other site 1196835009784 Walker B motif; other site 1196835009785 arginine finger; other site 1196835009786 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 1196835009787 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1196835009788 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1196835009789 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1196835009790 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1196835009791 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 1196835009792 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1196835009793 active site 1196835009794 DNA polymerase IV; Validated; Region: PRK02406 1196835009795 DNA binding site [nucleotide binding] 1196835009796 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 1196835009797 active site 1196835009798 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1196835009799 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1196835009800 HIGH motif; other site 1196835009801 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1196835009802 active site 1196835009803 KMSKS motif; other site 1196835009804 excinuclease ABC subunit B; Provisional; Region: PRK05298 1196835009805 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 1196835009806 ATP binding site [chemical binding]; other site 1196835009807 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 1196835009808 nucleotide binding region [chemical binding]; other site 1196835009809 ATP-binding site [chemical binding]; other site 1196835009810 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1196835009811 UvrB/uvrC motif; Region: UVR; pfam02151 1196835009812 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1196835009813 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 1196835009814 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835009815 homodimer interface [polypeptide binding]; other site 1196835009816 catalytic residue [active] 1196835009817 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1196835009818 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 1196835009819 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835009820 catalytic residue [active] 1196835009821 homoserine dehydrogenase; Provisional; Region: PRK06349 1196835009822 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1196835009823 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1196835009824 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 1196835009825 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1196835009826 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 1196835009827 dimerization domain [polypeptide binding]; other site 1196835009828 dimer interface [polypeptide binding]; other site 1196835009829 catalytic residues [active] 1196835009830 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1196835009831 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 1196835009832 active site 1196835009833 Int/Topo IB signature motif; other site 1196835009834 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1196835009835 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1196835009836 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1196835009837 RimM N-terminal domain; Region: RimM; pfam01782 1196835009838 PRC-barrel domain; Region: PRC; pfam05239 1196835009839 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1196835009840 signal recognition particle protein; Provisional; Region: PRK10867 1196835009841 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1196835009842 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 1196835009843 P loop; other site 1196835009844 GTP binding site [chemical binding]; other site 1196835009845 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1196835009846 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1196835009847 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1196835009848 Domain of unknown function DUF21; Region: DUF21; pfam01595 1196835009849 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 1196835009850 Transporter associated domain; Region: CorC_HlyC; smart01091 1196835009851 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1196835009852 ATP-grasp domain; Region: ATP-grasp; pfam02222 1196835009853 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1196835009854 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1196835009855 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 1196835009856 trimer interface [polypeptide binding]; other site 1196835009857 putative metal binding site [ion binding]; other site 1196835009858 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 1196835009859 putative active site [active] 1196835009860 putative CoA binding site [chemical binding]; other site 1196835009861 nudix motif; other site 1196835009862 metal binding site [ion binding]; metal-binding site 1196835009863 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 1196835009864 nudix motif; other site 1196835009865 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1196835009866 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1196835009867 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1196835009868 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 1196835009869 dimerization interface [polypeptide binding]; other site 1196835009870 ATP binding site [chemical binding]; other site 1196835009871 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 1196835009872 dimerization interface [polypeptide binding]; other site 1196835009873 ATP binding site [chemical binding]; other site 1196835009874 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1196835009875 putative active site [active] 1196835009876 catalytic triad [active] 1196835009877 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1196835009878 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1196835009879 Walker A/P-loop; other site 1196835009880 ATP binding site [chemical binding]; other site 1196835009881 Q-loop/lid; other site 1196835009882 ABC transporter signature motif; other site 1196835009883 Walker B; other site 1196835009884 D-loop; other site 1196835009885 H-loop/switch region; other site 1196835009886 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835009887 dimer interface [polypeptide binding]; other site 1196835009888 conserved gate region; other site 1196835009889 putative PBP binding loops; other site 1196835009890 ABC-ATPase subunit interface; other site 1196835009891 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1196835009892 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835009893 conserved gate region; other site 1196835009894 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835009895 dimer interface [polypeptide binding]; other site 1196835009896 conserved gate region; other site 1196835009897 putative PBP binding loops; other site 1196835009898 ABC-ATPase subunit interface; other site 1196835009899 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1196835009900 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 1196835009901 substrate binding pocket [chemical binding]; other site 1196835009902 membrane-bound complex binding site; other site 1196835009903 hinge residues; other site 1196835009904 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1196835009905 putative hydrolase; Provisional; Region: PRK11460 1196835009906 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1196835009907 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK01297 1196835009908 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 1196835009909 ATP binding site [chemical binding]; other site 1196835009910 Mg++ binding site [ion binding]; other site 1196835009911 motif III; other site 1196835009912 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 1196835009913 nucleotide binding region [chemical binding]; other site 1196835009914 ATP-binding site [chemical binding]; other site 1196835009915 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 1196835009916 MoaE homodimer interface [polypeptide binding]; other site 1196835009917 MoaD interaction [polypeptide binding]; other site 1196835009918 active site residues [active] 1196835009919 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1196835009920 MoaE interaction surface [polypeptide binding]; other site 1196835009921 MoeB interaction surface [polypeptide binding]; other site 1196835009922 thiocarboxylated glycine; other site 1196835009923 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 1196835009924 trimer interface [polypeptide binding]; other site 1196835009925 dimer interface [polypeptide binding]; other site 1196835009926 putative active site [active] 1196835009927 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1196835009928 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1196835009929 putative active site [active] 1196835009930 PhoH-like protein; Region: PhoH; pfam02562 1196835009931 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1196835009932 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1196835009933 hypothetical protein; Validated; Region: PRK02101 1196835009934 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1196835009935 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1196835009936 Substrate binding site; other site 1196835009937 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1196835009938 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1196835009939 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1196835009940 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1196835009941 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1196835009942 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1196835009943 putative active site [active] 1196835009944 putative substrate binding site [chemical binding]; other site 1196835009945 putative cosubstrate binding site; other site 1196835009946 catalytic site [active] 1196835009947 exonuclease I; Provisional; Region: sbcB; PRK11779 1196835009948 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1196835009949 active site 1196835009950 catalytic site [active] 1196835009951 substrate binding site [chemical binding]; other site 1196835009952 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1196835009953 RDD family; Region: RDD; pfam06271 1196835009954 Uncharacterized membrane protein [Function unknown]; Region: SpoIIM; COG1300 1196835009955 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 1196835009956 MoxR-like ATPases [General function prediction only]; Region: COG0714 1196835009957 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 1196835009958 Walker A motif; other site 1196835009959 ATP binding site [chemical binding]; other site 1196835009960 Walker B motif; other site 1196835009961 arginine finger; other site 1196835009962 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1196835009963 Protein of unknown function DUF58; Region: DUF58; pfam01882 1196835009964 PilZ domain; Region: PilZ; pfam07238 1196835009965 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1196835009966 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 1196835009967 pyruvate kinase; Provisional; Region: PRK05826 1196835009968 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 1196835009969 domain interfaces; other site 1196835009970 active site 1196835009971 hypothetical protein; Provisional; Region: PRK05713 1196835009972 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 1196835009973 catalytic loop [active] 1196835009974 iron binding site [ion binding]; other site 1196835009975 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1196835009976 FAD binding pocket [chemical binding]; other site 1196835009977 conserved FAD binding motif [chemical binding]; other site 1196835009978 phosphate binding motif [ion binding]; other site 1196835009979 beta-alpha-beta structure motif; other site 1196835009980 NAD binding pocket [chemical binding]; other site 1196835009981 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835009982 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835009983 metal binding site [ion binding]; metal-binding site 1196835009984 active site 1196835009985 I-site; other site 1196835009986 putative fumarate hydratase; Provisional; Region: PRK15392 1196835009987 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1196835009988 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1196835009989 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1196835009990 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 1196835009991 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1196835009992 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1196835009993 conserved cys residue [active] 1196835009994 cardiolipin synthase 2; Provisional; Region: PRK11263 1196835009995 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1196835009996 putative active site [active] 1196835009997 catalytic site [active] 1196835009998 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1196835009999 putative active site [active] 1196835010000 catalytic site [active] 1196835010001 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196835010002 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1196835010003 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1196835010004 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1196835010005 putative acyl-acceptor binding pocket; other site 1196835010006 Protein of unknown function, DUF479; Region: DUF479; cl01203 1196835010007 aldolase II superfamily protein; Provisional; Region: PRK07044 1196835010008 intersubunit interface [polypeptide binding]; other site 1196835010009 active site 1196835010010 Zn2+ binding site [ion binding]; other site 1196835010011 flavodoxin; Provisional; Region: PRK05723 1196835010012 PilZ domain; Region: PilZ; pfam07238 1196835010013 dihydromonapterin reductase; Provisional; Region: PRK06483 1196835010014 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196835010015 NAD(P) binding site [chemical binding]; other site 1196835010016 active site 1196835010017 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1196835010018 homooctamer interface [polypeptide binding]; other site 1196835010019 active site 1196835010020 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 1196835010021 HopJ type III effector protein; Region: HopJ; pfam08888 1196835010022 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1196835010023 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 1196835010024 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1196835010025 putative active site [active] 1196835010026 putative FMN binding site [chemical binding]; other site 1196835010027 putative substrate binding site [chemical binding]; other site 1196835010028 putative catalytic residue [active] 1196835010029 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196835010030 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196835010031 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 1196835010032 catalytic residues [active] 1196835010033 dimer interface [polypeptide binding]; other site 1196835010034 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1196835010035 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1196835010036 propionate/acetate kinase; Provisional; Region: PRK12379 1196835010037 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1196835010038 nucleotide binding site [chemical binding]; other site 1196835010039 butyrate kinase; Provisional; Region: PRK03011 1196835010040 phosphate acetyltransferase; Reviewed; Region: PRK05632 1196835010041 DRTGG domain; Region: DRTGG; pfam07085 1196835010042 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1196835010043 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1196835010044 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1196835010045 putative acyl-acceptor binding pocket; other site 1196835010046 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835010047 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835010048 active site 1196835010049 phosphorylation site [posttranslational modification] 1196835010050 intermolecular recognition site; other site 1196835010051 dimerization interface [polypeptide binding]; other site 1196835010052 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 1196835010053 putative active site [active] 1196835010054 heme pocket [chemical binding]; other site 1196835010055 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835010056 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835010057 metal binding site [ion binding]; metal-binding site 1196835010058 active site 1196835010059 I-site; other site 1196835010060 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 1196835010061 CHASE domain; Region: CHASE; pfam03924 1196835010062 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 1196835010063 PAS domain; Region: PAS_9; pfam13426 1196835010064 putative active site [active] 1196835010065 heme pocket [chemical binding]; other site 1196835010066 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1196835010067 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 1196835010068 putative active site [active] 1196835010069 heme pocket [chemical binding]; other site 1196835010070 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 1196835010071 dimer interface [polypeptide binding]; other site 1196835010072 phosphorylation site [posttranslational modification] 1196835010073 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 1196835010074 ATP binding site [chemical binding]; other site 1196835010075 Mg2+ binding site [ion binding]; other site 1196835010076 G-X-G motif; other site 1196835010077 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835010078 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835010079 active site 1196835010080 phosphorylation site [posttranslational modification] 1196835010081 intermolecular recognition site; other site 1196835010082 dimerization interface [polypeptide binding]; other site 1196835010083 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835010084 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835010085 active site 1196835010086 phosphorylation site [posttranslational modification] 1196835010087 intermolecular recognition site; other site 1196835010088 dimerization interface [polypeptide binding]; other site 1196835010089 putative outer membrane lipoprotein; Provisional; Region: PRK10510 1196835010090 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196835010091 ligand binding site [chemical binding]; other site 1196835010092 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1196835010093 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1196835010094 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1196835010095 acyl-activating enzyme (AAE) consensus motif; other site 1196835010096 AMP binding site [chemical binding]; other site 1196835010097 active site 1196835010098 CoA binding site [chemical binding]; other site 1196835010099 LysE type translocator; Region: LysE; cl00565 1196835010100 glycerate dehydrogenase; Provisional; Region: PRK06487 1196835010101 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1196835010102 putative ligand binding site [chemical binding]; other site 1196835010103 putative NAD binding site [chemical binding]; other site 1196835010104 catalytic site [active] 1196835010105 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1196835010106 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1196835010107 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 1196835010108 S-adenosylmethionine binding site [chemical binding]; other site 1196835010109 Predicted membrane protein [Function unknown]; Region: COG2119 1196835010110 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1196835010111 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1196835010112 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 1196835010113 Peptidase family M48; Region: Peptidase_M48; pfam01435 1196835010114 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 1196835010115 dimerization interface [polypeptide binding]; other site 1196835010116 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835010117 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835010118 dimer interface [polypeptide binding]; other site 1196835010119 putative CheW interface [polypeptide binding]; other site 1196835010120 Uncharacterized conserved protein [Function unknown]; Region: COG2135 1196835010121 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1196835010122 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 1196835010123 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1196835010124 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1196835010125 putative acyl-acceptor binding pocket; other site 1196835010126 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1196835010127 malate:quinone oxidoreductase; Reviewed; Region: PRK13339 1196835010128 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1196835010129 putative transporter; Provisional; Region: PRK11660 1196835010130 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1196835010131 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1196835010132 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 1196835010133 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1196835010134 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 1196835010135 NAD binding site [chemical binding]; other site 1196835010136 homodimer interface [polypeptide binding]; other site 1196835010137 active site 1196835010138 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1196835010139 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 1196835010140 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 1196835010141 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 1196835010142 MgtC family; Region: MgtC; pfam02308 1196835010143 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1196835010144 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 1196835010145 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 1196835010146 Ferritin-like domain; Region: Ferritin; pfam00210 1196835010147 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1196835010148 dinuclear metal binding motif [ion binding]; other site 1196835010149 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1196835010150 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1196835010151 cell division protein FtsZ; Validated; Region: PRK09330 1196835010152 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 1196835010153 nucleotide binding site [chemical binding]; other site 1196835010154 SulA interaction site; other site 1196835010155 cell division protein FtsA; Region: ftsA; TIGR01174 1196835010156 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1196835010157 nucleotide binding site [chemical binding]; other site 1196835010158 Cell division protein FtsA; Region: FtsA; pfam14450 1196835010159 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1196835010160 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1196835010161 Cell division protein FtsQ; Region: FtsQ; pfam03799 1196835010162 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1196835010163 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1196835010164 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1196835010165 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1196835010166 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1196835010167 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1196835010168 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1196835010169 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1196835010170 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 1196835010171 active site 1196835010172 homodimer interface [polypeptide binding]; other site 1196835010173 cell division protein FtsW; Region: ftsW; TIGR02614 1196835010174 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 1196835010175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196835010176 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1196835010177 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1196835010178 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 1196835010179 Mg++ binding site [ion binding]; other site 1196835010180 putative catalytic motif [active] 1196835010181 putative substrate binding site [chemical binding]; other site 1196835010182 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1196835010183 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 1196835010184 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1196835010185 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1196835010186 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1196835010187 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1196835010188 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1196835010189 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1196835010190 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 1196835010191 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1196835010192 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1196835010193 Cell division protein FtsL; Region: FtsL; pfam04999 1196835010194 MraW methylase family; Region: Methyltransf_5; cl17771 1196835010195 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1196835010196 cell division protein MraZ; Reviewed; Region: PRK00326 1196835010197 MraZ protein; Region: MraZ; pfam02381 1196835010198 MraZ protein; Region: MraZ; pfam02381 1196835010199 Predicted methyltransferases [General function prediction only]; Region: COG0313 1196835010200 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1196835010201 putative SAM binding site [chemical binding]; other site 1196835010202 putative homodimer interface [polypeptide binding]; other site 1196835010203 LppC putative lipoprotein; Region: LppC; pfam04348 1196835010204 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1196835010205 putative ligand binding site [chemical binding]; other site 1196835010206 hypothetical protein; Reviewed; Region: PRK12497 1196835010207 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 1196835010208 dimer interface [polypeptide binding]; other site 1196835010209 active site 1196835010210 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1196835010211 BON domain; Region: BON; pfam04972 1196835010212 BON domain; Region: BON; pfam04972 1196835010213 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1196835010214 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 1196835010215 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1196835010216 C-terminal domain interface [polypeptide binding]; other site 1196835010217 putative GSH binding site (G-site) [chemical binding]; other site 1196835010218 dimer interface [polypeptide binding]; other site 1196835010219 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1196835010220 dimer interface [polypeptide binding]; other site 1196835010221 N-terminal domain interface [polypeptide binding]; other site 1196835010222 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 1196835010223 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1196835010224 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 1196835010225 Qi binding site; other site 1196835010226 intrachain domain interface; other site 1196835010227 interchain domain interface [polypeptide binding]; other site 1196835010228 heme bH binding site [chemical binding]; other site 1196835010229 heme bL binding site [chemical binding]; other site 1196835010230 Qo binding site; other site 1196835010231 interchain domain interface [polypeptide binding]; other site 1196835010232 intrachain domain interface; other site 1196835010233 Qi binding site; other site 1196835010234 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1196835010235 Qo binding site; other site 1196835010236 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1196835010237 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 1196835010238 [2Fe-2S] cluster binding site [ion binding]; other site 1196835010239 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1196835010240 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 1196835010241 23S rRNA interface [nucleotide binding]; other site 1196835010242 L3 interface [polypeptide binding]; other site 1196835010243 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 1196835010244 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1196835010245 active site 1196835010246 catalytic tetrad [active] 1196835010247 Predicted membrane protein [Function unknown]; Region: COG3235 1196835010248 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1196835010249 Domain of unknown function (DUF329); Region: DUF329; cl01144 1196835010250 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1196835010251 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 1196835010252 CoA-binding site [chemical binding]; other site 1196835010253 ATP-binding [chemical binding]; other site 1196835010254 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1196835010255 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 1196835010256 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1196835010257 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1196835010258 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1196835010259 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1196835010260 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 1196835010261 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1196835010262 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 1196835010263 Walker A motif; other site 1196835010264 ATP binding site [chemical binding]; other site 1196835010265 Walker B motif; other site 1196835010266 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 1196835010267 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 1196835010268 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1196835010269 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1196835010270 Walker A/P-loop; other site 1196835010271 ATP binding site [chemical binding]; other site 1196835010272 Q-loop/lid; other site 1196835010273 ABC transporter signature motif; other site 1196835010274 Walker B; other site 1196835010275 D-loop; other site 1196835010276 H-loop/switch region; other site 1196835010277 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1196835010278 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1196835010279 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1196835010280 CysD dimerization site [polypeptide binding]; other site 1196835010281 G1 box; other site 1196835010282 putative GEF interaction site [polypeptide binding]; other site 1196835010283 GTP/Mg2+ binding site [chemical binding]; other site 1196835010284 Switch I region; other site 1196835010285 G2 box; other site 1196835010286 G3 box; other site 1196835010287 Switch II region; other site 1196835010288 G4 box; other site 1196835010289 G5 box; other site 1196835010290 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 1196835010291 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 1196835010292 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 1196835010293 ligand-binding site [chemical binding]; other site 1196835010294 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1196835010295 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 1196835010296 Active Sites [active] 1196835010297 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1196835010298 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1196835010299 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1196835010300 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 1196835010301 protein binding site [polypeptide binding]; other site 1196835010302 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1196835010303 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 1196835010304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835010305 homodimer interface [polypeptide binding]; other site 1196835010306 catalytic residue [active] 1196835010307 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1196835010308 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 1196835010309 NAD binding site [chemical binding]; other site 1196835010310 dimerization interface [polypeptide binding]; other site 1196835010311 product binding site; other site 1196835010312 substrate binding site [chemical binding]; other site 1196835010313 zinc binding site [ion binding]; other site 1196835010314 catalytic residues [active] 1196835010315 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1196835010316 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1196835010317 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1196835010318 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 1196835010319 hinge; other site 1196835010320 active site 1196835010321 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1196835010322 Predicted membrane protein [Function unknown]; Region: COG3223 1196835010323 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 1196835010324 anti sigma factor interaction site; other site 1196835010325 regulatory phosphorylation site [posttranslational modification]; other site 1196835010326 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 1196835010327 mce related protein; Region: MCE; pfam02470 1196835010328 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1196835010329 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1196835010330 Permease; Region: Permease; cl00510 1196835010331 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1196835010332 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1196835010333 Walker A/P-loop; other site 1196835010334 ATP binding site [chemical binding]; other site 1196835010335 Q-loop/lid; other site 1196835010336 ABC transporter signature motif; other site 1196835010337 Walker B; other site 1196835010338 D-loop; other site 1196835010339 H-loop/switch region; other site 1196835010340 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1196835010341 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 1196835010342 putative active site [active] 1196835010343 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 1196835010344 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1196835010345 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 1196835010346 active site 1196835010347 motif I; other site 1196835010348 motif II; other site 1196835010349 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1196835010350 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1196835010351 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1196835010352 OstA-like protein; Region: OstA; pfam03968 1196835010353 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1196835010354 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1196835010355 Walker A/P-loop; other site 1196835010356 ATP binding site [chemical binding]; other site 1196835010357 Q-loop/lid; other site 1196835010358 ABC transporter signature motif; other site 1196835010359 Walker B; other site 1196835010360 D-loop; other site 1196835010361 H-loop/switch region; other site 1196835010362 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1196835010363 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1196835010364 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1196835010365 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1196835010366 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 1196835010367 30S subunit binding site; other site 1196835010368 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 1196835010369 active site 1196835010370 phosphorylation site [posttranslational modification] 1196835010371 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1196835010372 AAA domain; Region: AAA_18; pfam13238 1196835010373 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 1196835010374 dimerization domain swap beta strand [polypeptide binding]; other site 1196835010375 regulatory protein interface [polypeptide binding]; other site 1196835010376 active site 1196835010377 regulatory phosphorylation site [posttranslational modification]; other site 1196835010378 peptidase PmbA; Provisional; Region: PRK11040 1196835010379 hypothetical protein; Provisional; Region: PRK05255 1196835010380 protease TldD; Provisional; Region: tldD; PRK10735 1196835010381 nitrilase; Region: PLN02798 1196835010382 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1196835010383 putative active site [active] 1196835010384 catalytic triad [active] 1196835010385 dimer interface [polypeptide binding]; other site 1196835010386 TIGR02099 family protein; Region: TIGR02099 1196835010387 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1196835010388 ribonuclease G; Provisional; Region: PRK11712 1196835010389 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 1196835010390 homodimer interface [polypeptide binding]; other site 1196835010391 oligonucleotide binding site [chemical binding]; other site 1196835010392 Maf-like protein; Region: Maf; pfam02545 1196835010393 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 1196835010394 active site 1196835010395 dimer interface [polypeptide binding]; other site 1196835010396 PEGA domain; Region: PEGA; pfam08308 1196835010397 rod shape-determining protein MreD; Region: MreD; cl01087 1196835010398 rod shape-determining protein MreC; Provisional; Region: PRK13922 1196835010399 rod shape-determining protein MreC; Region: MreC; pfam04085 1196835010400 rod shape-determining protein MreB; Provisional; Region: PRK13927 1196835010401 MreB and similar proteins; Region: MreB_like; cd10225 1196835010402 nucleotide binding site [chemical binding]; other site 1196835010403 Mg binding site [ion binding]; other site 1196835010404 putative protofilament interaction site [polypeptide binding]; other site 1196835010405 RodZ interaction site [polypeptide binding]; other site 1196835010406 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1196835010407 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1196835010408 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1196835010409 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1196835010410 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1196835010411 GatB domain; Region: GatB_Yqey; smart00845 1196835010412 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1196835010413 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1196835010414 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 1196835010415 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1196835010416 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1196835010417 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 1196835010418 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1196835010419 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1196835010420 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1196835010421 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1196835010422 Peptidase family M23; Region: Peptidase_M23; pfam01551 1196835010423 Predicted permeases [General function prediction only]; Region: COG0679 1196835010424 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1196835010425 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835010426 active site 1196835010427 phosphorylation site [posttranslational modification] 1196835010428 intermolecular recognition site; other site 1196835010429 dimerization interface [polypeptide binding]; other site 1196835010430 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196835010431 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196835010432 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 1196835010433 ATP binding site [chemical binding]; other site 1196835010434 G-X-G motif; other site 1196835010435 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1196835010436 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1196835010437 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1196835010438 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 1196835010439 N-terminal plug; other site 1196835010440 ligand-binding site [chemical binding]; other site 1196835010441 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 1196835010442 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1196835010443 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 1196835010444 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 1196835010445 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1196835010446 Flavodoxin; Region: Flavodoxin_1; pfam00258 1196835010447 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like1; cd06200 1196835010448 FAD binding pocket [chemical binding]; other site 1196835010449 FAD binding motif [chemical binding]; other site 1196835010450 catalytic residues [active] 1196835010451 NAD binding pocket [chemical binding]; other site 1196835010452 phosphate binding motif [ion binding]; other site 1196835010453 beta-alpha-beta structure motif; other site 1196835010454 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1196835010455 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 1196835010456 N-terminal plug; other site 1196835010457 ligand-binding site [chemical binding]; other site 1196835010458 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1196835010459 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1196835010460 Sel1 repeat; Region: Sel1; cl02723 1196835010461 Sel1-like repeats; Region: SEL1; smart00671 1196835010462 Sel1-like repeats; Region: SEL1; smart00671 1196835010463 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1196835010464 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 1196835010465 dimer interface [polypeptide binding]; other site 1196835010466 active site 1196835010467 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1196835010468 catalytic residues [active] 1196835010469 substrate binding site [chemical binding]; other site 1196835010470 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1196835010471 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1196835010472 G1 box; other site 1196835010473 putative GEF interaction site [polypeptide binding]; other site 1196835010474 GTP/Mg2+ binding site [chemical binding]; other site 1196835010475 Switch I region; other site 1196835010476 G2 box; other site 1196835010477 G3 box; other site 1196835010478 Switch II region; other site 1196835010479 G4 box; other site 1196835010480 G5 box; other site 1196835010481 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 1196835010482 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 1196835010483 putative active site [active] 1196835010484 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1196835010485 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1196835010486 Trp docking motif [polypeptide binding]; other site 1196835010487 putative active site [active] 1196835010488 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 1196835010489 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1196835010490 active site 1196835010491 P-loop; other site 1196835010492 phosphorylation site [posttranslational modification] 1196835010493 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1196835010494 active site 1196835010495 P-loop; other site 1196835010496 phosphorylation site [posttranslational modification] 1196835010497 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 1196835010498 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1196835010499 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1196835010500 putative substrate binding site [chemical binding]; other site 1196835010501 putative ATP binding site [chemical binding]; other site 1196835010502 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 1196835010503 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 1196835010504 active site 1196835010505 phosphorylation site [posttranslational modification] 1196835010506 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; cl00163 1196835010507 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 1196835010508 dimerization domain swap beta strand [polypeptide binding]; other site 1196835010509 regulatory protein interface [polypeptide binding]; other site 1196835010510 active site 1196835010511 regulatory phosphorylation site [posttranslational modification]; other site 1196835010512 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1196835010513 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1196835010514 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1196835010515 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1196835010516 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 1196835010517 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1196835010518 DNA binding site [nucleotide binding] 1196835010519 domain linker motif; other site 1196835010520 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1196835010521 dimerization interface [polypeptide binding]; other site 1196835010522 ligand binding site [chemical binding]; other site 1196835010523 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 1196835010524 homodimer interface [polypeptide binding]; other site 1196835010525 chemical substrate binding site [chemical binding]; other site 1196835010526 oligomer interface [polypeptide binding]; other site 1196835010527 metal binding site [ion binding]; metal-binding site 1196835010528 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 1196835010529 S-adenosylmethionine binding site [chemical binding]; other site 1196835010530 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1196835010531 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1196835010532 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1196835010533 SdiA-regulated; Region: SdiA-regulated; pfam06977 1196835010534 SdiA-regulated; Region: SdiA-regulated; cd09971 1196835010535 putative active site [active] 1196835010536 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1196835010537 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1196835010538 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 1196835010539 arginine decarboxylase; Provisional; Region: PRK05354 1196835010540 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1196835010541 dimer interface [polypeptide binding]; other site 1196835010542 active site 1196835010543 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1196835010544 catalytic residues [active] 1196835010545 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1196835010546 translation initiation factor Sui1; Validated; Region: PRK06824 1196835010547 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1196835010548 putative rRNA binding site [nucleotide binding]; other site 1196835010549 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1196835010550 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1196835010551 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 1196835010552 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 1196835010553 Type II transport protein GspH; Region: GspH; pfam12019 1196835010554 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 1196835010555 Type II transport protein GspH; Region: GspH; pfam12019 1196835010556 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 1196835010557 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1196835010558 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 1196835010559 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 1196835010560 PilX N-terminal; Region: PilX_N; pfam14341 1196835010561 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 1196835010562 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 1196835010563 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1196835010564 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1196835010565 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1196835010566 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1196835010567 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1196835010568 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1196835010569 lipoprotein signal peptidase; Provisional; Region: PRK14787 1196835010570 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1196835010571 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1196835010572 active site 1196835010573 HIGH motif; other site 1196835010574 nucleotide binding site [chemical binding]; other site 1196835010575 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1196835010576 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1196835010577 active site 1196835010578 KMSKS motif; other site 1196835010579 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1196835010580 tRNA binding surface [nucleotide binding]; other site 1196835010581 anticodon binding site; other site 1196835010582 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1196835010583 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1196835010584 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1196835010585 active site 1196835010586 Riboflavin kinase; Region: Flavokinase; smart00904 1196835010587 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1196835010588 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1196835010589 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1196835010590 hypothetical protein; Provisional; Region: PRK10756 1196835010591 CreA protein; Region: CreA; pfam05981 1196835010592 gamma-glutamyl kinase; Provisional; Region: PRK05429 1196835010593 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 1196835010594 nucleotide binding site [chemical binding]; other site 1196835010595 homotetrameric interface [polypeptide binding]; other site 1196835010596 putative phosphate binding site [ion binding]; other site 1196835010597 putative allosteric binding site; other site 1196835010598 PUA domain; Region: PUA; pfam01472 1196835010599 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1196835010600 GTP1/OBG; Region: GTP1_OBG; pfam01018 1196835010601 Obg GTPase; Region: Obg; cd01898 1196835010602 G1 box; other site 1196835010603 GTP/Mg2+ binding site [chemical binding]; other site 1196835010604 Switch I region; other site 1196835010605 G2 box; other site 1196835010606 G3 box; other site 1196835010607 Switch II region; other site 1196835010608 G4 box; other site 1196835010609 G5 box; other site 1196835010610 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1196835010611 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1196835010612 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1196835010613 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1196835010614 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1196835010615 substrate binding pocket [chemical binding]; other site 1196835010616 chain length determination region; other site 1196835010617 substrate-Mg2+ binding site; other site 1196835010618 catalytic residues [active] 1196835010619 aspartate-rich region 1; other site 1196835010620 active site lid residues [active] 1196835010621 aspartate-rich region 2; other site 1196835010622 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1196835010623 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1196835010624 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1196835010625 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 1196835010626 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 1196835010627 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 1196835010628 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14613 1196835010629 hypothetical protein; Provisional; Region: PRK05208 1196835010630 AAA domain; Region: AAA_32; pfam13654 1196835010631 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1196835010632 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 1196835010633 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 1196835010634 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1196835010635 Protein of unknown function (DUF465); Region: DUF465; cl01070 1196835010636 DNA repair protein RadA; Provisional; Region: PRK11823 1196835010637 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 1196835010638 Walker A motif/ATP binding site; other site 1196835010639 ATP binding site [chemical binding]; other site 1196835010640 Walker B motif; other site 1196835010641 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1196835010642 PilZ domain; Region: PilZ; pfam07238 1196835010643 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1196835010644 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1196835010645 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 1196835010646 dimer interface [polypeptide binding]; other site 1196835010647 active site 1196835010648 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1196835010649 folate binding site [chemical binding]; other site 1196835010650 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1196835010651 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835010652 Walker A/P-loop; other site 1196835010653 ATP binding site [chemical binding]; other site 1196835010654 Q-loop/lid; other site 1196835010655 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196835010656 ABC transporter signature motif; other site 1196835010657 Walker B; other site 1196835010658 D-loop; other site 1196835010659 ABC transporter; Region: ABC_tran_2; pfam12848 1196835010660 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196835010661 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 1196835010662 dimerization interface [polypeptide binding]; other site 1196835010663 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1196835010664 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1196835010665 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 1196835010666 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835010667 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835010668 metal binding site [ion binding]; metal-binding site 1196835010669 active site 1196835010670 I-site; other site 1196835010671 glutamate dehydrogenase; Provisional; Region: PRK09414 1196835010672 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1196835010673 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1196835010674 NAD(P) binding site [chemical binding]; other site 1196835010675 ferredoxin-NADP reductase; Provisional; Region: PRK10926 1196835010676 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 1196835010677 FAD binding pocket [chemical binding]; other site 1196835010678 FAD binding motif [chemical binding]; other site 1196835010679 phosphate binding motif [ion binding]; other site 1196835010680 beta-alpha-beta structure motif; other site 1196835010681 NAD binding pocket [chemical binding]; other site 1196835010682 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 1196835010683 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 1196835010684 S-adenosylmethionine binding site [chemical binding]; other site 1196835010685 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1196835010686 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1196835010687 DNA binding residues [nucleotide binding] 1196835010688 putative dimer interface [polypeptide binding]; other site 1196835010689 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1196835010690 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1196835010691 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1196835010692 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1196835010693 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1196835010694 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1196835010695 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1196835010696 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1196835010697 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1196835010698 Ligand binding site; other site 1196835010699 metal-binding site 1196835010700 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1196835010701 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1196835010702 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1196835010703 DJ-1 family protein; Region: not_thiJ; TIGR01383 1196835010704 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 1196835010705 conserved cys residue [active] 1196835010706 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1196835010707 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1196835010708 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 1196835010709 S-adenosylmethionine binding site [chemical binding]; other site 1196835010710 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 1196835010711 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1196835010712 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 1196835010713 FAD binding pocket [chemical binding]; other site 1196835010714 FAD binding motif [chemical binding]; other site 1196835010715 phosphate binding motif [ion binding]; other site 1196835010716 beta-alpha-beta structure motif; other site 1196835010717 NAD(p) ribose binding residues [chemical binding]; other site 1196835010718 NAD binding pocket [chemical binding]; other site 1196835010719 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1196835010720 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 1196835010721 catalytic loop [active] 1196835010722 iron binding site [ion binding]; other site 1196835010723 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 1196835010724 Dihaem cytochrome c; Region: DHC; pfam09626 1196835010725 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 1196835010726 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196835010727 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 1196835010728 DNA binding residues [nucleotide binding] 1196835010729 Putative zinc-finger; Region: zf-HC2; pfam13490 1196835010730 Heavy-metal resistance; Region: Metal_resist; pfam13801 1196835010731 dimer interface [polypeptide binding]; other site 1196835010732 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1196835010733 Sulfatase; Region: Sulfatase; pfam00884 1196835010734 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1196835010735 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1196835010736 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 1196835010737 S-adenosylmethionine binding site [chemical binding]; other site 1196835010738 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196835010739 HAMP domain; Region: HAMP; pfam00672 1196835010740 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 1196835010741 dimer interface [polypeptide binding]; other site 1196835010742 phosphorylation site [posttranslational modification] 1196835010743 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 1196835010744 ATP binding site [chemical binding]; other site 1196835010745 Mg2+ binding site [ion binding]; other site 1196835010746 G-X-G motif; other site 1196835010747 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1196835010748 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835010749 active site 1196835010750 phosphorylation site [posttranslational modification] 1196835010751 intermolecular recognition site; other site 1196835010752 dimerization interface [polypeptide binding]; other site 1196835010753 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 1196835010754 DNA binding site [nucleotide binding] 1196835010755 Sulfatase; Region: Sulfatase; pfam00884 1196835010756 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 1196835010757 active site 1196835010758 SdiA-regulated; Region: SdiA-regulated; pfam06977 1196835010759 SdiA-regulated; Region: SdiA-regulated; cd09971 1196835010760 putative active site [active] 1196835010761 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1196835010762 Thermostable hemolysin; Region: T_hemolysin; pfam12261 1196835010763 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1196835010764 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 1196835010765 acyl-activating enzyme (AAE) consensus motif; other site 1196835010766 putative AMP binding site [chemical binding]; other site 1196835010767 putative active site [active] 1196835010768 putative CoA binding site [chemical binding]; other site 1196835010769 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 1196835010770 heme binding pocket [chemical binding]; other site 1196835010771 heme ligand [chemical binding]; other site 1196835010772 short chain dehydrogenase; Provisional; Region: PRK09072 1196835010773 classical (c) SDRs; Region: SDR_c; cd05233 1196835010774 NAD(P) binding site [chemical binding]; other site 1196835010775 active site 1196835010776 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1196835010777 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1196835010778 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835010779 active site 1196835010780 phosphorylation site [posttranslational modification] 1196835010781 intermolecular recognition site; other site 1196835010782 dimerization interface [polypeptide binding]; other site 1196835010783 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 1196835010784 DNA binding site [nucleotide binding] 1196835010785 sensor protein QseC; Provisional; Region: PRK10337 1196835010786 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 1196835010787 dimer interface [polypeptide binding]; other site 1196835010788 phosphorylation site [posttranslational modification] 1196835010789 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 1196835010790 ATP binding site [chemical binding]; other site 1196835010791 Mg2+ binding site [ion binding]; other site 1196835010792 G-X-G motif; other site 1196835010793 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1196835010794 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1196835010795 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 1196835010796 dimer interface [polypeptide binding]; other site 1196835010797 putative functional site; other site 1196835010798 putative MPT binding site; other site 1196835010799 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 1196835010800 MPT binding site; other site 1196835010801 trimer interface [polypeptide binding]; other site 1196835010802 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 1196835010803 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 1196835010804 FeS/SAM binding site; other site 1196835010805 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1196835010806 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1196835010807 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 1196835010808 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1196835010809 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1196835010810 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 1196835010811 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 1196835010812 [4Fe-4S] binding site [ion binding]; other site 1196835010813 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 1196835010814 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 1196835010815 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 1196835010816 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 1196835010817 molybdopterin cofactor binding site; other site 1196835010818 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 1196835010819 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 1196835010820 putative substrate translocation pore; other site 1196835010821 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 1196835010822 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 1196835010823 Ligand Binding Site [chemical binding]; other site 1196835010824 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 1196835010825 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 1196835010826 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1196835010827 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 1196835010828 dimerization interface [polypeptide binding]; other site 1196835010829 Histidine kinase; Region: HisKA_3; pfam07730 1196835010830 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 1196835010831 ATP binding site [chemical binding]; other site 1196835010832 Mg2+ binding site [ion binding]; other site 1196835010833 G-X-G motif; other site 1196835010834 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835010835 active site 1196835010836 phosphorylation site [posttranslational modification] 1196835010837 intermolecular recognition site; other site 1196835010838 dimerization interface [polypeptide binding]; other site 1196835010839 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 1196835010840 DNA binding residues [nucleotide binding] 1196835010841 dimerization interface [polypeptide binding]; other site 1196835010842 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1196835010843 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1196835010844 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1196835010845 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 1196835010846 ligand binding site [chemical binding]; other site 1196835010847 flexible hinge region; other site 1196835010848 putative switch regulator; other site 1196835010849 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 1196835010850 non-specific DNA interactions [nucleotide binding]; other site 1196835010851 DNA binding site [nucleotide binding] 1196835010852 sequence specific DNA binding site [nucleotide binding]; other site 1196835010853 putative cAMP binding site [chemical binding]; other site 1196835010854 Predicted metal-binding protein [General function prediction only]; Region: COG3019 1196835010855 Predicted metalloprotease [General function prediction only]; Region: COG2321 1196835010856 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1196835010857 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1196835010858 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 1196835010859 active site 1196835010860 motif I; other site 1196835010861 motif II; other site 1196835010862 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1196835010863 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 1196835010864 active site 1196835010865 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 1196835010866 catalytic triad [active] 1196835010867 dimer interface [polypeptide binding]; other site 1196835010868 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1196835010869 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1196835010870 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1196835010871 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 1196835010872 putative active site [active] 1196835010873 Zn binding site [ion binding]; other site 1196835010874 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1196835010875 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 1196835010876 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1196835010877 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1196835010878 NAD binding site [chemical binding]; other site 1196835010879 substrate binding site [chemical binding]; other site 1196835010880 catalytic Zn binding site [ion binding]; other site 1196835010881 tetramer interface [polypeptide binding]; other site 1196835010882 structural Zn binding site [ion binding]; other site 1196835010883 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 1196835010884 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 1196835010885 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1196835010886 ATP binding site [chemical binding]; other site 1196835010887 Mg++ binding site [ion binding]; other site 1196835010888 motif III; other site 1196835010889 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 1196835010890 nucleotide binding region [chemical binding]; other site 1196835010891 ATP-binding site [chemical binding]; other site 1196835010892 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1196835010893 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1196835010894 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1196835010895 TrkA-N domain; Region: TrkA_N; pfam02254 1196835010896 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 1196835010897 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1196835010898 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1196835010899 potential catalytic triad [active] 1196835010900 conserved cys residue [active] 1196835010901 Vibrio chemotaxis protein N terminus; Region: MCP_N; pfam05581 1196835010902 Cache domain; Region: Cache_1; pfam02743 1196835010903 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 1196835010904 dimerization interface [polypeptide binding]; other site 1196835010905 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835010906 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835010907 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835010908 dimer interface [polypeptide binding]; other site 1196835010909 putative CheW interface [polypeptide binding]; other site 1196835010910 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1196835010911 Na2 binding site [ion binding]; other site 1196835010912 putative substrate binding site 1 [chemical binding]; other site 1196835010913 Na binding site 1 [ion binding]; other site 1196835010914 putative substrate binding site 2 [chemical binding]; other site 1196835010915 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 1196835010916 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1196835010917 C-terminal domain interface [polypeptide binding]; other site 1196835010918 GSH binding site (G-site) [chemical binding]; other site 1196835010919 putative dimer interface [polypeptide binding]; other site 1196835010920 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1196835010921 dimer interface [polypeptide binding]; other site 1196835010922 N-terminal domain interface [polypeptide binding]; other site 1196835010923 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1196835010924 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1196835010925 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1196835010926 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 1196835010927 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1196835010928 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1196835010929 dimer interface [polypeptide binding]; other site 1196835010930 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1196835010931 active site 1196835010932 Fe binding site [ion binding]; other site 1196835010933 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1196835010934 Na2 binding site [ion binding]; other site 1196835010935 putative substrate binding site 1 [chemical binding]; other site 1196835010936 Na binding site 1 [ion binding]; other site 1196835010937 putative substrate binding site 2 [chemical binding]; other site 1196835010938 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1196835010939 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1196835010940 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1196835010941 NAD binding site [chemical binding]; other site 1196835010942 Phe binding site; other site 1196835010943 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 1196835010944 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 1196835010945 dimer interface [polypeptide binding]; other site 1196835010946 PYR/PP interface [polypeptide binding]; other site 1196835010947 TPP binding site [chemical binding]; other site 1196835010948 substrate binding site [chemical binding]; other site 1196835010949 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 1196835010950 TPP-binding site [chemical binding]; other site 1196835010951 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1196835010952 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1196835010953 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 1196835010954 putative DNA binding site [nucleotide binding]; other site 1196835010955 putative Zn2+ binding site [ion binding]; other site 1196835010956 AsnC family; Region: AsnC_trans_reg; pfam01037 1196835010957 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1196835010958 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 1196835010959 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1196835010960 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1196835010961 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 1196835010962 NAD binding site [chemical binding]; other site 1196835010963 homotetramer interface [polypeptide binding]; other site 1196835010964 homodimer interface [polypeptide binding]; other site 1196835010965 substrate binding site [chemical binding]; other site 1196835010966 active site 1196835010967 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 1196835010968 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1196835010969 active site 1196835010970 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 1196835010971 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_2; cd08974 1196835010972 putative DNA binding site [nucleotide binding]; other site 1196835010973 catalytic residue [active] 1196835010974 putative H2TH interface [polypeptide binding]; other site 1196835010975 putative catalytic residues [active] 1196835010976 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1196835010977 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1196835010978 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 1196835010979 Muconolactone delta-isomerase; Region: MIase; cl01992 1196835010980 YCII-related domain; Region: YCII; cl00999 1196835010981 Putative cyclase; Region: Cyclase; cl00814 1196835010982 short chain dehydrogenase; Provisional; Region: PRK07577 1196835010983 classical (c) SDRs; Region: SDR_c; cd05233 1196835010984 NAD(P) binding site [chemical binding]; other site 1196835010985 active site 1196835010986 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1196835010987 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 1196835010988 probable active site [active] 1196835010989 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1196835010990 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 1196835010991 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1196835010992 Predicted membrane protein [Function unknown]; Region: COG3212 1196835010993 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1196835010994 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1196835010995 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1196835010996 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835010997 active site 1196835010998 phosphorylation site [posttranslational modification] 1196835010999 intermolecular recognition site; other site 1196835011000 dimerization interface [polypeptide binding]; other site 1196835011001 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 1196835011002 DNA binding site [nucleotide binding] 1196835011003 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 1196835011004 ATP binding site [chemical binding]; other site 1196835011005 Mg2+ binding site [ion binding]; other site 1196835011006 G-X-G motif; other site 1196835011007 WYL domain; Region: WYL; pfam13280 1196835011008 exonuclease subunit SbcD; Provisional; Region: PRK10966 1196835011009 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1196835011010 active site 1196835011011 metal binding site [ion binding]; metal-binding site 1196835011012 DNA binding site [nucleotide binding] 1196835011013 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1196835011014 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835011015 Walker A/P-loop; other site 1196835011016 ATP binding site [chemical binding]; other site 1196835011017 Q-loop/lid; other site 1196835011018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835011019 ABC transporter signature motif; other site 1196835011020 Walker B; other site 1196835011021 D-loop; other site 1196835011022 H-loop/switch region; other site 1196835011023 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1196835011024 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 1196835011025 N-terminal plug; other site 1196835011026 ligand-binding site [chemical binding]; other site 1196835011027 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1196835011028 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 1196835011029 cobalamin binding residues [chemical binding]; other site 1196835011030 putative BtuC binding residues; other site 1196835011031 dimer interface [polypeptide binding]; other site 1196835011032 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 1196835011033 dimerization interface [polypeptide binding]; other site 1196835011034 active site 1196835011035 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1196835011036 catalytic motif [active] 1196835011037 Catalytic residue [active] 1196835011038 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1196835011039 tetramer interfaces [polypeptide binding]; other site 1196835011040 binuclear metal-binding site [ion binding]; other site 1196835011041 thiamine monophosphate kinase; Provisional; Region: PRK05731 1196835011042 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 1196835011043 ATP binding site [chemical binding]; other site 1196835011044 dimerization interface [polypeptide binding]; other site 1196835011045 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 1196835011046 putative RNA binding site [nucleotide binding]; other site 1196835011047 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 1196835011048 homopentamer interface [polypeptide binding]; other site 1196835011049 active site 1196835011050 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1196835011051 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1196835011052 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1196835011053 dimerization interface [polypeptide binding]; other site 1196835011054 active site 1196835011055 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1196835011056 Lumazine binding domain; Region: Lum_binding; pfam00677 1196835011057 Lumazine binding domain; Region: Lum_binding; pfam00677 1196835011058 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1196835011059 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 1196835011060 catalytic motif [active] 1196835011061 Zn binding site [ion binding]; other site 1196835011062 RibD C-terminal domain; Region: RibD_C; cl17279 1196835011063 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1196835011064 ATP cone domain; Region: ATP-cone; pfam03477 1196835011065 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 1196835011066 Predicted methyltransferase [General function prediction only]; Region: COG3897 1196835011067 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1196835011068 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1196835011069 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1196835011070 hypothetical protein; Provisional; Region: PRK11018 1196835011071 CPxP motif; other site 1196835011072 putative inner membrane protein; Provisional; Region: PRK11099 1196835011073 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1196835011074 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 1196835011075 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 1196835011076 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1196835011077 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1196835011078 Walker A/P-loop; other site 1196835011079 ATP binding site [chemical binding]; other site 1196835011080 Q-loop/lid; other site 1196835011081 ABC transporter signature motif; other site 1196835011082 Walker B; other site 1196835011083 D-loop; other site 1196835011084 H-loop/switch region; other site 1196835011085 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1196835011086 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1196835011087 FtsX-like permease family; Region: FtsX; pfam02687 1196835011088 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1196835011089 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 1196835011090 binding surface 1196835011091 TPR motif; other site 1196835011092 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1196835011093 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1196835011094 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1196835011095 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1196835011096 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1196835011097 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 1196835011098 OmpW family; Region: OmpW; cl17427 1196835011099 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196835011100 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1196835011101 NAD(P) binding site [chemical binding]; other site 1196835011102 active site 1196835011103 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1196835011104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196835011105 NAD(P) binding site [chemical binding]; other site 1196835011106 active site 1196835011107 SIR2-like domain; Region: SIR2_2; pfam13289 1196835011108 Transposase domain (DUF772); Region: DUF772; pfam05598 1196835011109 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1196835011110 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1196835011111 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1196835011112 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1196835011113 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1196835011114 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1196835011115 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 1196835011116 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1196835011117 active site 1196835011118 catalytic tetrad [active] 1196835011119 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1196835011120 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 1196835011121 active site 1196835011122 catalytic tetrad [active] 1196835011123 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835011124 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835011125 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1196835011126 putative effector binding pocket; other site 1196835011127 putative dimerization interface [polypeptide binding]; other site 1196835011128 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1196835011129 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 1196835011130 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196835011131 putative substrate translocation pore; other site 1196835011132 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1196835011133 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1196835011134 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1196835011135 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 1196835011136 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 1196835011137 catalytic loop [active] 1196835011138 iron binding site [ion binding]; other site 1196835011139 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1196835011140 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1196835011141 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1196835011142 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1196835011143 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1196835011144 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1196835011145 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 1196835011146 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1196835011147 active site 1196835011148 catalytic tetrad [active] 1196835011149 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1196835011150 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1196835011151 NAD(P) binding site [chemical binding]; other site 1196835011152 putative active site [active] 1196835011153 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 1196835011154 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1196835011155 active site 1196835011156 DNA binding site [nucleotide binding] 1196835011157 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1196835011158 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 1196835011159 Catalytic site [active] 1196835011160 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 1196835011161 Rotavirus RNA-binding Protein 53 (NS53); Region: Rota_NS53; pfam00981 1196835011162 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 1196835011163 putative active site [active] 1196835011164 putative metal binding site [ion binding]; other site 1196835011165 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1196835011166 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1196835011167 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 1196835011168 non-specific DNA binding site [nucleotide binding]; other site 1196835011169 salt bridge; other site 1196835011170 sequence-specific DNA binding site [nucleotide binding]; other site 1196835011171 asparagine-tRNA ligase; Provisional; Region: PTZ00425 1196835011172 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 1196835011173 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 1196835011174 active site 1196835011175 catalytic residues [active] 1196835011176 DNA binding site [nucleotide binding] 1196835011177 Int/Topo IB signature motif; other site 1196835011178 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 1196835011179 active site 1196835011180 catalytic residues [active] 1196835011181 DNA binding site [nucleotide binding] 1196835011182 Int/Topo IB signature motif; other site 1196835011183 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1196835011184 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 1196835011185 dimer interface [polypeptide binding]; other site 1196835011186 ssDNA binding site [nucleotide binding]; other site 1196835011187 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1196835011188 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 1196835011189 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196835011190 putative substrate translocation pore; other site 1196835011191 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1196835011192 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1196835011193 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1196835011194 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1196835011195 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1196835011196 active site 1196835011197 Zn binding site [ion binding]; other site 1196835011198 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1196835011199 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1196835011200 tetramer interface [polypeptide binding]; other site 1196835011201 heme binding pocket [chemical binding]; other site 1196835011202 NADPH binding site [chemical binding]; other site 1196835011203 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1196835011204 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1196835011205 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1196835011206 alphaNTD homodimer interface [polypeptide binding]; other site 1196835011207 alphaNTD - beta interaction site [polypeptide binding]; other site 1196835011208 alphaNTD - beta' interaction site [polypeptide binding]; other site 1196835011209 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1196835011210 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1196835011211 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1196835011212 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 1196835011213 RNA binding surface [nucleotide binding]; other site 1196835011214 30S ribosomal protein S11; Validated; Region: PRK05309 1196835011215 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1196835011216 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1196835011217 Ribosomal protein L36 [Translation, ribosomal structure and biogenesis]; Region: RpmJ; COG0257 1196835011218 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1196835011219 SecY translocase; Region: SecY; pfam00344 1196835011220 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1196835011221 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 1196835011222 23S rRNA binding site [nucleotide binding]; other site 1196835011223 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1196835011224 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1196835011225 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1196835011226 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 1196835011227 5S rRNA interface [nucleotide binding]; other site 1196835011228 L5 interface [polypeptide binding]; other site 1196835011229 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1196835011230 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1196835011231 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1196835011232 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1196835011233 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1196835011234 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1196835011235 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1196835011236 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1196835011237 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1196835011238 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1196835011239 RNA binding site [nucleotide binding]; other site 1196835011240 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1196835011241 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1196835011242 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 1196835011243 23S rRNA interface [nucleotide binding]; other site 1196835011244 putative translocon interaction site; other site 1196835011245 signal recognition particle (SRP54) interaction site; other site 1196835011246 L23 interface [polypeptide binding]; other site 1196835011247 trigger factor interaction site; other site 1196835011248 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 1196835011249 23S rRNA interface [nucleotide binding]; other site 1196835011250 5S rRNA interface [nucleotide binding]; other site 1196835011251 putative antibiotic binding site [chemical binding]; other site 1196835011252 L25 interface [polypeptide binding]; other site 1196835011253 L27 interface [polypeptide binding]; other site 1196835011254 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1196835011255 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 1196835011256 G-X-X-G motif; other site 1196835011257 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1196835011258 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 1196835011259 protein-rRNA interface [nucleotide binding]; other site 1196835011260 putative translocon binding site; other site 1196835011261 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1196835011262 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1196835011263 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1196835011264 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1196835011265 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1196835011266 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1196835011267 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1196835011268 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1196835011269 elongation factor Tu; Reviewed; Region: PRK00049 1196835011270 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1196835011271 G1 box; other site 1196835011272 GEF interaction site [polypeptide binding]; other site 1196835011273 GTP/Mg2+ binding site [chemical binding]; other site 1196835011274 Switch I region; other site 1196835011275 G2 box; other site 1196835011276 G3 box; other site 1196835011277 Switch II region; other site 1196835011278 G4 box; other site 1196835011279 G5 box; other site 1196835011280 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 1196835011281 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 1196835011282 Antibiotic Binding Site [chemical binding]; other site 1196835011283 elongation factor G; Reviewed; Region: PRK00007 1196835011284 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1196835011285 G1 box; other site 1196835011286 putative GEF interaction site [polypeptide binding]; other site 1196835011287 GTP/Mg2+ binding site [chemical binding]; other site 1196835011288 Switch I region; other site 1196835011289 G2 box; other site 1196835011290 G3 box; other site 1196835011291 Switch II region; other site 1196835011292 G4 box; other site 1196835011293 G5 box; other site 1196835011294 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 1196835011295 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 1196835011296 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 1196835011297 30S ribosomal protein S7; Validated; Region: PRK05302 1196835011298 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 1196835011299 S17 interaction site [polypeptide binding]; other site 1196835011300 S8 interaction site; other site 1196835011301 16S rRNA interaction site [nucleotide binding]; other site 1196835011302 streptomycin interaction site [chemical binding]; other site 1196835011303 23S rRNA interaction site [nucleotide binding]; other site 1196835011304 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1196835011305 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1196835011306 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1196835011307 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1196835011308 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1196835011309 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1196835011310 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1196835011311 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1196835011312 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1196835011313 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1196835011314 DNA binding site [nucleotide binding] 1196835011315 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1196835011316 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1196835011317 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 1196835011318 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1196835011319 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 1196835011320 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1196835011321 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 1196835011322 RPB3 interaction site [polypeptide binding]; other site 1196835011323 RPB1 interaction site [polypeptide binding]; other site 1196835011324 RPB11 interaction site [polypeptide binding]; other site 1196835011325 RPB10 interaction site [polypeptide binding]; other site 1196835011326 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 1196835011327 core dimer interface [polypeptide binding]; other site 1196835011328 peripheral dimer interface [polypeptide binding]; other site 1196835011329 L10 interface [polypeptide binding]; other site 1196835011330 L11 interface [polypeptide binding]; other site 1196835011331 putative EF-Tu interaction site [polypeptide binding]; other site 1196835011332 putative EF-G interaction site [polypeptide binding]; other site 1196835011333 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 1196835011334 23S rRNA interface [nucleotide binding]; other site 1196835011335 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1196835011336 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 1196835011337 mRNA/rRNA interface [nucleotide binding]; other site 1196835011338 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1196835011339 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 1196835011340 23S rRNA interface [nucleotide binding]; other site 1196835011341 L7/L12 interface [polypeptide binding]; other site 1196835011342 putative thiostrepton binding site; other site 1196835011343 L25 interface [polypeptide binding]; other site 1196835011344 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1196835011345 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1196835011346 putative homodimer interface [polypeptide binding]; other site 1196835011347 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1196835011348 heterodimer interface [polypeptide binding]; other site 1196835011349 homodimer interface [polypeptide binding]; other site 1196835011350 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1196835011351 elongation factor Tu; Reviewed; Region: PRK00049 1196835011352 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1196835011353 G1 box; other site 1196835011354 GEF interaction site [polypeptide binding]; other site 1196835011355 GTP/Mg2+ binding site [chemical binding]; other site 1196835011356 Switch I region; other site 1196835011357 G2 box; other site 1196835011358 G3 box; other site 1196835011359 Switch II region; other site 1196835011360 G4 box; other site 1196835011361 G5 box; other site 1196835011362 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 1196835011363 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 1196835011364 Antibiotic Binding Site [chemical binding]; other site 1196835011365 Sporulation related domain; Region: SPOR; pfam05036 1196835011366 pantothenate kinase; Reviewed; Region: PRK13322 1196835011367 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1196835011368 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1196835011369 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1196835011370 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1196835011371 active site 1196835011372 HIGH motif; other site 1196835011373 dimer interface [polypeptide binding]; other site 1196835011374 KMSKS motif; other site 1196835011375 putative peptidase; Provisional; Region: PRK11649 1196835011376 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1196835011377 Peptidase family M23; Region: Peptidase_M23; pfam01551 1196835011378 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1196835011379 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1196835011380 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1196835011381 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1196835011382 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 1196835011383 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1196835011384 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1196835011385 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 1196835011386 Walker A motif; other site 1196835011387 ATP binding site [chemical binding]; other site 1196835011388 Walker B motif; other site 1196835011389 arginine finger; other site 1196835011390 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 1196835011391 nucleotide binding site/active site [active] 1196835011392 HIT family signature motif; other site 1196835011393 catalytic residue [active] 1196835011394 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1196835011395 diiron binding motif [ion binding]; other site 1196835011396 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 1196835011397 OsmC-like protein; Region: OsmC; cl00767 1196835011398 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1196835011399 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 1196835011400 ligand binding site [chemical binding]; other site 1196835011401 flexible hinge region; other site 1196835011402 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 1196835011403 putative switch regulator; other site 1196835011404 non-specific DNA interactions [nucleotide binding]; other site 1196835011405 DNA binding site [nucleotide binding] 1196835011406 sequence specific DNA binding site [nucleotide binding]; other site 1196835011407 putative cAMP binding site [chemical binding]; other site 1196835011408 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 1196835011409 active site 1196835011410 ribulose/triose binding site [chemical binding]; other site 1196835011411 phosphate binding site [ion binding]; other site 1196835011412 substrate (anthranilate) binding pocket [chemical binding]; other site 1196835011413 product (indole) binding pocket [chemical binding]; other site 1196835011414 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1196835011415 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1196835011416 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1196835011417 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1196835011418 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1196835011419 glutamine binding [chemical binding]; other site 1196835011420 catalytic triad [active] 1196835011421 anthranilate synthase component I; Provisional; Region: PRK13565 1196835011422 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1196835011423 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1196835011424 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1196835011425 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 1196835011426 motif II; other site 1196835011427 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 1196835011428 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1196835011429 substrate binding site [chemical binding]; other site 1196835011430 hexamer interface [polypeptide binding]; other site 1196835011431 metal binding site [ion binding]; metal-binding site 1196835011432 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 1196835011433 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1196835011434 tetramerization interface [polypeptide binding]; other site 1196835011435 NAD(P) binding site [chemical binding]; other site 1196835011436 catalytic residues [active] 1196835011437 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1196835011438 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1196835011439 active site 1196835011440 NAD binding site [chemical binding]; other site 1196835011441 metal binding site [ion binding]; metal-binding site 1196835011442 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 1196835011443 PAS domain; Region: PAS_9; pfam13426 1196835011444 putative active site [active] 1196835011445 heme pocket [chemical binding]; other site 1196835011446 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1196835011447 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 1196835011448 Walker A motif; other site 1196835011449 ATP binding site [chemical binding]; other site 1196835011450 Walker B motif; other site 1196835011451 arginine finger; other site 1196835011452 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 1196835011453 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 1196835011454 inhibitor-cofactor binding pocket; inhibition site 1196835011455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835011456 catalytic residue [active] 1196835011457 potential frameshift: common BLAST hit: gi|339492712|ref|YP_004713005.1| succinate-semialdehyde dehydrogenase 1196835011458 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1196835011459 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835011460 dimer interface [polypeptide binding]; other site 1196835011461 conserved gate region; other site 1196835011462 putative PBP binding loops; other site 1196835011463 ABC-ATPase subunit interface; other site 1196835011464 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835011465 dimer interface [polypeptide binding]; other site 1196835011466 conserved gate region; other site 1196835011467 putative PBP binding loops; other site 1196835011468 ABC-ATPase subunit interface; other site 1196835011469 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1196835011470 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1196835011471 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1196835011472 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1196835011473 Walker A/P-loop; other site 1196835011474 ATP binding site [chemical binding]; other site 1196835011475 Q-loop/lid; other site 1196835011476 ABC transporter signature motif; other site 1196835011477 Walker B; other site 1196835011478 D-loop; other site 1196835011479 H-loop/switch region; other site 1196835011480 TOBE domain; Region: TOBE_2; pfam08402 1196835011481 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1196835011482 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835011483 active site 1196835011484 phosphorylation site [posttranslational modification] 1196835011485 intermolecular recognition site; other site 1196835011486 dimerization interface [polypeptide binding]; other site 1196835011487 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 1196835011488 DNA binding residues [nucleotide binding] 1196835011489 dimerization interface [polypeptide binding]; other site 1196835011490 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 1196835011491 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1196835011492 substrate binding pocket [chemical binding]; other site 1196835011493 membrane-bound complex binding site; other site 1196835011494 hinge residues; other site 1196835011495 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1196835011496 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 1196835011497 putative active site [active] 1196835011498 heme pocket [chemical binding]; other site 1196835011499 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1196835011500 Histidine kinase; Region: HisKA_3; pfam07730 1196835011501 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 1196835011502 ATP binding site [chemical binding]; other site 1196835011503 Mg2+ binding site [ion binding]; other site 1196835011504 G-X-G motif; other site 1196835011505 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 1196835011506 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1196835011507 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1196835011508 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 1196835011509 putative metal binding site [ion binding]; other site 1196835011510 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 1196835011511 HSP70 interaction site [polypeptide binding]; other site 1196835011512 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 1196835011513 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1196835011514 Substrate binding site; other site 1196835011515 metal-binding site 1196835011516 Phosphotransferase enzyme family; Region: APH; pfam01636 1196835011517 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 1196835011518 active site 1196835011519 ATP binding site [chemical binding]; other site 1196835011520 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1196835011521 OstA-like protein; Region: OstA; cl00844 1196835011522 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1196835011523 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1196835011524 SurA N-terminal domain; Region: SurA_N; pfam09312 1196835011525 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1196835011526 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1196835011527 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1196835011528 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1196835011529 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1196835011530 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1196835011531 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1196835011532 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1196835011533 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1196835011534 active site 1196835011535 metal binding site [ion binding]; metal-binding site 1196835011536 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 1196835011537 active site residue [active] 1196835011538 PrkA family serine protein kinase; Provisional; Region: PRK15455 1196835011539 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1196835011540 hypothetical protein; Provisional; Region: PRK05325 1196835011541 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1196835011542 SpoVR family protein; Provisional; Region: PRK11767 1196835011543 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1196835011544 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1196835011545 active site 1196835011546 NTP binding site [chemical binding]; other site 1196835011547 metal binding triad [ion binding]; metal-binding site 1196835011548 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1196835011549 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 1196835011550 catalytic center binding site [active] 1196835011551 ATP binding site [chemical binding]; other site 1196835011552 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1196835011553 homooctamer interface [polypeptide binding]; other site 1196835011554 active site 1196835011555 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1196835011556 UGMP family protein; Validated; Region: PRK09604 1196835011557 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1196835011558 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1196835011559 DNA primase, catalytic core; Region: dnaG; TIGR01391 1196835011560 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1196835011561 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1196835011562 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 1196835011563 active site 1196835011564 metal binding site [ion binding]; metal-binding site 1196835011565 interdomain interaction site; other site 1196835011566 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1196835011567 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1196835011568 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1196835011569 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1196835011570 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1196835011571 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1196835011572 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196835011573 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1196835011574 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 1196835011575 DNA binding residues [nucleotide binding] 1196835011576 integrase; Provisional; Region: int; PHA02601 1196835011577 Rci recombinase, C-terminal catalytic domain. Rci enzymes are found in IncI1 incompatibility group plasmids such as R64. These recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain...; Region: INT_Rci; cd00796 1196835011578 catalytic residues [active] 1196835011579 Int/Topo IB signature motif; other site 1196835011580 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 1196835011581 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1196835011582 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 1196835011583 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1196835011584 Predicted DNA-binding protein with an HTH domain [General function prediction only]; Region: COG4710 1196835011585 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 1196835011586 Nuclease-related domain; Region: NERD; pfam08378 1196835011587 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1196835011588 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 1196835011589 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1196835011590 synthetase active site [active] 1196835011591 NTP binding site [chemical binding]; other site 1196835011592 metal binding site [ion binding]; metal-binding site 1196835011593 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 1196835011594 transmembrane helices; other site 1196835011595 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1196835011596 TrkA-C domain; Region: TrkA_C; pfam02080 1196835011597 TrkA-C domain; Region: TrkA_C; pfam02080 1196835011598 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 1196835011599 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 1196835011600 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 1196835011601 homodimer interface [polypeptide binding]; other site 1196835011602 substrate-cofactor binding pocket; other site 1196835011603 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835011604 catalytic residue [active] 1196835011605 thioredoxin 2; Provisional; Region: PRK10996 1196835011606 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 1196835011607 catalytic residues [active] 1196835011608 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1196835011609 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 1196835011610 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1196835011611 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835011612 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 1196835011613 dimerization interface [polypeptide binding]; other site 1196835011614 substrate binding pocket [chemical binding]; other site 1196835011615 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 1196835011616 putative substrate translocation pore; other site 1196835011617 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 1196835011618 substrate binding site [chemical binding]; other site 1196835011619 active site 1196835011620 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 1196835011621 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 1196835011622 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1196835011623 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1196835011624 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 1196835011625 active site 1196835011626 dimer interface [polypeptide binding]; other site 1196835011627 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1196835011628 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 1196835011629 active site 1196835011630 FMN binding site [chemical binding]; other site 1196835011631 substrate binding site [chemical binding]; other site 1196835011632 3Fe-4S cluster binding site [ion binding]; other site 1196835011633 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 1196835011634 domain interface; other site 1196835011635 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 1196835011636 Sporulation related domain; Region: SPOR; pfam05036 1196835011637 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1196835011638 active site 1196835011639 dimer interface [polypeptide binding]; other site 1196835011640 metal binding site [ion binding]; metal-binding site 1196835011641 shikimate kinase; Reviewed; Region: aroK; PRK00131 1196835011642 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 1196835011643 ADP binding site [chemical binding]; other site 1196835011644 magnesium binding site [ion binding]; other site 1196835011645 putative shikimate binding site; other site 1196835011646 AMIN domain; Region: AMIN; pfam11741 1196835011647 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1196835011648 Secretin and TonB N terminus short domain; Region: STN; smart00965 1196835011649 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1196835011650 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1196835011651 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 1196835011652 Pilus assembly protein, PilP; Region: PilP; pfam04351 1196835011653 Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilO; COG3167 1196835011654 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 1196835011655 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1196835011656 Competence protein A; Region: Competence_A; pfam11104 1196835011657 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1196835011658 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1196835011659 Transglycosylase; Region: Transgly; pfam00912 1196835011660 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1196835011661 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1196835011662 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1196835011663 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1196835011664 putative NAD(P) binding site [chemical binding]; other site 1196835011665 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 1196835011666 Catalytic site; other site 1196835011667 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1196835011668 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1196835011669 primosome assembly protein PriA; Validated; Region: PRK05580 1196835011670 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 1196835011671 ATP binding site [chemical binding]; other site 1196835011672 putative Mg++ binding site [ion binding]; other site 1196835011673 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 1196835011674 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1196835011675 ATP-binding site [chemical binding]; other site 1196835011676 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1196835011677 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1196835011678 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1196835011679 active site 1196835011680 HIGH motif; other site 1196835011681 KMSK motif region; other site 1196835011682 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1196835011683 tRNA binding surface [nucleotide binding]; other site 1196835011684 anticodon binding site; other site 1196835011685 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 1196835011686 Sporulation related domain; Region: SPOR; pfam05036 1196835011687 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1196835011688 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 1196835011689 catalytic loop [active] 1196835011690 iron binding site [ion binding]; other site 1196835011691 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 1196835011692 FAD binding pocket [chemical binding]; other site 1196835011693 FAD binding motif [chemical binding]; other site 1196835011694 phosphate binding motif [ion binding]; other site 1196835011695 beta-alpha-beta structure motif; other site 1196835011696 NAD binding pocket [chemical binding]; other site 1196835011697 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1196835011698 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1196835011699 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1196835011700 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 1196835011701 RNA binding site [nucleotide binding]; other site 1196835011702 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 1196835011703 multimer interface [polypeptide binding]; other site 1196835011704 Walker A motif; other site 1196835011705 ATP binding site [chemical binding]; other site 1196835011706 Walker B motif; other site 1196835011707 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 1196835011708 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1196835011709 catalytic residues [active] 1196835011710 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1196835011711 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1196835011712 polyphosphate kinase; Provisional; Region: PRK05443 1196835011713 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1196835011714 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1196835011715 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1196835011716 putative active site [active] 1196835011717 catalytic site [active] 1196835011718 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1196835011719 putative domain interface [polypeptide binding]; other site 1196835011720 putative active site [active] 1196835011721 catalytic site [active] 1196835011722 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 1196835011723 dimer interface [polypeptide binding]; other site 1196835011724 active site 1196835011725 aspartate-rich active site metal binding site; other site 1196835011726 allosteric magnesium binding site [ion binding]; other site 1196835011727 Schiff base residues; other site 1196835011728 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 1196835011729 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 1196835011730 conserved cys residue [active] 1196835011731 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 1196835011732 CoenzymeA binding site [chemical binding]; other site 1196835011733 subunit interaction site [polypeptide binding]; other site 1196835011734 PHB binding site; other site 1196835011735 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1196835011736 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1196835011737 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1196835011738 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835011739 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835011740 metal binding site [ion binding]; metal-binding site 1196835011741 active site 1196835011742 I-site; other site 1196835011743 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 1196835011744 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 1196835011745 LysE type translocator; Region: LysE; cl00565 1196835011746 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1196835011747 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1196835011748 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1196835011749 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1196835011750 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196835011751 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196835011752 ABC transporter; Region: ABC_tran_2; pfam12848 1196835011753 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1196835011754 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 1196835011755 hypothetical protein; Provisional; Region: PRK11281 1196835011756 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; pfam04353 1196835011757 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 1196835011758 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 1196835011759 HemY protein N-terminus; Region: HemY_N; pfam07219 1196835011760 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1196835011761 uroporphyrinogen-III synthase; Validated; Region: PRK05752 1196835011762 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 1196835011763 active site 1196835011764 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1196835011765 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 1196835011766 domain interfaces; other site 1196835011767 active site 1196835011768 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1196835011769 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835011770 active site 1196835011771 phosphorylation site [posttranslational modification] 1196835011772 intermolecular recognition site; other site 1196835011773 dimerization interface [polypeptide binding]; other site 1196835011774 LytTr DNA-binding domain; Region: LytTR; pfam04397 1196835011775 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1196835011776 Histidine kinase; Region: His_kinase; pfam06580 1196835011777 argininosuccinate lyase; Provisional; Region: PRK00855 1196835011778 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1196835011779 active sites [active] 1196835011780 tetramer interface [polypeptide binding]; other site 1196835011781 topology modulation protein; Reviewed; Region: PRK08118 1196835011782 AAA domain; Region: AAA_17; pfam13207 1196835011783 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196835011784 Coenzyme A binding pocket [chemical binding]; other site 1196835011785 NnrS protein; Region: NnrS; pfam05940 1196835011786 TIGR02647 family protein; Region: DNA 1196835011787 adenylate cyclase; Provisional; Region: cyaA; PRK09450 1196835011788 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1196835011789 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1196835011790 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1196835011791 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1196835011792 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 1196835011793 putative iron binding site [ion binding]; other site 1196835011794 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 1196835011795 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1196835011796 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1196835011797 active site 1196835011798 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1196835011799 substrate binding site [chemical binding]; other site 1196835011800 catalytic residues [active] 1196835011801 dimer interface [polypeptide binding]; other site 1196835011802 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1196835011803 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1196835011804 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1196835011805 Protein of unknown function, DUF484; Region: DUF484; cl17449 1196835011806 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1196835011807 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 1196835011808 active site 1196835011809 DNA binding site [nucleotide binding] 1196835011810 Int/Topo IB signature motif; other site 1196835011811 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1196835011812 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 1196835011813 motif II; other site 1196835011814 Uncharacterized conserved protein [Function unknown]; Region: COG0432 1196835011815 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 1196835011816 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1196835011817 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1196835011818 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1196835011819 Membrane fusogenic activity; Region: BMFP; pfam04380 1196835011820 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1196835011821 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1196835011822 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 1196835011823 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 1196835011824 Walker A motif; other site 1196835011825 ATP binding site [chemical binding]; other site 1196835011826 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1196835011827 BCCT family transporter; Region: BCCT; cl00569 1196835011828 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835011829 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835011830 metal binding site [ion binding]; metal-binding site 1196835011831 active site 1196835011832 I-site; other site 1196835011833 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 1196835011834 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1196835011835 Part of AAA domain; Region: AAA_19; pfam13245 1196835011836 Family description; Region: UvrD_C_2; pfam13538 1196835011837 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1196835011838 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1196835011839 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1196835011840 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1196835011841 Bacterial transcriptional regulator; Region: IclR; pfam01614 1196835011842 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1196835011843 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1196835011844 tetrameric interface [polypeptide binding]; other site 1196835011845 NAD binding site [chemical binding]; other site 1196835011846 catalytic residues [active] 1196835011847 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1196835011848 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 1196835011849 putative active site [active] 1196835011850 metal binding site [ion binding]; metal-binding site 1196835011851 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 1196835011852 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1196835011853 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1196835011854 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1196835011855 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu_like; cd11331 1196835011856 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1196835011857 active site 1196835011858 catalytic site [active] 1196835011859 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1196835011860 trehalose synthase; Region: treS_nterm; TIGR02456 1196835011861 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1196835011862 active site 1196835011863 catalytic site [active] 1196835011864 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 1196835011865 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1196835011866 active site 1196835011867 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 1196835011868 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1196835011869 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1196835011870 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 1196835011871 non-specific DNA binding site [nucleotide binding]; other site 1196835011872 salt bridge; other site 1196835011873 sequence-specific DNA binding site [nucleotide binding]; other site 1196835011874 Cupin domain; Region: Cupin_2; pfam07883 1196835011875 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 1196835011876 homotrimer interaction site [polypeptide binding]; other site 1196835011877 putative active site [active] 1196835011878 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1196835011879 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1196835011880 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1196835011881 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 1196835011882 putative DNA binding site [nucleotide binding]; other site 1196835011883 putative Zn2+ binding site [ion binding]; other site 1196835011884 AsnC family; Region: AsnC_trans_reg; pfam01037 1196835011885 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1196835011886 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1196835011887 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1196835011888 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1196835011889 putative active site [active] 1196835011890 catalytic site [active] 1196835011891 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1196835011892 putative active site [active] 1196835011893 catalytic site [active] 1196835011894 Predicted membrane protein [Function unknown]; Region: COG4539 1196835011895 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835011896 dimer interface [polypeptide binding]; other site 1196835011897 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1196835011898 putative CheW interface [polypeptide binding]; other site 1196835011899 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1196835011900 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1196835011901 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1196835011902 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1196835011903 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 1196835011904 CoenzymeA binding site [chemical binding]; other site 1196835011905 subunit interaction site [polypeptide binding]; other site 1196835011906 PHB binding site; other site 1196835011907 hypothetical protein; Reviewed; Region: PRK00024 1196835011908 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1196835011909 MPN+ (JAMM) motif; other site 1196835011910 Zinc-binding site [ion binding]; other site 1196835011911 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1196835011912 Flavoprotein; Region: Flavoprotein; pfam02441 1196835011913 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1196835011914 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1196835011915 trimer interface [polypeptide binding]; other site 1196835011916 active site 1196835011917 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 1196835011918 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1196835011919 active site 1196835011920 substrate binding site [chemical binding]; other site 1196835011921 metal binding site [ion binding]; metal-binding site 1196835011922 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 1196835011923 feedback inhibition sensing region; other site 1196835011924 homohexameric interface [polypeptide binding]; other site 1196835011925 nucleotide binding site [chemical binding]; other site 1196835011926 N-acetyl-L-glutamate binding site [chemical binding]; other site 1196835011927 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 1196835011928 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1196835011929 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1196835011930 active site 1196835011931 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 1196835011932 putative active site [active] 1196835011933 putative catalytic site [active] 1196835011934 putative DNA binding site [nucleotide binding]; other site 1196835011935 putative phosphate binding site [ion binding]; other site 1196835011936 metal binding site A [ion binding]; metal-binding site 1196835011937 putative AP binding site [nucleotide binding]; other site 1196835011938 putative metal binding site B [ion binding]; other site 1196835011939 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 1196835011940 ribonuclease PH; Reviewed; Region: rph; PRK00173 1196835011941 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1196835011942 hexamer interface [polypeptide binding]; other site 1196835011943 active site 1196835011944 hypothetical protein; Provisional; Region: PRK11820 1196835011945 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1196835011946 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1196835011947 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1196835011948 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 1196835011949 catalytic site [active] 1196835011950 G-X2-G-X-G-K; other site 1196835011951 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1196835011952 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1196835011953 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1196835011954 Zn2+ binding site [ion binding]; other site 1196835011955 Mg2+ binding site [ion binding]; other site 1196835011956 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1196835011957 synthetase active site [active] 1196835011958 NTP binding site [chemical binding]; other site 1196835011959 metal binding site [ion binding]; metal-binding site 1196835011960 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 1196835011961 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1196835011962 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 1196835011963 homotrimer interaction site [polypeptide binding]; other site 1196835011964 putative active site [active] 1196835011965 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1196835011966 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1196835011967 ligand binding site [chemical binding]; other site 1196835011968 FecR protein; Region: FecR; pfam04773 1196835011969 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1196835011970 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 1196835011971 substrate binding pocket [chemical binding]; other site 1196835011972 membrane-bound complex binding site; other site 1196835011973 hinge residues; other site 1196835011974 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1196835011975 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 1196835011976 Walker A motif; other site 1196835011977 ATP binding site [chemical binding]; other site 1196835011978 Walker B motif; other site 1196835011979 arginine finger; other site 1196835011980 Peptidase family M41; Region: Peptidase_M41; pfam01434 1196835011981 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1196835011982 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1196835011983 conserved cys residue [active] 1196835011984 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835011985 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 1196835011986 Repair protein; Region: Repair_PSII; cl01535 1196835011987 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1196835011988 Repair protein; Region: Repair_PSII; pfam04536 1196835011989 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1196835011990 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835011991 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835011992 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 1196835011993 putative effector binding pocket; other site 1196835011994 dimerization interface [polypeptide binding]; other site 1196835011995 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1196835011996 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1196835011997 putative NAD(P) binding site [chemical binding]; other site 1196835011998 dimer interface [polypeptide binding]; other site 1196835011999 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1196835012000 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1196835012001 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1196835012002 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1196835012003 FAD binding site [chemical binding]; other site 1196835012004 substrate binding pocket [chemical binding]; other site 1196835012005 catalytic base [active] 1196835012006 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1196835012007 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835012008 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 1196835012009 dimerization interface [polypeptide binding]; other site 1196835012010 substrate binding pocket [chemical binding]; other site 1196835012011 SCP-2 sterol transfer family; Region: SCP2; cl01225 1196835012012 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 1196835012013 IHF dimer interface [polypeptide binding]; other site 1196835012014 IHF - DNA interface [nucleotide binding]; other site 1196835012015 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 1196835012016 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1196835012017 Rubredoxin [Energy production and conversion]; Region: COG1773 1196835012018 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 1196835012019 iron binding site [ion binding]; other site 1196835012020 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1196835012021 L-lactate permease; Region: Lactate_perm; cl00701 1196835012022 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 1196835012023 active site 1196835012024 Domain of unknown function (DUF336); Region: DUF336; cl01249 1196835012025 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1196835012026 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 1196835012027 Cysteine-rich domain; Region: CCG; pfam02754 1196835012028 Cysteine-rich domain; Region: CCG; pfam02754 1196835012029 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1196835012030 FAD binding domain; Region: FAD_binding_4; pfam01565 1196835012031 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1196835012032 FAD binding domain; Region: FAD_binding_4; pfam01565 1196835012033 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 1196835012034 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196835012035 DNA-binding site [nucleotide binding]; DNA binding site 1196835012036 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1196835012037 Chorismate lyase; Region: Chor_lyase; cl01230 1196835012038 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1196835012039 UbiA prenyltransferase family; Region: UbiA; pfam01040 1196835012040 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1196835012041 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835012042 active site 1196835012043 phosphorylation site [posttranslational modification] 1196835012044 intermolecular recognition site; other site 1196835012045 dimerization interface [polypeptide binding]; other site 1196835012046 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 1196835012047 DNA binding site [nucleotide binding] 1196835012048 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 1196835012049 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1196835012050 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 1196835012051 putative active site [active] 1196835012052 heme pocket [chemical binding]; other site 1196835012053 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 1196835012054 dimer interface [polypeptide binding]; other site 1196835012055 phosphorylation site [posttranslational modification] 1196835012056 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 1196835012057 ATP binding site [chemical binding]; other site 1196835012058 Mg2+ binding site [ion binding]; other site 1196835012059 G-X-G motif; other site 1196835012060 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1196835012061 Domain of unknown function DUF21; Region: DUF21; pfam01595 1196835012062 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 1196835012063 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 1196835012064 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1196835012065 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1196835012066 Peptidase family M23; Region: Peptidase_M23; pfam01551 1196835012067 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835012068 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835012069 active site 1196835012070 phosphorylation site [posttranslational modification] 1196835012071 intermolecular recognition site; other site 1196835012072 dimerization interface [polypeptide binding]; other site 1196835012073 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 1196835012074 Ligand Binding Site [chemical binding]; other site 1196835012075 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1196835012076 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1196835012077 putative ligand binding site [chemical binding]; other site 1196835012078 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1196835012079 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1196835012080 Walker A/P-loop; other site 1196835012081 ATP binding site [chemical binding]; other site 1196835012082 Q-loop/lid; other site 1196835012083 ABC transporter signature motif; other site 1196835012084 Walker B; other site 1196835012085 D-loop; other site 1196835012086 H-loop/switch region; other site 1196835012087 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1196835012088 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1196835012089 Walker A/P-loop; other site 1196835012090 ATP binding site [chemical binding]; other site 1196835012091 Q-loop/lid; other site 1196835012092 ABC transporter signature motif; other site 1196835012093 Walker B; other site 1196835012094 D-loop; other site 1196835012095 H-loop/switch region; other site 1196835012096 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1196835012097 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 1196835012098 TM-ABC transporter signature motif; other site 1196835012099 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 1196835012100 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1196835012101 TM-ABC transporter signature motif; other site 1196835012102 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1196835012103 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 1196835012104 P-loop; other site 1196835012105 Magnesium ion binding site [ion binding]; other site 1196835012106 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 1196835012107 Magnesium ion binding site [ion binding]; other site 1196835012108 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1196835012109 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 1196835012110 dimerization interface [polypeptide binding]; other site 1196835012111 active site 1196835012112 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1196835012113 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1196835012114 NRDE protein; Region: NRDE; cl01315 1196835012115 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 1196835012116 GAF domain; Region: GAF; pfam01590 1196835012117 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1196835012118 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1196835012119 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1196835012120 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 1196835012121 putative active site [active] 1196835012122 Ap4A binding site [chemical binding]; other site 1196835012123 nudix motif; other site 1196835012124 putative metal binding site [ion binding]; other site 1196835012125 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1196835012126 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1196835012127 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 1196835012128 threonine dehydratase; Reviewed; Region: PRK09224 1196835012129 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1196835012130 tetramer interface [polypeptide binding]; other site 1196835012131 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835012132 catalytic residue [active] 1196835012133 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1196835012134 putative Ile/Val binding site [chemical binding]; other site 1196835012135 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1196835012136 putative Ile/Val binding site [chemical binding]; other site 1196835012137 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 1196835012138 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1196835012139 active site 1196835012140 dimer interface [polypeptide binding]; other site 1196835012141 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 1196835012142 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1196835012143 SdiA-regulated; Region: SdiA-regulated; pfam06977 1196835012144 SdiA-regulated; Region: SdiA-regulated; cd09971 1196835012145 putative active site [active] 1196835012146 SdiA-regulated; Region: SdiA-regulated; pfam06977 1196835012147 SdiA-regulated; Region: SdiA-regulated; cd09971 1196835012148 putative active site [active] 1196835012149 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1196835012150 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1196835012151 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1196835012152 FAD binding domain; Region: FAD_binding_4; pfam01565 1196835012153 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1196835012154 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1196835012155 ligand binding site [chemical binding]; other site 1196835012156 NAD binding site [chemical binding]; other site 1196835012157 tetramer interface [polypeptide binding]; other site 1196835012158 catalytic site [active] 1196835012159 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1196835012160 L-serine binding site [chemical binding]; other site 1196835012161 ACT domain interface; other site 1196835012162 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1196835012163 OPT oligopeptide transporter protein; Region: OPT; cl14607 1196835012164 OPT oligopeptide transporter protein; Region: OPT; cl14607 1196835012165 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1196835012166 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 1196835012167 DNA binding residues [nucleotide binding] 1196835012168 dimerization interface [polypeptide binding]; other site 1196835012169 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1196835012170 Curlin associated repeat; Region: Curlin_rpt; pfam07012 1196835012171 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1196835012172 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1196835012173 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 1196835012174 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835012175 active site 1196835012176 phosphorylation site [posttranslational modification] 1196835012177 intermolecular recognition site; other site 1196835012178 dimerization interface [polypeptide binding]; other site 1196835012179 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 1196835012180 DNA binding site [nucleotide binding] 1196835012181 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 1196835012182 dimer interface [polypeptide binding]; other site 1196835012183 phosphorylation site [posttranslational modification] 1196835012184 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 1196835012185 ATP binding site [chemical binding]; other site 1196835012186 Mg2+ binding site [ion binding]; other site 1196835012187 G-X-G motif; other site 1196835012188 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 1196835012189 potential frameshift: common BLAST hit: gi|387126951|ref|YP_006295556.1| NADH/ubiquinone/plastoquinone 1196835012190 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 1196835012191 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1196835012192 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 1196835012193 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1196835012194 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 1196835012195 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 1196835012196 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1196835012197 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1196835012198 active site 1196835012199 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1196835012200 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1196835012201 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835012202 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835012203 metal binding site [ion binding]; metal-binding site 1196835012204 active site 1196835012205 I-site; other site 1196835012206 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 1196835012207 potential frameshift: common BLAST hit: gi|339492477|ref|YP_004712770.1| ATPase 1196835012208 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 1196835012209 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1196835012210 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1196835012211 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 1196835012212 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1196835012213 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1196835012214 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1196835012215 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835012216 active site 1196835012217 phosphorylation site [posttranslational modification] 1196835012218 intermolecular recognition site; other site 1196835012219 dimerization interface [polypeptide binding]; other site 1196835012220 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 1196835012221 Walker A motif; other site 1196835012222 ATP binding site [chemical binding]; other site 1196835012223 Walker B motif; other site 1196835012224 arginine finger; other site 1196835012225 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 1196835012226 dimerization interface [polypeptide binding]; other site 1196835012227 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196835012228 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 1196835012229 phosphorylation site [posttranslational modification] 1196835012230 dimer interface [polypeptide binding]; other site 1196835012231 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 1196835012232 ATP binding site [chemical binding]; other site 1196835012233 Mg2+ binding site [ion binding]; other site 1196835012234 G-X-G motif; other site 1196835012235 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 1196835012236 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1196835012237 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196835012238 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 1196835012239 substrate binding pocket [chemical binding]; other site 1196835012240 membrane-bound complex binding site; other site 1196835012241 hinge residues; other site 1196835012242 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 1196835012243 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835012244 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835012245 metal binding site [ion binding]; metal-binding site 1196835012246 active site 1196835012247 I-site; other site 1196835012248 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 1196835012249 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196835012250 substrate binding pocket [chemical binding]; other site 1196835012251 membrane-bound complex binding site; other site 1196835012252 hinge residues; other site 1196835012253 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1196835012254 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835012255 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1196835012256 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 1196835012257 N-terminal plug; other site 1196835012258 ligand-binding site [chemical binding]; other site 1196835012259 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 1196835012260 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1196835012261 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 1196835012262 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1196835012263 Beta-lactamase; Region: Beta-lactamase; pfam00144 1196835012264 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1196835012265 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835012266 active site 1196835012267 phosphorylation site [posttranslational modification] 1196835012268 intermolecular recognition site; other site 1196835012269 dimerization interface [polypeptide binding]; other site 1196835012270 sensory histidine kinase DcuS; Provisional; Region: PRK11086 1196835012271 PAS domain; Region: PAS; smart00091 1196835012272 putative active site [active] 1196835012273 heme pocket [chemical binding]; other site 1196835012274 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 1196835012275 ATP binding site [chemical binding]; other site 1196835012276 Mg2+ binding site [ion binding]; other site 1196835012277 G-X-G motif; other site 1196835012278 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 1196835012279 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835012280 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835012281 dimer interface [polypeptide binding]; other site 1196835012282 putative CheW interface [polypeptide binding]; other site 1196835012283 Cupin domain; Region: Cupin_2; cl17218 1196835012284 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1196835012285 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1196835012286 G1 box; other site 1196835012287 putative GEF interaction site [polypeptide binding]; other site 1196835012288 GTP/Mg2+ binding site [chemical binding]; other site 1196835012289 Switch I region; other site 1196835012290 G2 box; other site 1196835012291 G3 box; other site 1196835012292 Switch II region; other site 1196835012293 G4 box; other site 1196835012294 G5 box; other site 1196835012295 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 1196835012296 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 1196835012297 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1196835012298 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1196835012299 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 1196835012300 Ligand Binding Site [chemical binding]; other site 1196835012301 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 1196835012302 active site residue [active] 1196835012303 glutamine synthetase; Provisional; Region: glnA; PRK09469 1196835012304 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1196835012305 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1196835012306 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1196835012307 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1196835012308 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1196835012309 PAS domain; Region: PAS; smart00091 1196835012310 putative active site [active] 1196835012311 heme pocket [chemical binding]; other site 1196835012312 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 1196835012313 dimer interface [polypeptide binding]; other site 1196835012314 phosphorylation site [posttranslational modification] 1196835012315 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 1196835012316 ATP binding site [chemical binding]; other site 1196835012317 Mg2+ binding site [ion binding]; other site 1196835012318 G-X-G motif; other site 1196835012319 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1196835012320 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835012321 active site 1196835012322 phosphorylation site [posttranslational modification] 1196835012323 intermolecular recognition site; other site 1196835012324 dimerization interface [polypeptide binding]; other site 1196835012325 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 1196835012326 Walker A motif; other site 1196835012327 ATP binding site [chemical binding]; other site 1196835012328 Walker B motif; other site 1196835012329 arginine finger; other site 1196835012330 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196835012331 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1196835012332 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1196835012333 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 1196835012334 putative molybdopterin cofactor binding site [chemical binding]; other site 1196835012335 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 1196835012336 putative molybdopterin cofactor binding site; other site 1196835012337 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 1196835012338 active site 1196835012339 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1196835012340 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 1196835012341 Walker A motif; other site 1196835012342 ATP binding site [chemical binding]; other site 1196835012343 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1196835012344 Walker B motif; other site 1196835012345 arginine finger; other site 1196835012346 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1196835012347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 1196835012348 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; pfam09650 1196835012349 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1196835012350 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 1196835012351 S-adenosylmethionine binding site [chemical binding]; other site 1196835012352 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1196835012353 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1196835012354 ABC1 family; Region: ABC1; cl17513 1196835012355 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1196835012356 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 1196835012357 metal binding site [ion binding]; metal-binding site 1196835012358 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1196835012359 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 1196835012360 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1196835012361 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1196835012362 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 1196835012363 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 1196835012364 putative active site [active] 1196835012365 dimerization interface [polypeptide binding]; other site 1196835012366 putative tRNAtyr binding site [nucleotide binding]; other site 1196835012367 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1196835012368 TAP-like protein; Region: Abhydrolase_4; pfam08386 1196835012369 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 1196835012370 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1196835012371 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1196835012372 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 1196835012373 fructose-1,6-bisphosphatase family protein; Region: PLN02628 1196835012374 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 1196835012375 AMP binding site [chemical binding]; other site 1196835012376 metal binding site [ion binding]; metal-binding site 1196835012377 active site 1196835012378 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1196835012379 homodimer interface [polypeptide binding]; other site 1196835012380 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1196835012381 active site pocket [active] 1196835012382 Flagellin N-methylase; Region: FliB; pfam03692 1196835012383 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 1196835012384 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1196835012385 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 1196835012386 active site 1196835012387 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1196835012388 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 1196835012389 dimer interface [polypeptide binding]; other site 1196835012390 ADP-ribose binding site [chemical binding]; other site 1196835012391 active site 1196835012392 nudix motif; other site 1196835012393 metal binding site [ion binding]; metal-binding site 1196835012394 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1196835012395 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 1196835012396 motif II; other site 1196835012397 PAS fold; Region: PAS_3; pfam08447 1196835012398 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 1196835012399 heme pocket [chemical binding]; other site 1196835012400 putative active site [active] 1196835012401 PAS fold; Region: PAS_4; pfam08448 1196835012402 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 1196835012403 putative active site [active] 1196835012404 heme pocket [chemical binding]; other site 1196835012405 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 1196835012406 dimer interface [polypeptide binding]; other site 1196835012407 phosphorylation site [posttranslational modification] 1196835012408 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 1196835012409 ATP binding site [chemical binding]; other site 1196835012410 Mg2+ binding site [ion binding]; other site 1196835012411 G-X-G motif; other site 1196835012412 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196835012413 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835012414 active site 1196835012415 phosphorylation site [posttranslational modification] 1196835012416 intermolecular recognition site; other site 1196835012417 dimerization interface [polypeptide binding]; other site 1196835012418 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 1196835012419 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 1196835012420 active site 1196835012421 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1196835012422 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 1196835012423 putative active site [active] 1196835012424 metal binding site [ion binding]; metal-binding site 1196835012425 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1196835012426 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1196835012427 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1196835012428 active site 1196835012429 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1196835012430 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1196835012431 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1196835012432 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1196835012433 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1196835012434 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835012435 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835012436 The C-terminal substrate biniding domain of an uncharacterized LysR-like transcriptional regulator Pa0477 related to DntR, contains the type 2 periplasmic binding fold; Region: PBP2_Pa0477; cd08468 1196835012437 putative substrate binding pocket [chemical binding]; other site 1196835012438 dimerization interface [polypeptide binding]; other site 1196835012439 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 1196835012440 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 1196835012441 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 1196835012442 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 1196835012443 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1196835012444 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1196835012445 ATP binding site [chemical binding]; other site 1196835012446 Mg2+ binding site [ion binding]; other site 1196835012447 G-X-G motif; other site 1196835012448 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 1196835012449 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1196835012450 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 1196835012451 dimer interface [polypeptide binding]; other site 1196835012452 phosphorylation site [posttranslational modification] 1196835012453 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 1196835012454 ATP binding site [chemical binding]; other site 1196835012455 Mg2+ binding site [ion binding]; other site 1196835012456 G-X-G motif; other site 1196835012457 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835012458 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835012459 active site 1196835012460 phosphorylation site [posttranslational modification] 1196835012461 intermolecular recognition site; other site 1196835012462 dimerization interface [polypeptide binding]; other site 1196835012463 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 1196835012464 ATP binding site [chemical binding]; other site 1196835012465 Mg2+ binding site [ion binding]; other site 1196835012466 G-X-G motif; other site 1196835012467 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835012468 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835012469 active site 1196835012470 phosphorylation site [posttranslational modification] 1196835012471 intermolecular recognition site; other site 1196835012472 dimerization interface [polypeptide binding]; other site 1196835012473 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 1196835012474 DNA-binding site [nucleotide binding]; DNA binding site 1196835012475 RNA-binding motif; other site 1196835012476 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 1196835012477 active site 1196835012478 catalytic residues [active] 1196835012479 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; cl00250 1196835012480 30S subunit binding site; other site 1196835012481 TLC ATP/ADP transporter; Region: TLC; cl03940 1196835012482 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 1196835012483 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1196835012484 active site 1196835012485 catalytic tetrad [active] 1196835012486 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1196835012487 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 1196835012488 dimerization interface [polypeptide binding]; other site 1196835012489 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1196835012490 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835012491 dimer interface [polypeptide binding]; other site 1196835012492 putative CheW interface [polypeptide binding]; other site 1196835012493 Uncharacterized conserved protein [Function unknown]; Region: COG3287 1196835012494 FIST N domain; Region: FIST; smart00897 1196835012495 FIST C domain; Region: FIST_C; pfam10442 1196835012496 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1196835012497 dimer interface [polypeptide binding]; other site 1196835012498 putative CheW interface [polypeptide binding]; other site 1196835012499 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1196835012500 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 1196835012501 putative Mg++ binding site [ion binding]; other site 1196835012502 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 1196835012503 nucleotide binding region [chemical binding]; other site 1196835012504 ATP-binding site [chemical binding]; other site 1196835012505 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 1196835012506 dimer interface [polypeptide binding]; other site 1196835012507 FMN binding site [chemical binding]; other site 1196835012508 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1196835012509 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 1196835012510 active site 1196835012511 substrate-binding site [chemical binding]; other site 1196835012512 metal-binding site [ion binding] 1196835012513 ATP binding site [chemical binding]; other site 1196835012514 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1196835012515 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 1196835012516 dimerization interface [polypeptide binding]; other site 1196835012517 domain crossover interface; other site 1196835012518 redox-dependent activation switch; other site 1196835012519 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 1196835012520 RNA binding surface [nucleotide binding]; other site 1196835012521 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1196835012522 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1196835012523 RimK-like ATP-grasp domain; Region: RimK; pfam08443 1196835012524 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1196835012525 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 1196835012526 dimerization interface [polypeptide binding]; other site 1196835012527 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 1196835012528 ATP binding site [chemical binding]; other site 1196835012529 Mg2+ binding site [ion binding]; other site 1196835012530 G-X-G motif; other site 1196835012531 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1196835012532 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835012533 active site 1196835012534 phosphorylation site [posttranslational modification] 1196835012535 intermolecular recognition site; other site 1196835012536 dimerization interface [polypeptide binding]; other site 1196835012537 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 1196835012538 DNA binding site [nucleotide binding] 1196835012539 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 1196835012540 Protein of unknown function (DUF2819); Region: DUF2819; pfam10995 1196835012541 Protein of unknown function (DUF3260); Region: DUF3260; pfam11658 1196835012542 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 1196835012543 YhjQ protein; Region: YhjQ; pfam06564 1196835012544 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 1196835012545 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1196835012546 DXD motif; other site 1196835012547 PilZ domain; Region: PilZ; pfam07238 1196835012548 cellulose synthase regulator protein; Provisional; Region: PRK11114 1196835012549 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 1196835012550 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 1196835012551 binding surface 1196835012552 TPR motif; other site 1196835012553 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 1196835012554 binding surface 1196835012555 TPR motif; other site 1196835012556 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 1196835012557 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1196835012558 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1196835012559 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1196835012560 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 1196835012561 RNA binding site [nucleotide binding]; other site 1196835012562 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 1196835012563 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1196835012564 CoenzymeA binding site [chemical binding]; other site 1196835012565 subunit interaction site [polypeptide binding]; other site 1196835012566 PHB binding site; other site 1196835012567 glutamate--cysteine ligase; Provisional; Region: PRK02107 1196835012568 N-acetylglutamate synthase; Validated; Region: PRK05279 1196835012569 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 1196835012570 putative feedback inhibition sensing region; other site 1196835012571 putative nucleotide binding site [chemical binding]; other site 1196835012572 putative substrate binding site [chemical binding]; other site 1196835012573 N-acetylglutamate synthase and related acetyltransferases [Amino acid transport and metabolism]; Region: ArgA; COG1246 1196835012574 acetylornithine deacetylase; Provisional; Region: PRK05111 1196835012575 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1196835012576 metal binding site [ion binding]; metal-binding site 1196835012577 putative dimer interface [polypeptide binding]; other site 1196835012578 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1196835012579 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1196835012580 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1196835012581 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1196835012582 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1196835012583 putative active site [active] 1196835012584 putative metal binding residues [ion binding]; other site 1196835012585 signature motif; other site 1196835012586 putative triphosphate binding site [ion binding]; other site 1196835012587 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1196835012588 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1196835012589 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 1196835012590 Walker A motif; other site 1196835012591 ATP binding site [chemical binding]; other site 1196835012592 Walker B motif; other site 1196835012593 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 1196835012594 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1196835012595 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1196835012596 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1196835012597 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1196835012598 GAF domain; Region: GAF; pfam01590 1196835012599 PAS domain S-box; Region: sensory_box; TIGR00229 1196835012600 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 1196835012601 putative active site [active] 1196835012602 heme pocket [chemical binding]; other site 1196835012603 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 1196835012604 PAS domain; Region: PAS_9; pfam13426 1196835012605 putative active site [active] 1196835012606 heme pocket [chemical binding]; other site 1196835012607 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 1196835012608 PAS domain; Region: PAS_9; pfam13426 1196835012609 putative active site [active] 1196835012610 heme pocket [chemical binding]; other site 1196835012611 PAS fold; Region: PAS_3; pfam08447 1196835012612 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1196835012613 GAF domain; Region: GAF; pfam01590 1196835012614 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 1196835012615 PAS domain; Region: PAS_9; pfam13426 1196835012616 putative active site [active] 1196835012617 heme pocket [chemical binding]; other site 1196835012618 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 1196835012619 dimer interface [polypeptide binding]; other site 1196835012620 phosphorylation site [posttranslational modification] 1196835012621 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 1196835012622 ATP binding site [chemical binding]; other site 1196835012623 Mg2+ binding site [ion binding]; other site 1196835012624 G-X-G motif; other site 1196835012625 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835012626 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835012627 active site 1196835012628 phosphorylation site [posttranslational modification] 1196835012629 intermolecular recognition site; other site 1196835012630 dimerization interface [polypeptide binding]; other site 1196835012631 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1196835012632 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1196835012633 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1196835012634 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1196835012635 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1196835012636 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1196835012637 DctM-like transporters; Region: DctM; pfam06808 1196835012638 Methyltransferase domain; Region: Methyltransf_32; pfam13679 1196835012639 Predicted helicase [General function prediction only]; Region: COG4889 1196835012640 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 1196835012641 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 1196835012642 ATP binding site [chemical binding]; other site 1196835012643 putative Mg++ binding site [ion binding]; other site 1196835012644 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 1196835012645 ATP-binding site [chemical binding]; other site 1196835012646 Protein of unknown function DUF262; Region: DUF262; pfam03235 1196835012647 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1196835012648 Protein of unknown function DUF262; Region: DUF262; pfam03235 1196835012649 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1196835012650 Helix-turn-helix domain; Region: HTH_39; pfam14090 1196835012651 Helix-turn-helix domain; Region: HTH_17; pfam12728 1196835012652 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 1196835012653 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1196835012654 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 1196835012655 DNA binding site [nucleotide binding] 1196835012656 active site 1196835012657 Int/Topo IB signature motif; other site 1196835012658 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1196835012659 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 1196835012660 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835012661 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835012662 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 1196835012663 putative effector binding pocket; other site 1196835012664 dimerization interface [polypeptide binding]; other site 1196835012665 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 1196835012666 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 1196835012667 acetylornithine aminotransferase; Provisional; Region: PRK02627 1196835012668 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 1196835012669 inhibitor-cofactor binding pocket; inhibition site 1196835012670 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835012671 catalytic residue [active] 1196835012672 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 1196835012673 dimer interface [polypeptide binding]; other site 1196835012674 pyridoxamine kinase; Validated; Region: PRK05756 1196835012675 pyridoxal binding site [chemical binding]; other site 1196835012676 ATP binding site [chemical binding]; other site 1196835012677 transcriptional regulatory protein PtsJ; Provisional; Region: PRK15481 1196835012678 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196835012679 DNA-binding site [nucleotide binding]; DNA binding site 1196835012680 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 1196835012681 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835012682 homodimer interface [polypeptide binding]; other site 1196835012683 catalytic residue [active] 1196835012684 transcriptional regulatory protein PtsJ; Provisional; Region: PRK15481 1196835012685 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196835012686 DNA-binding site [nucleotide binding]; DNA binding site 1196835012687 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 1196835012688 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835012689 homodimer interface [polypeptide binding]; other site 1196835012690 catalytic residue [active] 1196835012691 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1196835012692 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1196835012693 catalytic triad [active] 1196835012694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1196835012695 MOSC domain; Region: MOSC; pfam03473 1196835012696 aminotransferase; Validated; Region: PRK08175 1196835012697 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 1196835012698 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835012699 homodimer interface [polypeptide binding]; other site 1196835012700 catalytic residue [active] 1196835012701 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1196835012702 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1196835012703 putative ligand binding site [chemical binding]; other site 1196835012704 putative NAD binding site [chemical binding]; other site 1196835012705 catalytic site [active] 1196835012706 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1196835012707 active site 1196835012708 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 1196835012709 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1196835012710 Predicted membrane protein [Function unknown]; Region: COG2261 1196835012711 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1196835012712 ATP-grasp domain; Region: ATP-grasp; pfam02222 1196835012713 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1196835012714 Cache domain; Region: Cache_1; pfam02743 1196835012715 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1196835012716 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 1196835012717 putative active site [active] 1196835012718 heme pocket [chemical binding]; other site 1196835012719 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196835012720 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 1196835012721 dimer interface [polypeptide binding]; other site 1196835012722 phosphorylation site [posttranslational modification] 1196835012723 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 1196835012724 ATP binding site [chemical binding]; other site 1196835012725 Mg2+ binding site [ion binding]; other site 1196835012726 G-X-G motif; other site 1196835012727 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1196835012728 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1196835012729 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1196835012730 dimer interface [polypeptide binding]; other site 1196835012731 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1196835012732 active site 1196835012733 Fe binding site [ion binding]; other site 1196835012734 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1196835012735 Subfamily of fatty acid CoA ligase (FACL) similar to Fum10p of Gibberella moniliformis; Region: FACL_fum10p_like; cd05926 1196835012736 acyl-activating enzyme (AAE) consensus motif; other site 1196835012737 putative AMP binding site [chemical binding]; other site 1196835012738 putative active site [active] 1196835012739 putative CoA binding site [chemical binding]; other site 1196835012740 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1196835012741 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1196835012742 cell density-dependent motility repressor; Provisional; Region: PRK10082 1196835012743 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835012744 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 1196835012745 dimerization interface [polypeptide binding]; other site 1196835012746 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1196835012747 Aspartase; Region: Aspartase; cd01357 1196835012748 active sites [active] 1196835012749 tetramer interface [polypeptide binding]; other site 1196835012750 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1196835012751 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1196835012752 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1196835012753 DNA-binding site [nucleotide binding]; DNA binding site 1196835012754 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 1196835012755 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 1196835012756 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835012757 homodimer interface [polypeptide binding]; other site 1196835012758 catalytic residue [active] 1196835012759 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 1196835012760 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1196835012761 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196835012762 Coenzyme A binding pocket [chemical binding]; other site 1196835012763 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 1196835012764 non-specific DNA binding site [nucleotide binding]; other site 1196835012765 salt bridge; other site 1196835012766 sequence-specific DNA binding site [nucleotide binding]; other site 1196835012767 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1196835012768 amino acid carrier protein; Region: agcS; TIGR00835 1196835012769 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1196835012770 active site 1196835012771 homodimer interface [polypeptide binding]; other site 1196835012772 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 1196835012773 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1196835012774 substrate binding pocket [chemical binding]; other site 1196835012775 membrane-bound complex binding site; other site 1196835012776 hinge residues; other site 1196835012777 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 1196835012778 active site clefts [active] 1196835012779 zinc binding site [ion binding]; other site 1196835012780 dimer interface [polypeptide binding]; other site 1196835012781 glutaminase; Provisional; Region: PRK00971 1196835012782 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1196835012783 Domain of unknown function (DUF897); Region: DUF897; cl01312 1196835012784 pyruvate carboxylase subunit B; Validated; Region: PRK09282 1196835012785 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1196835012786 active site 1196835012787 catalytic residues [active] 1196835012788 metal binding site [ion binding]; metal-binding site 1196835012789 homodimer binding site [polypeptide binding]; other site 1196835012790 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 1196835012791 carboxyltransferase (CT) interaction site; other site 1196835012792 biotinylation site [posttranslational modification]; other site 1196835012793 pyruvate carboxylase subunit A; Validated; Region: PRK07178 1196835012794 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1196835012795 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1196835012796 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1196835012797 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1196835012798 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835012799 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 1196835012800 dimerization interface [polypeptide binding]; other site 1196835012801 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1196835012802 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1196835012803 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1196835012804 putative active site [active] 1196835012805 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1196835012806 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1196835012807 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1196835012808 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1196835012809 Coenzyme A binding pocket [chemical binding]; other site 1196835012810 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 1196835012811 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 1196835012812 inhibitor-cofactor binding pocket; inhibition site 1196835012813 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835012814 catalytic residue [active] 1196835012815 Ectoine synthase; Region: Ectoine_synth; pfam06339 1196835012816 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1196835012817 aspartate kinase; Validated; Region: PRK09181 1196835012818 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 1196835012819 nucleotide binding site [chemical binding]; other site 1196835012820 substrate binding site [chemical binding]; other site 1196835012821 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_1; cd04910 1196835012822 allosteric regulatory residue; other site 1196835012823 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1196835012824 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1196835012825 putative protease; Provisional; Region: PRK15452 1196835012826 Peptidase family U32; Region: Peptidase_U32; pfam01136 1196835012827 PAS domain S-box; Region: sensory_box; TIGR00229 1196835012828 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1196835012829 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 1196835012830 PAS domain; Region: PAS_9; pfam13426 1196835012831 putative active site [active] 1196835012832 heme pocket [chemical binding]; other site 1196835012833 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835012834 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835012835 metal binding site [ion binding]; metal-binding site 1196835012836 active site 1196835012837 I-site; other site 1196835012838 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 1196835012839 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1196835012840 Part of AAA domain; Region: AAA_19; pfam13245 1196835012841 Family description; Region: UvrD_C_2; pfam13538 1196835012842 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1196835012843 Tim44-like domain; Region: Tim44; cl09208 1196835012844 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1196835012845 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1196835012846 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1196835012847 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1196835012848 Cupin; Region: Cupin_6; pfam12852 1196835012849 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835012850 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1196835012851 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835012852 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 1196835012853 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 1196835012854 molybdopterin cofactor binding site; other site 1196835012855 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 1196835012856 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 1196835012857 molybdopterin cofactor binding site; other site 1196835012858 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1196835012859 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1196835012860 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 1196835012861 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1196835012862 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1196835012863 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 1196835012864 selenocysteine synthase; Provisional; Region: PRK04311 1196835012865 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1196835012866 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1196835012867 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1196835012868 catalytic residue [active] 1196835012869 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1196835012870 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1196835012871 G1 box; other site 1196835012872 putative GEF interaction site [polypeptide binding]; other site 1196835012873 GTP/Mg2+ binding site [chemical binding]; other site 1196835012874 Switch I region; other site 1196835012875 G2 box; other site 1196835012876 G3 box; other site 1196835012877 Switch II region; other site 1196835012878 G4 box; other site 1196835012879 G5 box; other site 1196835012880 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 1196835012881 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 1196835012882 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1196835012883 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1196835012884 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1196835012885 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 1196835012886 putative active site [active] 1196835012887 putative NTP binding site [chemical binding]; other site 1196835012888 putative nucleic acid binding site [nucleotide binding]; other site 1196835012889 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 1196835012890 DNA-binding site [nucleotide binding]; DNA binding site 1196835012891 RNA-binding motif; other site 1196835012892 glycine cleavage system protein H; Provisional; Region: PRK13380 1196835012893 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 1196835012894 lipoyl attachment site [posttranslational modification]; other site 1196835012895 Predicted peroxiredoxins [General function prediction only]; Region: COG2044 1196835012896 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 1196835012897 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 1196835012898 S-adenosylmethionine binding site [chemical binding]; other site 1196835012899 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 1196835012900 Ligand Binding Site [chemical binding]; other site 1196835012901 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 1196835012902 Ligand Binding Site [chemical binding]; other site 1196835012903 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1196835012904 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1196835012905 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1196835012906 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 1196835012907 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1196835012908 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1196835012909 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1196835012910 Zn2+ binding site [ion binding]; other site 1196835012911 Mg2+ binding site [ion binding]; other site 1196835012912 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1196835012913 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 1196835012914 dimer interface [polypeptide binding]; other site 1196835012915 phosphorylation site [posttranslational modification] 1196835012916 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 1196835012917 ATP binding site [chemical binding]; other site 1196835012918 Mg2+ binding site [ion binding]; other site 1196835012919 G-X-G motif; other site 1196835012920 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1196835012921 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835012922 active site 1196835012923 phosphorylation site [posttranslational modification] 1196835012924 intermolecular recognition site; other site 1196835012925 dimerization interface [polypeptide binding]; other site 1196835012926 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 1196835012927 Walker A motif; other site 1196835012928 ATP binding site [chemical binding]; other site 1196835012929 Walker B motif; other site 1196835012930 arginine finger; other site 1196835012931 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196835012932 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 1196835012933 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 1196835012934 DNA binding residues [nucleotide binding] 1196835012935 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1196835012936 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1196835012937 SnoaL-like domain; Region: SnoaL_3; pfam13474 1196835012938 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1196835012939 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 1196835012940 N-terminal plug; other site 1196835012941 ligand-binding site [chemical binding]; other site 1196835012942 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1196835012943 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1196835012944 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1196835012945 PAS domain; Region: PAS; smart00091 1196835012946 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 1196835012947 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 1196835012948 dimer interface [polypeptide binding]; other site 1196835012949 phosphorylation site [posttranslational modification] 1196835012950 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 1196835012951 ATP binding site [chemical binding]; other site 1196835012952 Mg2+ binding site [ion binding]; other site 1196835012953 G-X-G motif; other site 1196835012954 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196835012955 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835012956 active site 1196835012957 phosphorylation site [posttranslational modification] 1196835012958 intermolecular recognition site; other site 1196835012959 dimerization interface [polypeptide binding]; other site 1196835012960 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835012961 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835012962 active site 1196835012963 phosphorylation site [posttranslational modification] 1196835012964 intermolecular recognition site; other site 1196835012965 dimerization interface [polypeptide binding]; other site 1196835012966 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1196835012967 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1196835012968 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1196835012969 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1196835012970 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1196835012971 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 1196835012972 S-adenosylmethionine binding site [chemical binding]; other site 1196835012973 Predicted permeases [General function prediction only]; Region: COG0679 1196835012974 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1196835012975 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1196835012976 NAD binding site [chemical binding]; other site 1196835012977 catalytic Zn binding site [ion binding]; other site 1196835012978 structural Zn binding site [ion binding]; other site 1196835012979 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1196835012980 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1196835012981 putative NAD(P) binding site [chemical binding]; other site 1196835012982 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1196835012983 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1196835012984 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 1196835012985 dimerization interface [polypeptide binding]; other site 1196835012986 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1196835012987 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 1196835012988 generic binding surface II; other site 1196835012989 ssDNA binding site; other site 1196835012990 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 1196835012991 ATP binding site [chemical binding]; other site 1196835012992 putative Mg++ binding site [ion binding]; other site 1196835012993 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 1196835012994 nucleotide binding region [chemical binding]; other site 1196835012995 ATP-binding site [chemical binding]; other site 1196835012996 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 1196835012997 putative deacylase active site [active] 1196835012998 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1196835012999 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 1196835013000 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 1196835013001 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1196835013002 GspL periplasmic domain; Region: GspL_C; pfam12693 1196835013003 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1196835013004 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1196835013005 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1196835013006 type II secretion system protein I; Region: gspI; TIGR01707 1196835013007 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1196835013008 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1196835013009 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1196835013010 type II secretion system protein F; Region: GspF; TIGR02120 1196835013011 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1196835013012 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1196835013013 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1196835013014 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 1196835013015 Walker A motif; other site 1196835013016 ATP binding site [chemical binding]; other site 1196835013017 Walker B motif; other site 1196835013018 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1196835013019 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1196835013020 ligand binding site [chemical binding]; other site 1196835013021 homodimer interface [polypeptide binding]; other site 1196835013022 NAD(P) binding site [chemical binding]; other site 1196835013023 trimer interface B [polypeptide binding]; other site 1196835013024 trimer interface A [polypeptide binding]; other site 1196835013025 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1196835013026 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1196835013027 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1196835013028 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1196835013029 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1196835013030 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1196835013031 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1196835013032 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1196835013033 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1196835013034 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1196835013035 conserverd hypothetical protein; Region: TIGR02448 1196835013036 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1196835013037 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1196835013038 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1196835013039 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1196835013040 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1196835013041 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1196835013042 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 1196835013043 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 1196835013044 DNA polymerase I; Provisional; Region: PRK05755 1196835013045 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1196835013046 active site 1196835013047 metal binding site 1 [ion binding]; metal-binding site 1196835013048 putative 5' ssDNA interaction site; other site 1196835013049 metal binding site 3; metal-binding site 1196835013050 metal binding site 2 [ion binding]; metal-binding site 1196835013051 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1196835013052 putative DNA binding site [nucleotide binding]; other site 1196835013053 putative metal binding site [ion binding]; other site 1196835013054 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 1196835013055 active site 1196835013056 catalytic site [active] 1196835013057 substrate binding site [chemical binding]; other site 1196835013058 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1196835013059 active site 1196835013060 DNA binding site [nucleotide binding] 1196835013061 catalytic site [active] 1196835013062 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 1196835013063 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1196835013064 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 1196835013065 putative active site [active] 1196835013066 putative substrate binding site [chemical binding]; other site 1196835013067 ATP binding site [chemical binding]; other site 1196835013068 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1196835013069 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1196835013070 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1196835013071 putative acyl-acceptor binding pocket; other site 1196835013072 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 1196835013073 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1196835013074 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1196835013075 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1196835013076 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1196835013077 EamA-like transporter family; Region: EamA; pfam00892 1196835013078 TSCPD domain; Region: TSCPD; pfam12637 1196835013079 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 1196835013080 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 1196835013081 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1196835013082 active site 1196835013083 dimer interface [polypeptide binding]; other site 1196835013084 effector binding site; other site 1196835013085 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1196835013086 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1196835013087 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 1196835013088 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1196835013089 acyl-activating enzyme (AAE) consensus motif; other site 1196835013090 putative AMP binding site [chemical binding]; other site 1196835013091 putative active site [active] 1196835013092 putative CoA binding site [chemical binding]; other site 1196835013093 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1196835013094 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1196835013095 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196835013096 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196835013097 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1196835013098 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1196835013099 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 1196835013100 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1196835013101 putative substrate translocation pore; other site 1196835013102 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 1196835013103 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1196835013104 active site 1196835013105 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1196835013106 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 1196835013107 FAD binding site [chemical binding]; other site 1196835013108 substrate binding site [chemical binding]; other site 1196835013109 catalytic base [active] 1196835013110 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1196835013111 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1196835013112 substrate binding site [chemical binding]; other site 1196835013113 oxyanion hole (OAH) forming residues; other site 1196835013114 trimer interface [polypeptide binding]; other site 1196835013115 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1196835013116 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1196835013117 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1196835013118 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835013119 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835013120 active site 1196835013121 phosphorylation site [posttranslational modification] 1196835013122 intermolecular recognition site; other site 1196835013123 dimerization interface [polypeptide binding]; other site 1196835013124 HDOD domain; Region: HDOD; pfam08668 1196835013125 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 1196835013126 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1196835013127 tetramerization interface [polypeptide binding]; other site 1196835013128 NAD(P) binding site [chemical binding]; other site 1196835013129 catalytic residues [active] 1196835013130 Cytochrome C' Region: Cytochrom_C_2; pfam01322 1196835013131 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 1196835013132 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 1196835013133 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1196835013134 phosphopeptide binding site; other site 1196835013135 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 1196835013136 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 1196835013137 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1196835013138 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 1196835013139 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1196835013140 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1196835013141 G1 box; other site 1196835013142 GTP/Mg2+ binding site [chemical binding]; other site 1196835013143 G2 box; other site 1196835013144 Switch I region; other site 1196835013145 G3 box; other site 1196835013146 Switch II region; other site 1196835013147 G4 box; other site 1196835013148 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1196835013149 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1196835013150 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; cd00143 1196835013151 active site 1196835013152 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1196835013153 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1196835013154 active site 1196835013155 ATP binding site [chemical binding]; other site 1196835013156 substrate binding site [chemical binding]; other site 1196835013157 activation loop (A-loop); other site 1196835013158 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1196835013159 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1196835013160 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1196835013161 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 1196835013162 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1196835013163 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 1196835013164 putative heme binding pocket [chemical binding]; other site 1196835013165 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1196835013166 Permease; Region: Permease; pfam02405 1196835013167 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1196835013168 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835013169 Walker A/P-loop; other site 1196835013170 ATP binding site [chemical binding]; other site 1196835013171 Q-loop/lid; other site 1196835013172 ABC transporter signature motif; other site 1196835013173 Walker B; other site 1196835013174 D-loop; other site 1196835013175 H-loop/switch region; other site 1196835013176 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1196835013177 mce related protein; Region: MCE; pfam02470 1196835013178 Protein of unknown function (DUF330); Region: DUF330; cl01135 1196835013179 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1196835013180 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196835013181 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1196835013182 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1196835013183 Walker A/P-loop; other site 1196835013184 ATP binding site [chemical binding]; other site 1196835013185 Q-loop/lid; other site 1196835013186 ABC transporter signature motif; other site 1196835013187 Walker B; other site 1196835013188 D-loop; other site 1196835013189 H-loop/switch region; other site 1196835013190 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1196835013191 Walker A/P-loop; other site 1196835013192 ATP binding site [chemical binding]; other site 1196835013193 Q-loop/lid; other site 1196835013194 ABC transporter signature motif; other site 1196835013195 Walker B; other site 1196835013196 D-loop; other site 1196835013197 H-loop/switch region; other site 1196835013198 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1196835013199 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1196835013200 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1196835013201 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1196835013202 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 1196835013203 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1196835013204 NAD binding site [chemical binding]; other site 1196835013205 substrate binding site [chemical binding]; other site 1196835013206 homodimer interface [polypeptide binding]; other site 1196835013207 active site 1196835013208 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1196835013209 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1196835013210 substrate binding site; other site 1196835013211 tetramer interface; other site 1196835013212 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 1196835013213 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1196835013214 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1196835013215 NADP binding site [chemical binding]; other site 1196835013216 active site 1196835013217 putative substrate binding site [chemical binding]; other site 1196835013218 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1196835013219 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 1196835013220 dimer interface [polypeptide binding]; other site 1196835013221 phosphorylation site [posttranslational modification] 1196835013222 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 1196835013223 ATP binding site [chemical binding]; other site 1196835013224 G-X-G motif; other site 1196835013225 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1196835013226 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835013227 active site 1196835013228 phosphorylation site [posttranslational modification] 1196835013229 intermolecular recognition site; other site 1196835013230 dimerization interface [polypeptide binding]; other site 1196835013231 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 1196835013232 Walker A motif; other site 1196835013233 ATP binding site [chemical binding]; other site 1196835013234 Walker B motif; other site 1196835013235 arginine finger; other site 1196835013236 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1196835013237 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1196835013238 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1196835013239 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1196835013240 DctM-like transporters; Region: DctM; pfam06808 1196835013241 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1196835013242 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 1196835013243 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 1196835013244 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1196835013245 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1196835013246 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1196835013247 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 1196835013248 N-terminal plug; other site 1196835013249 ligand-binding site [chemical binding]; other site 1196835013250 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1196835013251 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1196835013252 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1196835013253 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835013254 Walker A/P-loop; other site 1196835013255 ATP binding site [chemical binding]; other site 1196835013256 Q-loop/lid; other site 1196835013257 ABC transporter signature motif; other site 1196835013258 Walker B; other site 1196835013259 D-loop; other site 1196835013260 H-loop/switch region; other site 1196835013261 NnrS protein; Region: NnrS; pfam05940 1196835013262 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1196835013263 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835013264 dimer interface [polypeptide binding]; other site 1196835013265 conserved gate region; other site 1196835013266 putative PBP binding loops; other site 1196835013267 ABC-ATPase subunit interface; other site 1196835013268 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835013269 dimer interface [polypeptide binding]; other site 1196835013270 conserved gate region; other site 1196835013271 putative PBP binding loops; other site 1196835013272 ABC-ATPase subunit interface; other site 1196835013273 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 1196835013274 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835013275 Walker A/P-loop; other site 1196835013276 ATP binding site [chemical binding]; other site 1196835013277 Q-loop/lid; other site 1196835013278 ABC transporter signature motif; other site 1196835013279 Walker B; other site 1196835013280 D-loop; other site 1196835013281 H-loop/switch region; other site 1196835013282 TOBE domain; Region: TOBE_2; pfam08402 1196835013283 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1196835013284 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1196835013285 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1196835013286 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1196835013287 putative aminotransferase; Validated; Region: PRK07480 1196835013288 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 1196835013289 inhibitor-cofactor binding pocket; inhibition site 1196835013290 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835013291 catalytic residue [active] 1196835013292 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1196835013293 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1196835013294 Peptidase C26; Region: Peptidase_C26; pfam07722 1196835013295 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1196835013296 catalytic triad [active] 1196835013297 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1196835013298 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1196835013299 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1196835013300 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1196835013301 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1196835013302 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 1196835013303 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1196835013304 putative active site; other site 1196835013305 catalytic triad [active] 1196835013306 putative dimer interface [polypeptide binding]; other site 1196835013307 agmatine deiminase; Provisional; Region: PRK13551 1196835013308 agmatine deiminase; Region: agmatine_aguA; TIGR03380 1196835013309 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 1196835013310 PAS fold; Region: PAS_3; pfam08447 1196835013311 putative active site [active] 1196835013312 heme pocket [chemical binding]; other site 1196835013313 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835013314 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835013315 metal binding site [ion binding]; metal-binding site 1196835013316 active site 1196835013317 I-site; other site 1196835013318 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1196835013319 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 1196835013320 Di-iron ligands [ion binding]; other site 1196835013321 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 1196835013322 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1196835013323 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835013324 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835013325 active site 1196835013326 phosphorylation site [posttranslational modification] 1196835013327 intermolecular recognition site; other site 1196835013328 dimerization interface [polypeptide binding]; other site 1196835013329 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1196835013330 GAF domain; Region: GAF; pfam01590 1196835013331 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 1196835013332 PAS domain; Region: PAS_9; pfam13426 1196835013333 putative active site [active] 1196835013334 heme pocket [chemical binding]; other site 1196835013335 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 1196835013336 PAS fold; Region: PAS_3; pfam08447 1196835013337 putative active site [active] 1196835013338 heme pocket [chemical binding]; other site 1196835013339 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1196835013340 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 1196835013341 putative active site [active] 1196835013342 heme pocket [chemical binding]; other site 1196835013343 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 1196835013344 dimer interface [polypeptide binding]; other site 1196835013345 phosphorylation site [posttranslational modification] 1196835013346 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 1196835013347 ATP binding site [chemical binding]; other site 1196835013348 Mg2+ binding site [ion binding]; other site 1196835013349 G-X-G motif; other site 1196835013350 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835013351 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835013352 active site 1196835013353 phosphorylation site [posttranslational modification] 1196835013354 intermolecular recognition site; other site 1196835013355 dimerization interface [polypeptide binding]; other site 1196835013356 Hpt domain; Region: Hpt; pfam01627 1196835013357 putative binding surface; other site 1196835013358 active site 1196835013359 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835013360 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835013361 active site 1196835013362 phosphorylation site [posttranslational modification] 1196835013363 intermolecular recognition site; other site 1196835013364 dimerization interface [polypeptide binding]; other site 1196835013365 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1196835013366 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1196835013367 metal binding site [ion binding]; metal-binding site 1196835013368 active site 1196835013369 I-site; other site 1196835013370 CHASE3 domain; Region: CHASE3; pfam05227 1196835013371 PAS fold; Region: PAS_4; pfam08448 1196835013372 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 1196835013373 dimer interface [polypeptide binding]; other site 1196835013374 phosphorylation site [posttranslational modification] 1196835013375 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 1196835013376 ATP binding site [chemical binding]; other site 1196835013377 Mg2+ binding site [ion binding]; other site 1196835013378 G-X-G motif; other site 1196835013379 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 1196835013380 active site 1196835013381 phosphorylation site [posttranslational modification] 1196835013382 intermolecular recognition site; other site 1196835013383 dimerization interface [polypeptide binding]; other site 1196835013384 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196835013385 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835013386 active site 1196835013387 phosphorylation site [posttranslational modification] 1196835013388 intermolecular recognition site; other site 1196835013389 dimerization interface [polypeptide binding]; other site 1196835013390 Response regulator receiver domain; Region: Response_reg; pfam00072 1196835013391 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835013392 active site 1196835013393 phosphorylation site [posttranslational modification] 1196835013394 intermolecular recognition site; other site 1196835013395 dimerization interface [polypeptide binding]; other site 1196835013396 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 1196835013397 TPR motif; other site 1196835013398 TPR repeat; Region: TPR_11; pfam13414 1196835013399 binding surface 1196835013400 HEAT repeats; Region: HEAT_2; pfam13646 1196835013401 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1196835013402 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1196835013403 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1196835013404 DXD motif; other site 1196835013405 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 1196835013406 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1196835013407 NAD(P) binding site [chemical binding]; other site 1196835013408 catalytic residues [active] 1196835013409 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1196835013410 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 1196835013411 inhibitor-cofactor binding pocket; inhibition site 1196835013412 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1196835013413 catalytic residue [active] 1196835013414 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 1196835013415 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 1196835013416 metal binding site [ion binding]; metal-binding site 1196835013417 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1196835013418 metal binding site 2 [ion binding]; metal-binding site 1196835013419 putative DNA binding helix; other site 1196835013420 metal binding site 1 [ion binding]; metal-binding site 1196835013421 dimer interface [polypeptide binding]; other site 1196835013422 structural Zn2+ binding site [ion binding]; other site 1196835013423 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1196835013424 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1196835013425 Walker A/P-loop; other site 1196835013426 ATP binding site [chemical binding]; other site 1196835013427 Q-loop/lid; other site 1196835013428 ABC transporter signature motif; other site 1196835013429 Walker B; other site 1196835013430 D-loop; other site 1196835013431 H-loop/switch region; other site 1196835013432 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 1196835013433 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1196835013434 ABC-ATPase subunit interface; other site 1196835013435 dimer interface [polypeptide binding]; other site 1196835013436 putative PBP binding regions; other site 1196835013437 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1196835013438 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 1196835013439 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1196835013440 transmembrane helices; other site 1196835013441 hydroperoxidase II; Provisional; Region: katE; PRK11249 1196835013442 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 1196835013443 tetramer interface [polypeptide binding]; other site 1196835013444 heme binding pocket [chemical binding]; other site 1196835013445 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 1196835013446 domain interactions; other site 1196835013447 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1196835013448 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1196835013449 Walker A/P-loop; other site 1196835013450 ATP binding site [chemical binding]; other site 1196835013451 Q-loop/lid; other site 1196835013452 ABC transporter signature motif; other site 1196835013453 Walker B; other site 1196835013454 D-loop; other site 1196835013455 H-loop/switch region; other site 1196835013456 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 1196835013457 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1196835013458 dimer interface [polypeptide binding]; other site 1196835013459 conserved gate region; other site 1196835013460 ABC-ATPase subunit interface; other site 1196835013461 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1196835013462 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1196835013463 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1196835013464 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 1196835013465 putative NAD(P) binding site [chemical binding]; other site 1196835013466 putative substrate binding site [chemical binding]; other site 1196835013467 catalytic Zn binding site [ion binding]; other site 1196835013468 structural Zn binding site [ion binding]; other site 1196835013469 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 1196835013470 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1196835013471 putative metal binding site [ion binding]; other site 1196835013472 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1196835013473 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 1196835013474 trimer interface [polypeptide binding]; other site 1196835013475 putative metal binding site [ion binding]; other site 1196835013476 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1196835013477 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1196835013478 active site 1196835013479 Zn binding site [ion binding]; other site 1196835013480 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 1196835013481 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 1196835013482 Protein of unknown function; Region: DUF3658; pfam12395 1196835013483 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1196835013484 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 1196835013485 FeS/SAM binding site; other site 1196835013486 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1196835013487 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1196835013488 putative C-terminal domain interface [polypeptide binding]; other site 1196835013489 putative GSH binding site (G-site) [chemical binding]; other site 1196835013490 putative dimer interface [polypeptide binding]; other site 1196835013491 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1196835013492 N-terminal domain interface [polypeptide binding]; other site 1196835013493 dimer interface [polypeptide binding]; other site 1196835013494 substrate binding pocket (H-site) [chemical binding]; other site 1196835013495 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1196835013496 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1196835013497 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1196835013498 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1196835013499 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1196835013500 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1196835013501 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 1196835013502 Subunit I/III interface [polypeptide binding]; other site 1196835013503 D-pathway; other site 1196835013504 Subunit I/VIIc interface [polypeptide binding]; other site 1196835013505 Subunit I/IV interface [polypeptide binding]; other site 1196835013506 Subunit I/II interface [polypeptide binding]; other site 1196835013507 Low-spin heme (heme a) binding site [chemical binding]; other site 1196835013508 Subunit I/VIIa interface [polypeptide binding]; other site 1196835013509 Subunit I/VIa interface [polypeptide binding]; other site 1196835013510 Dimer interface; other site 1196835013511 Putative water exit pathway; other site 1196835013512 Binuclear center (heme a3/CuB) [ion binding]; other site 1196835013513 K-pathway; other site 1196835013514 Subunit I/Vb interface [polypeptide binding]; other site 1196835013515 Putative proton exit pathway; other site 1196835013516 Subunit I/VIb interface; other site 1196835013517 Subunit I/VIc interface [polypeptide binding]; other site 1196835013518 Electron transfer pathway; other site 1196835013519 Subunit I/VIIIb interface [polypeptide binding]; other site 1196835013520 Subunit I/VIIb interface [polypeptide binding]; other site 1196835013521 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 1196835013522 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 1196835013523 Subunit III/VIIa interface [polypeptide binding]; other site 1196835013524 Phospholipid binding site [chemical binding]; other site 1196835013525 Subunit I/III interface [polypeptide binding]; other site 1196835013526 Subunit III/VIb interface [polypeptide binding]; other site 1196835013527 Subunit III/VIa interface; other site 1196835013528 Subunit III/Vb interface [polypeptide binding]; other site 1196835013529 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1196835013530 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 1196835013531 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1196835013532 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1196835013533 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1196835013534 UbiA prenyltransferase family; Region: UbiA; pfam01040 1196835013535 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 1196835013536 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1196835013537 Cu(I) binding site [ion binding]; other site 1196835013538 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1196835013539 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1196835013540 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1196835013541 Secretin and TonB N terminus short domain; Region: STN; smart00965 1196835013542 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1196835013543 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 1196835013544 N-terminal plug; other site 1196835013545 ligand-binding site [chemical binding]; other site 1196835013546 fec operon regulator FecR; Reviewed; Region: PRK09774 1196835013547 FecR protein; Region: FecR; pfam04773 1196835013548 RNA polymerase sigma factor; Provisional; Region: PRK12528 1196835013549 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1196835013550 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 1196835013551 DNA binding residues [nucleotide binding] 1196835013552 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 1196835013553 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1196835013554 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1196835013555 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 1196835013556 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 1196835013557 GAF domain; Region: GAF; pfam01590 1196835013558 Phytochrome region; Region: PHY; pfam00360 1196835013559 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 1196835013560 dimer interface [polypeptide binding]; other site 1196835013561 phosphorylation site [posttranslational modification] 1196835013562 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 1196835013563 ATP binding site [chemical binding]; other site 1196835013564 Mg2+ binding site [ion binding]; other site 1196835013565 G-X-G motif; other site 1196835013566 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196835013567 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835013568 active site 1196835013569 phosphorylation site [posttranslational modification] 1196835013570 intermolecular recognition site; other site 1196835013571 dimerization interface [polypeptide binding]; other site 1196835013572 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196835013573 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835013574 active site 1196835013575 phosphorylation site [posttranslational modification] 1196835013576 intermolecular recognition site; other site 1196835013577 dimerization interface [polypeptide binding]; other site 1196835013578 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 1196835013579 PAS fold; Region: PAS_3; pfam08447 1196835013580 putative active site [active] 1196835013581 heme pocket [chemical binding]; other site 1196835013582 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 1196835013583 putative active site [active] 1196835013584 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1196835013585 heme pocket [chemical binding]; other site 1196835013586 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 1196835013587 dimer interface [polypeptide binding]; other site 1196835013588 phosphorylation site [posttranslational modification] 1196835013589 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 1196835013590 ATP binding site [chemical binding]; other site 1196835013591 Mg2+ binding site [ion binding]; other site 1196835013592 G-X-G motif; other site 1196835013593 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1196835013594 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835013595 active site 1196835013596 phosphorylation site [posttranslational modification] 1196835013597 intermolecular recognition site; other site 1196835013598 dimerization interface [polypeptide binding]; other site 1196835013599 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 1196835013600 heme binding pocket [chemical binding]; other site 1196835013601 heme ligand [chemical binding]; other site 1196835013602 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1196835013603 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835013604 active site 1196835013605 phosphorylation site [posttranslational modification] 1196835013606 intermolecular recognition site; other site 1196835013607 dimerization interface [polypeptide binding]; other site 1196835013608 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 1196835013609 DNA binding site [nucleotide binding] 1196835013610 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1196835013611 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1196835013612 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1196835013613 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1196835013614 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1196835013615 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 1196835013616 dimerization interface [polypeptide binding]; other site 1196835013617 Transposase; Region: HTH_Tnp_1; cl17663 1196835013618 potential frameshift: common BLAST hit: gi|386021326|ref|YP_005939350.1| putative transposase subunit B 1196835013619 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1196835013620 NAD(P) binding site [chemical binding]; other site 1196835013621 active site 1196835013622 Domain of unknown function (DUF305); Region: DUF305; cl17794 1196835013623 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 1196835013624 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 1196835013625 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1196835013626 HAMP domain; Region: HAMP; pfam00672 1196835013627 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 1196835013628 dimer interface [polypeptide binding]; other site 1196835013629 phosphorylation site [posttranslational modification] 1196835013630 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 1196835013631 ATP binding site [chemical binding]; other site 1196835013632 Mg2+ binding site [ion binding]; other site 1196835013633 G-X-G motif; other site 1196835013634 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1196835013635 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1196835013636 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1196835013637 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196835013638 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1196835013639 Outer membrane efflux protein; Region: OEP; pfam02321 1196835013640 YHS domain; Region: YHS; pfam04945 1196835013641 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1196835013642 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1196835013643 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 1196835013644 motif II; other site 1196835013645 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 1196835013646 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1196835013647 Transposase domain (DUF772); Region: DUF772; pfam05598 1196835013648 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1196835013649 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1196835013650 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1196835013651 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1196835013652 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 1196835013653 active site 1196835013654 Int/Topo IB signature motif; other site 1196835013655 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1196835013656 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 1196835013657 motif II; other site 1196835013658 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 1196835013659 metal-binding site [ion binding] 1196835013660 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1196835013661 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1196835013662 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1196835013663 DNA binding residues [nucleotide binding] 1196835013664 dimer interface [polypeptide binding]; other site 1196835013665 putative metal binding site [ion binding]; other site 1196835013666 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1196835013667 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 1196835013668 dimerization interface [polypeptide binding]; other site 1196835013669 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 1196835013670 dimer interface [polypeptide binding]; other site 1196835013671 phosphorylation site [posttranslational modification] 1196835013672 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 1196835013673 ATP binding site [chemical binding]; other site 1196835013674 Mg2+ binding site [ion binding]; other site 1196835013675 G-X-G motif; other site 1196835013676 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1196835013677 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1196835013678 active site 1196835013679 phosphorylation site [posttranslational modification] 1196835013680 intermolecular recognition site; other site 1196835013681 dimerization interface [polypeptide binding]; other site 1196835013682 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 1196835013683 DNA binding site [nucleotide binding] 1196835013684 outer membrane porin, OprD family; Region: OprD; pfam03573 1196835013685 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1196835013686 HlyD family secretion protein; Region: HlyD_3; pfam13437 1196835013687 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1196835013688 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1196835013689 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1196835013690 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1196835013691 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1196835013692 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1196835013693 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 1196835013694 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1196835013695 TniQ; Region: TniQ; pfam06527 1196835013696 AAA domain; Region: AAA_22; pfam13401 1196835013697 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1196835013698 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 1196835013699 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 1196835013700 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1196835013701 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 1196835013702 glutaminase active site [active] 1196835013703 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 1196835013704 dimer interface [polypeptide binding]; other site 1196835013705 active site 1196835013706 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 1196835013707 dimer interface [polypeptide binding]; other site 1196835013708 active site 1196835013709 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 1196835013710 putative DNA binding site [nucleotide binding]; other site 1196835013711 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1196835013712 putative Zn2+ binding site [ion binding]; other site 1196835013713 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1196835013714 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1196835013715 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1196835013716 Substrate binding site; other site 1196835013717 Mg++ binding site; other site 1196835013718 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 1196835013719 active site 1196835013720 substrate binding site [chemical binding]; other site 1196835013721 CoA binding site [chemical binding]; other site 1196835013722 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1196835013723 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1196835013724 gamma subunit interface [polypeptide binding]; other site 1196835013725 epsilon subunit interface [polypeptide binding]; other site 1196835013726 LBP interface [polypeptide binding]; other site 1196835013727 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1196835013728 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1196835013729 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 1196835013730 alpha subunit interaction interface [polypeptide binding]; other site 1196835013731 Walker A motif; other site 1196835013732 ATP binding site [chemical binding]; other site 1196835013733 Walker B motif; other site 1196835013734 inhibitor binding site; inhibition site 1196835013735 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1196835013736 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1196835013737 core domain interface [polypeptide binding]; other site 1196835013738 delta subunit interface [polypeptide binding]; other site 1196835013739 epsilon subunit interface [polypeptide binding]; other site 1196835013740 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1196835013741 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1196835013742 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 1196835013743 beta subunit interaction interface [polypeptide binding]; other site 1196835013744 Walker A motif; other site 1196835013745 ATP binding site [chemical binding]; other site 1196835013746 Walker B motif; other site 1196835013747 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1196835013748 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1196835013749 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1196835013750 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1196835013751 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1196835013752 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1196835013753 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1196835013754 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1196835013755 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 1196835013756 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1196835013757 ParB-like nuclease domain; Region: ParBc; pfam02195 1196835013758 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1196835013759 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 1196835013760 P-loop; other site 1196835013761 Magnesium ion binding site [ion binding]; other site 1196835013762 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 1196835013763 Magnesium ion binding site [ion binding]; other site 1196835013764 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1196835013765 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1196835013766 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1196835013767 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1196835013768 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1196835013769 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1196835013770 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1196835013771 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1196835013772 G1 box; other site 1196835013773 GTP/Mg2+ binding site [chemical binding]; other site 1196835013774 Switch I region; other site 1196835013775 G2 box; other site 1196835013776 Switch II region; other site 1196835013777 G3 box; other site 1196835013778 G4 box; other site 1196835013779 G5 box; other site 1196835013780 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1196835013781 membrane protein insertase; Provisional; Region: PRK01318 1196835013782 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1196835013783 Haemolytic domain; Region: Haemolytic; cl00506 1196835013784 ribonuclease P; Reviewed; Region: rnpA; PRK00396