-- dump date 20140620_013916 -- class Genbank::misc_feature -- table misc_feature_note -- id note 96563000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 96563000002 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 96563000003 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 96563000004 Walker A motif; other site 96563000005 ATP binding site [chemical binding]; other site 96563000006 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 96563000007 Walker B motif; other site 96563000008 arginine finger; other site 96563000009 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 96563000010 DnaA box-binding interface [nucleotide binding]; other site 96563000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 96563000012 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 96563000013 putative DNA binding surface [nucleotide binding]; other site 96563000014 dimer interface [polypeptide binding]; other site 96563000015 beta-clamp/clamp loader binding surface; other site 96563000016 beta-clamp/translesion DNA polymerase binding surface; other site 96563000017 recombination protein F; Reviewed; Region: recF; PRK00064 96563000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563000019 Walker A/P-loop; other site 96563000020 ATP binding site [chemical binding]; other site 96563000021 Q-loop/lid; other site 96563000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563000023 ABC transporter signature motif; other site 96563000024 Walker B; other site 96563000025 D-loop; other site 96563000026 H-loop/switch region; other site 96563000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 96563000028 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 96563000029 ATP binding site [chemical binding]; other site 96563000030 Mg2+ binding site [ion binding]; other site 96563000031 G-X-G motif; other site 96563000032 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 96563000033 anchoring element; other site 96563000034 dimer interface [polypeptide binding]; other site 96563000035 ATP binding site [chemical binding]; other site 96563000036 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 96563000037 active site 96563000038 putative metal-binding site [ion binding]; other site 96563000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 96563000040 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 96563000041 HsdM N-terminal domain; Region: HsdM_N; pfam12161 96563000042 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 96563000043 putative transposase OrfB; Reviewed; Region: PHA02517 96563000044 HTH-like domain; Region: HTH_21; pfam13276 96563000045 Integrase core domain; Region: rve; pfam00665 96563000046 Integrase core domain; Region: rve_3; pfam13683 96563000047 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 96563000048 transposase/IS protein; Provisional; Region: PRK09183 96563000049 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 96563000050 Walker A motif; other site 96563000051 ATP binding site [chemical binding]; other site 96563000052 Walker B motif; other site 96563000053 arginine finger; other site 96563000054 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563000055 Integrase core domain; Region: rve; pfam00665 96563000056 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 96563000057 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 96563000058 catalytic residue [active] 96563000059 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 96563000060 catalytic residues [active] 96563000061 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 96563000062 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 96563000063 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 96563000064 heme-binding site [chemical binding]; other site 96563000065 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563000066 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563000067 metal binding site [ion binding]; metal-binding site 96563000068 active site 96563000069 I-site; other site 96563000070 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 96563000071 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 96563000072 putative acyl-acceptor binding pocket; other site 96563000073 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 96563000074 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 96563000075 active site 96563000076 motif I; other site 96563000077 motif II; other site 96563000078 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 96563000079 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 96563000080 HD domain; Region: HD; pfam01966 96563000081 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 96563000082 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 96563000083 dimer interface [polypeptide binding]; other site 96563000084 motif 1; other site 96563000085 active site 96563000086 motif 2; other site 96563000087 motif 3; other site 96563000088 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 96563000089 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 96563000090 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 96563000091 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 96563000092 putative acyl-acceptor binding pocket; other site 96563000093 PilZ domain; Region: PilZ; pfam07238 96563000094 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 96563000095 TPR motif; other site 96563000096 Tetratricopeptide repeat; Region: TPR_16; pfam13432 96563000097 binding surface 96563000098 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 96563000099 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 96563000100 Walker A/P-loop; other site 96563000101 ATP binding site [chemical binding]; other site 96563000102 Q-loop/lid; other site 96563000103 ABC transporter signature motif; other site 96563000104 Walker B; other site 96563000105 D-loop; other site 96563000106 H-loop/switch region; other site 96563000107 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 96563000108 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563000109 dimer interface [polypeptide binding]; other site 96563000110 conserved gate region; other site 96563000111 putative PBP binding loops; other site 96563000112 ABC-ATPase subunit interface; other site 96563000113 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 96563000114 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563000115 dimer interface [polypeptide binding]; other site 96563000116 conserved gate region; other site 96563000117 putative PBP binding loops; other site 96563000118 ABC-ATPase subunit interface; other site 96563000119 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 96563000120 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 96563000121 substrate binding pocket [chemical binding]; other site 96563000122 membrane-bound complex binding site; other site 96563000123 hinge residues; other site 96563000124 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 96563000125 TrkA-N domain; Region: TrkA_N; pfam02254 96563000126 TrkA-C domain; Region: TrkA_C; pfam02080 96563000127 TrkA-N domain; Region: TrkA_N; pfam02254 96563000128 TrkA-C domain; Region: TrkA_C; pfam02080 96563000129 16S rRNA methyltransferase B; Provisional; Region: PRK10901 96563000130 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 96563000131 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 96563000132 S-adenosylmethionine binding site [chemical binding]; other site 96563000133 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 96563000134 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 96563000135 putative active site [active] 96563000136 substrate binding site [chemical binding]; other site 96563000137 putative cosubstrate binding site; other site 96563000138 catalytic site [active] 96563000139 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 96563000140 substrate binding site [chemical binding]; other site 96563000141 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 96563000142 active site 96563000143 catalytic residues [active] 96563000144 metal binding site [ion binding]; metal-binding site 96563000145 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 96563000146 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 96563000147 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 96563000148 DNA protecting protein DprA; Region: dprA; TIGR00732 96563000149 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 96563000150 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 96563000151 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 96563000152 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 96563000153 NADP binding site [chemical binding]; other site 96563000154 dimer interface [polypeptide binding]; other site 96563000155 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 96563000156 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 96563000157 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 96563000158 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 96563000159 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 96563000160 shikimate binding site; other site 96563000161 NAD(P) binding site [chemical binding]; other site 96563000162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96563000163 NADH(P)-binding; Region: NAD_binding_10; pfam13460 96563000164 NAD(P) binding site [chemical binding]; other site 96563000165 active site 96563000166 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 96563000167 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 96563000168 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 96563000169 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 96563000170 N-terminal plug; other site 96563000171 ligand-binding site [chemical binding]; other site 96563000172 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 96563000173 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 96563000174 trehalose synthase, Pseudomonas stutzeri type; Region: TreS_stutzeri; TIGR02455 96563000175 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 96563000176 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 96563000177 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 96563000178 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563000179 dimer interface [polypeptide binding]; other site 96563000180 conserved gate region; other site 96563000181 ABC-ATPase subunit interface; other site 96563000182 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 96563000183 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 96563000184 Walker A/P-loop; other site 96563000185 ATP binding site [chemical binding]; other site 96563000186 Q-loop/lid; other site 96563000187 ABC transporter signature motif; other site 96563000188 Walker B; other site 96563000189 D-loop; other site 96563000190 H-loop/switch region; other site 96563000191 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 96563000192 hydroperoxidase II; Provisional; Region: katE; PRK11249 96563000193 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 96563000194 tetramer interface [polypeptide binding]; other site 96563000195 heme binding pocket [chemical binding]; other site 96563000196 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 96563000197 domain interactions; other site 96563000198 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 96563000199 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 96563000200 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 96563000201 ABC-ATPase subunit interface; other site 96563000202 dimer interface [polypeptide binding]; other site 96563000203 putative PBP binding regions; other site 96563000204 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 96563000205 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563000206 Walker A/P-loop; other site 96563000207 ATP binding site [chemical binding]; other site 96563000208 Q-loop/lid; other site 96563000209 ABC transporter signature motif; other site 96563000210 Walker B; other site 96563000211 D-loop; other site 96563000212 H-loop/switch region; other site 96563000213 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 96563000214 metal binding site 2 [ion binding]; metal-binding site 96563000215 putative DNA binding helix; other site 96563000216 metal binding site 1 [ion binding]; metal-binding site 96563000217 dimer interface [polypeptide binding]; other site 96563000218 structural Zn2+ binding site [ion binding]; other site 96563000219 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 96563000220 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 96563000221 metal binding site [ion binding]; metal-binding site 96563000222 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 96563000223 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 96563000224 inhibitor-cofactor binding pocket; inhibition site 96563000225 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563000226 catalytic residue [active] 96563000227 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 96563000228 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 96563000229 NAD(P) binding site [chemical binding]; other site 96563000230 catalytic residues [active] 96563000231 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 96563000232 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 96563000233 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 96563000234 DXD motif; other site 96563000235 HEAT repeats; Region: HEAT_2; pfam13646 96563000236 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 96563000237 TPR motif; other site 96563000238 TPR repeat; Region: TPR_11; pfam13414 96563000239 binding surface 96563000240 Response regulator receiver domain; Region: Response_reg; pfam00072 96563000241 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563000242 active site 96563000243 phosphorylation site [posttranslational modification] 96563000244 intermolecular recognition site; other site 96563000245 dimerization interface [polypeptide binding]; other site 96563000246 CHASE3 domain; Region: CHASE3; pfam05227 96563000247 PAS domain S-box; Region: sensory_box; TIGR00229 96563000248 PAS domain; Region: PAS; smart00091 96563000249 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96563000250 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 96563000251 dimer interface [polypeptide binding]; other site 96563000252 phosphorylation site [posttranslational modification] 96563000253 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 96563000254 ATP binding site [chemical binding]; other site 96563000255 Mg2+ binding site [ion binding]; other site 96563000256 G-X-G motif; other site 96563000257 Response regulator receiver domain; Region: Response_reg; pfam00072 96563000258 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563000259 active site 96563000260 phosphorylation site [posttranslational modification] 96563000261 intermolecular recognition site; other site 96563000262 dimerization interface [polypeptide binding]; other site 96563000263 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96563000264 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563000265 active site 96563000266 phosphorylation site [posttranslational modification] 96563000267 intermolecular recognition site; other site 96563000268 dimerization interface [polypeptide binding]; other site 96563000269 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 96563000270 putative binding surface; other site 96563000271 active site 96563000272 Response regulator receiver domain; Region: Response_reg; pfam00072 96563000273 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563000274 active site 96563000275 phosphorylation site [posttranslational modification] 96563000276 intermolecular recognition site; other site 96563000277 dimerization interface [polypeptide binding]; other site 96563000278 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563000279 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563000280 metal binding site [ion binding]; metal-binding site 96563000281 active site 96563000282 I-site; other site 96563000283 Response regulator receiver domain; Region: Response_reg; pfam00072 96563000284 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563000285 active site 96563000286 phosphorylation site [posttranslational modification] 96563000287 intermolecular recognition site; other site 96563000288 dimerization interface [polypeptide binding]; other site 96563000289 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 96563000290 GAF domain; Region: GAF; pfam01590 96563000291 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 96563000292 PAS domain; Region: PAS_9; pfam13426 96563000293 putative active site [active] 96563000294 heme pocket [chemical binding]; other site 96563000295 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 96563000296 PAS fold; Region: PAS_3; pfam08447 96563000297 putative active site [active] 96563000298 heme pocket [chemical binding]; other site 96563000299 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 96563000300 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 96563000301 putative active site [active] 96563000302 heme pocket [chemical binding]; other site 96563000303 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 96563000304 dimer interface [polypeptide binding]; other site 96563000305 phosphorylation site [posttranslational modification] 96563000306 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 96563000307 ATP binding site [chemical binding]; other site 96563000308 Mg2+ binding site [ion binding]; other site 96563000309 G-X-G motif; other site 96563000310 Response regulator receiver domain; Region: Response_reg; pfam00072 96563000311 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563000312 active site 96563000313 phosphorylation site [posttranslational modification] 96563000314 intermolecular recognition site; other site 96563000315 dimerization interface [polypeptide binding]; other site 96563000316 PAS fold; Region: PAS_3; pfam08447 96563000317 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 96563000318 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 96563000319 putative active site [active] 96563000320 heme pocket [chemical binding]; other site 96563000321 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 96563000322 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 96563000323 putative active site [active] 96563000324 heme pocket [chemical binding]; other site 96563000325 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 96563000326 ATP binding site [chemical binding]; other site 96563000327 Mg2+ binding site [ion binding]; other site 96563000328 G-X-G motif; other site 96563000329 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 96563000330 Fatty acid desaturase; Region: FA_desaturase; pfam00487 96563000331 Di-iron ligands [ion binding]; other site 96563000332 Transposase; Region: DDE_Tnp_ISL3; pfam01610 96563000333 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 96563000334 PAS fold; Region: PAS_3; pfam08447 96563000335 putative active site [active] 96563000336 heme pocket [chemical binding]; other site 96563000337 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563000338 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563000339 metal binding site [ion binding]; metal-binding site 96563000340 active site 96563000341 I-site; other site 96563000342 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 96563000343 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 96563000344 active site 96563000345 agmatine deiminase; Provisional; Region: PRK13551 96563000346 agmatine deiminase; Region: agmatine_aguA; TIGR03380 96563000347 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 96563000348 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 96563000349 putative active site; other site 96563000350 catalytic triad [active] 96563000351 putative dimer interface [polypeptide binding]; other site 96563000352 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96563000353 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96563000354 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 96563000355 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 96563000356 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 96563000357 Peptidase C26; Region: Peptidase_C26; pfam07722 96563000358 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 96563000359 catalytic triad [active] 96563000360 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 96563000361 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 96563000362 putative aminotransferase; Validated; Region: PRK07480 96563000363 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 96563000364 inhibitor-cofactor binding pocket; inhibition site 96563000365 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563000366 catalytic residue [active] 96563000367 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 96563000368 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 96563000369 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 96563000370 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 96563000371 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 96563000372 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563000373 Walker A/P-loop; other site 96563000374 ATP binding site [chemical binding]; other site 96563000375 Q-loop/lid; other site 96563000376 ABC transporter signature motif; other site 96563000377 Walker B; other site 96563000378 D-loop; other site 96563000379 H-loop/switch region; other site 96563000380 TOBE domain; Region: TOBE_2; pfam08402 96563000381 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563000382 dimer interface [polypeptide binding]; other site 96563000383 conserved gate region; other site 96563000384 putative PBP binding loops; other site 96563000385 ABC-ATPase subunit interface; other site 96563000386 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 96563000387 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563000388 dimer interface [polypeptide binding]; other site 96563000389 conserved gate region; other site 96563000390 putative PBP binding loops; other site 96563000391 ABC-ATPase subunit interface; other site 96563000392 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 96563000393 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 96563000394 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 96563000395 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 96563000396 DctM-like transporters; Region: DctM; pfam06808 96563000397 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 96563000398 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 96563000399 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 96563000400 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 96563000401 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 96563000402 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563000403 active site 96563000404 phosphorylation site [posttranslational modification] 96563000405 intermolecular recognition site; other site 96563000406 dimerization interface [polypeptide binding]; other site 96563000407 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 96563000408 Walker A motif; other site 96563000409 ATP binding site [chemical binding]; other site 96563000410 Walker B motif; other site 96563000411 arginine finger; other site 96563000412 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96563000413 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 96563000414 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 96563000415 dimer interface [polypeptide binding]; other site 96563000416 phosphorylation site [posttranslational modification] 96563000417 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 96563000418 ATP binding site [chemical binding]; other site 96563000419 G-X-G motif; other site 96563000420 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 96563000421 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 96563000422 NADP binding site [chemical binding]; other site 96563000423 active site 96563000424 putative substrate binding site [chemical binding]; other site 96563000425 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 96563000426 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 96563000427 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 96563000428 substrate binding site; other site 96563000429 tetramer interface; other site 96563000430 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 96563000431 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 96563000432 NAD binding site [chemical binding]; other site 96563000433 substrate binding site [chemical binding]; other site 96563000434 homodimer interface [polypeptide binding]; other site 96563000435 active site 96563000436 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 96563000437 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 96563000438 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 96563000439 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 96563000440 Walker A/P-loop; other site 96563000441 ATP binding site [chemical binding]; other site 96563000442 Q-loop/lid; other site 96563000443 ABC transporter signature motif; other site 96563000444 Walker B; other site 96563000445 D-loop; other site 96563000446 H-loop/switch region; other site 96563000447 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563000448 Walker A/P-loop; other site 96563000449 ATP binding site [chemical binding]; other site 96563000450 Q-loop/lid; other site 96563000451 ABC transporter signature motif; other site 96563000452 Walker B; other site 96563000453 D-loop; other site 96563000454 H-loop/switch region; other site 96563000455 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 96563000456 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 96563000457 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 96563000458 HlyD family secretion protein; Region: HlyD_3; pfam13437 96563000459 Protein of unknown function (DUF330); Region: DUF330; cl01135 96563000460 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 96563000461 mce related protein; Region: MCE; pfam02470 96563000462 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 96563000463 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563000464 Walker A/P-loop; other site 96563000465 ATP binding site [chemical binding]; other site 96563000466 Q-loop/lid; other site 96563000467 ABC transporter signature motif; other site 96563000468 Walker B; other site 96563000469 D-loop; other site 96563000470 H-loop/switch region; other site 96563000471 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 96563000472 Permease; Region: Permease; pfam02405 96563000473 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 96563000474 putative heme binding pocket [chemical binding]; other site 96563000475 IS2 transposase TnpB; Reviewed; Region: PRK09409 96563000476 HTH-like domain; Region: HTH_21; pfam13276 96563000477 Integrase core domain; Region: rve; pfam00665 96563000478 Integrase core domain; Region: rve_3; pfam13683 96563000479 Transposase; Region: HTH_Tnp_1; cl17663 96563000480 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 96563000481 Bacterial SH3 domain; Region: SH3_3; cl17532 96563000482 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 96563000483 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 96563000484 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 96563000485 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 96563000486 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 96563000487 Catalytic domain of Protein Kinases; Region: PKc; cd00180 96563000488 active site 96563000489 ATP binding site [chemical binding]; other site 96563000490 substrate binding site [chemical binding]; other site 96563000491 activation loop (A-loop); other site 96563000492 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 96563000493 active site 96563000494 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 96563000495 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 96563000496 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 96563000497 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 96563000498 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 96563000499 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 96563000500 phosphopeptide binding site; other site 96563000501 Transposase domain (DUF772); Region: DUF772; pfam05598 96563000502 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 96563000503 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 96563000504 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 96563000505 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 96563000506 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 96563000507 active site 96563000508 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 96563000509 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563000510 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 96563000511 dimerization interface [polypeptide binding]; other site 96563000512 substrate binding pocket [chemical binding]; other site 96563000513 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 96563000514 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 96563000515 substrate binding pocket [chemical binding]; other site 96563000516 membrane-bound complex binding site; other site 96563000517 hinge residues; other site 96563000518 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 96563000519 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563000520 dimer interface [polypeptide binding]; other site 96563000521 conserved gate region; other site 96563000522 putative PBP binding loops; other site 96563000523 ABC-ATPase subunit interface; other site 96563000524 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563000525 dimer interface [polypeptide binding]; other site 96563000526 conserved gate region; other site 96563000527 putative PBP binding loops; other site 96563000528 ABC-ATPase subunit interface; other site 96563000529 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 96563000530 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 96563000531 Walker A/P-loop; other site 96563000532 ATP binding site [chemical binding]; other site 96563000533 Q-loop/lid; other site 96563000534 ABC transporter signature motif; other site 96563000535 Walker B; other site 96563000536 D-loop; other site 96563000537 H-loop/switch region; other site 96563000538 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 96563000539 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 96563000540 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 96563000541 RES domain; Region: RES; cl02411 96563000542 Transposase; Region: HTH_Tnp_1; cl17663 96563000543 putative transposase OrfB; Reviewed; Region: PHA02517 96563000544 HTH-like domain; Region: HTH_21; pfam13276 96563000545 Integrase core domain; Region: rve; pfam00665 96563000546 Integrase core domain; Region: rve_3; pfam13683 96563000547 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 96563000548 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 96563000549 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 96563000550 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 96563000551 transposase/IS protein; Provisional; Region: PRK09183 96563000552 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 96563000553 Walker A motif; other site 96563000554 ATP binding site [chemical binding]; other site 96563000555 Walker B motif; other site 96563000556 arginine finger; other site 96563000557 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563000558 Integrase core domain; Region: rve; pfam00665 96563000559 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 96563000560 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 96563000561 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 96563000562 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 96563000563 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563000564 Walker A/P-loop; other site 96563000565 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 96563000566 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 96563000567 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 96563000568 Walker A motif; other site 96563000569 ATP binding site [chemical binding]; other site 96563000570 Walker B motif; other site 96563000571 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563000572 Integrase core domain; Region: rve; pfam00665 96563000573 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563000574 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 96563000575 G1 box; other site 96563000576 GTP/Mg2+ binding site [chemical binding]; other site 96563000577 G2 box; other site 96563000578 Switch I region; other site 96563000579 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 96563000580 G3 box; other site 96563000581 Switch II region; other site 96563000582 G4 box; other site 96563000583 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 96563000584 G1 box; other site 96563000585 GTP/Mg2+ binding site [chemical binding]; other site 96563000586 G2 box; other site 96563000587 Switch I region; other site 96563000588 Transposase domain (DUF772); Region: DUF772; pfam05598 96563000589 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 96563000590 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 96563000591 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 96563000592 G3 box; other site 96563000593 Switch II region; other site 96563000594 GTP/Mg2+ binding site [chemical binding]; other site 96563000595 G4 box; other site 96563000596 G5 box; other site 96563000597 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 96563000598 Cytochrome C' Region: Cytochrom_C_2; pfam01322 96563000599 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 96563000600 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 96563000601 tetramerization interface [polypeptide binding]; other site 96563000602 NAD(P) binding site [chemical binding]; other site 96563000603 catalytic residues [active] 96563000604 Response regulator receiver domain; Region: Response_reg; pfam00072 96563000605 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563000606 active site 96563000607 phosphorylation site [posttranslational modification] 96563000608 intermolecular recognition site; other site 96563000609 dimerization interface [polypeptide binding]; other site 96563000610 HDOD domain; Region: HDOD; pfam08668 96563000611 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 96563000612 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 96563000613 substrate binding site [chemical binding]; other site 96563000614 oxyanion hole (OAH) forming residues; other site 96563000615 trimer interface [polypeptide binding]; other site 96563000616 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 96563000617 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 96563000618 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 96563000619 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 96563000620 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 96563000621 FAD binding site [chemical binding]; other site 96563000622 substrate binding site [chemical binding]; other site 96563000623 catalytic base [active] 96563000624 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 96563000625 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 96563000626 active site 96563000627 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 96563000628 Major Facilitator Superfamily; Region: MFS_1; pfam07690 96563000629 putative substrate translocation pore; other site 96563000630 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 96563000631 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 96563000632 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96563000633 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96563000634 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 96563000635 Transcriptional regulator [Transcription]; Region: IclR; COG1414 96563000636 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 96563000637 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 96563000638 acyl-activating enzyme (AAE) consensus motif; other site 96563000639 putative AMP binding site [chemical binding]; other site 96563000640 putative active site [active] 96563000641 putative CoA binding site [chemical binding]; other site 96563000642 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 96563000643 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 96563000644 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 96563000645 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 96563000646 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 96563000647 active site 96563000648 dimer interface [polypeptide binding]; other site 96563000649 effector binding site; other site 96563000650 TSCPD domain; Region: TSCPD; pfam12637 96563000651 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 96563000652 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 96563000653 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 96563000654 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 96563000655 putative active site [active] 96563000656 putative substrate binding site [chemical binding]; other site 96563000657 ATP binding site [chemical binding]; other site 96563000658 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 96563000659 DNA polymerase I; Provisional; Region: PRK05755 96563000660 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 96563000661 active site 96563000662 metal binding site 1 [ion binding]; metal-binding site 96563000663 putative 5' ssDNA interaction site; other site 96563000664 metal binding site 3; metal-binding site 96563000665 metal binding site 2 [ion binding]; metal-binding site 96563000666 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 96563000667 putative DNA binding site [nucleotide binding]; other site 96563000668 putative metal binding site [ion binding]; other site 96563000669 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 96563000670 active site 96563000671 catalytic site [active] 96563000672 substrate binding site [chemical binding]; other site 96563000673 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 96563000674 active site 96563000675 DNA binding site [nucleotide binding] 96563000676 catalytic site [active] 96563000677 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 96563000678 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 96563000679 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 96563000680 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 96563000681 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 96563000682 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 96563000683 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 96563000684 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 96563000685 conserverd hypothetical protein; Region: TIGR02448 96563000686 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 96563000687 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 96563000688 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 96563000689 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563000690 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 96563000691 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 96563000692 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 96563000693 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 96563000694 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 96563000695 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 96563000696 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 96563000697 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 96563000698 ligand binding site [chemical binding]; other site 96563000699 homodimer interface [polypeptide binding]; other site 96563000700 NAD(P) binding site [chemical binding]; other site 96563000701 trimer interface B [polypeptide binding]; other site 96563000702 trimer interface A [polypeptide binding]; other site 96563000703 type II secretion system protein E; Region: type_II_gspE; TIGR02533 96563000704 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 96563000705 Walker A motif; other site 96563000706 ATP binding site [chemical binding]; other site 96563000707 Walker B motif; other site 96563000708 type II secretion system protein F; Region: GspF; TIGR02120 96563000709 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 96563000710 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 96563000711 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 96563000712 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 96563000713 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 96563000714 type II secretion system protein I; Region: gspI; TIGR01707 96563000715 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 96563000716 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 96563000717 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 96563000718 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 96563000719 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 96563000720 GspL periplasmic domain; Region: GspL_C; pfam12693 96563000721 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 96563000722 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 96563000723 putative deacylase active site [active] 96563000724 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 96563000725 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 96563000726 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 96563000727 generic binding surface II; other site 96563000728 ssDNA binding site; other site 96563000729 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 96563000730 ATP binding site [chemical binding]; other site 96563000731 putative Mg++ binding site [ion binding]; other site 96563000732 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 96563000733 nucleotide binding region [chemical binding]; other site 96563000734 ATP-binding site [chemical binding]; other site 96563000735 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 96563000736 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563000737 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 96563000738 dimerization interface [polypeptide binding]; other site 96563000739 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 96563000740 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 96563000741 putative NAD(P) binding site [chemical binding]; other site 96563000742 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 96563000743 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 96563000744 NAD binding site [chemical binding]; other site 96563000745 catalytic Zn binding site [ion binding]; other site 96563000746 structural Zn binding site [ion binding]; other site 96563000747 Predicted permeases [General function prediction only]; Region: COG0679 96563000748 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 96563000749 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 96563000750 S-adenosylmethionine binding site [chemical binding]; other site 96563000751 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 96563000752 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96563000753 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 96563000754 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 96563000755 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 96563000756 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 96563000757 putative active site [active] 96563000758 heme pocket [chemical binding]; other site 96563000759 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 96563000760 dimer interface [polypeptide binding]; other site 96563000761 phosphorylation site [posttranslational modification] 96563000762 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 96563000763 ATP binding site [chemical binding]; other site 96563000764 Mg2+ binding site [ion binding]; other site 96563000765 G-X-G motif; other site 96563000766 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96563000767 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563000768 active site 96563000769 phosphorylation site [posttranslational modification] 96563000770 intermolecular recognition site; other site 96563000771 dimerization interface [polypeptide binding]; other site 96563000772 Response regulator receiver domain; Region: Response_reg; pfam00072 96563000773 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563000774 active site 96563000775 phosphorylation site [posttranslational modification] 96563000776 intermolecular recognition site; other site 96563000777 dimerization interface [polypeptide binding]; other site 96563000778 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 96563000779 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 96563000780 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 96563000781 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 96563000782 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 96563000783 N-terminal plug; other site 96563000784 ligand-binding site [chemical binding]; other site 96563000785 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 96563000786 SnoaL-like domain; Region: SnoaL_3; pfam13474 96563000787 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 96563000788 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 96563000789 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 96563000790 DNA binding residues [nucleotide binding] 96563000791 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 96563000792 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563000793 active site 96563000794 phosphorylation site [posttranslational modification] 96563000795 intermolecular recognition site; other site 96563000796 dimerization interface [polypeptide binding]; other site 96563000797 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 96563000798 Walker A motif; other site 96563000799 ATP binding site [chemical binding]; other site 96563000800 Walker B motif; other site 96563000801 arginine finger; other site 96563000802 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96563000803 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 96563000804 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 96563000805 dimer interface [polypeptide binding]; other site 96563000806 phosphorylation site [posttranslational modification] 96563000807 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 96563000808 ATP binding site [chemical binding]; other site 96563000809 Mg2+ binding site [ion binding]; other site 96563000810 G-X-G motif; other site 96563000811 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 96563000812 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 96563000813 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96563000814 Zn2+ binding site [ion binding]; other site 96563000815 Mg2+ binding site [ion binding]; other site 96563000816 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 96563000817 Ligand Binding Site [chemical binding]; other site 96563000818 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 96563000819 Ligand Binding Site [chemical binding]; other site 96563000820 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 96563000821 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 96563000822 S-adenosylmethionine binding site [chemical binding]; other site 96563000823 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 96563000824 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 96563000825 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 96563000826 G1 box; other site 96563000827 putative GEF interaction site [polypeptide binding]; other site 96563000828 GTP/Mg2+ binding site [chemical binding]; other site 96563000829 Switch I region; other site 96563000830 G2 box; other site 96563000831 G3 box; other site 96563000832 Switch II region; other site 96563000833 G4 box; other site 96563000834 G5 box; other site 96563000835 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 96563000836 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 96563000837 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 96563000838 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 96563000839 selenocysteine synthase; Provisional; Region: PRK04311 96563000840 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 96563000841 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 96563000842 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 96563000843 catalytic residue [active] 96563000844 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 96563000845 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 96563000846 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 96563000847 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 96563000848 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 96563000849 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 96563000850 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 96563000851 molybdopterin cofactor binding site; other site 96563000852 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 96563000853 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 96563000854 molybdopterin cofactor binding site; other site 96563000855 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 96563000856 Cupin; Region: Cupin_6; pfam12852 96563000857 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563000858 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 96563000859 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563000860 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 96563000861 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 96563000862 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 96563000863 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 96563000864 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 96563000865 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 96563000866 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 96563000867 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 96563000868 Part of AAA domain; Region: AAA_19; pfam13245 96563000869 Family description; Region: UvrD_C_2; pfam13538 96563000870 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 96563000871 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 96563000872 putative active site [active] 96563000873 heme pocket [chemical binding]; other site 96563000874 RNase II stability modulator; Provisional; Region: PRK10060 96563000875 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 96563000876 putative active site [active] 96563000877 heme pocket [chemical binding]; other site 96563000878 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563000879 metal binding site [ion binding]; metal-binding site 96563000880 active site 96563000881 I-site; other site 96563000882 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 96563000883 putative protease; Provisional; Region: PRK15452 96563000884 Peptidase family U32; Region: Peptidase_U32; pfam01136 96563000885 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 96563000886 aspartate kinase; Validated; Region: PRK09181 96563000887 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 96563000888 nucleotide binding site [chemical binding]; other site 96563000889 substrate binding site [chemical binding]; other site 96563000890 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 96563000891 allosteric regulatory residue; other site 96563000892 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 96563000893 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 96563000894 Ectoine synthase; Region: Ectoine_synth; pfam06339 96563000895 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 96563000896 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 96563000897 inhibitor-cofactor binding pocket; inhibition site 96563000898 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563000899 catalytic residue [active] 96563000900 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96563000901 Coenzyme A binding pocket [chemical binding]; other site 96563000902 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 96563000903 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 96563000904 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 96563000905 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 96563000906 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 96563000907 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 96563000908 putative active site [active] 96563000909 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563000910 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563000911 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 96563000912 putative dimerization interface [polypeptide binding]; other site 96563000913 pyruvate carboxylase subunit A; Validated; Region: PRK07178 96563000914 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 96563000915 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 96563000916 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 96563000917 pyruvate carboxylase subunit B; Validated; Region: PRK09282 96563000918 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 96563000919 active site 96563000920 catalytic residues [active] 96563000921 metal binding site [ion binding]; metal-binding site 96563000922 homodimer binding site [polypeptide binding]; other site 96563000923 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 96563000924 carboxyltransferase (CT) interaction site; other site 96563000925 biotinylation site [posttranslational modification]; other site 96563000926 Domain of unknown function (DUF897); Region: DUF897; cl01312 96563000927 glutaminase; Provisional; Region: PRK00971 96563000928 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 96563000929 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 96563000930 active site clefts [active] 96563000931 zinc binding site [ion binding]; other site 96563000932 dimer interface [polypeptide binding]; other site 96563000933 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 96563000934 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 96563000935 active site 96563000936 homodimer interface [polypeptide binding]; other site 96563000937 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 96563000938 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 96563000939 Helix-turn-helix domain; Region: HTH_19; pfam12844 96563000940 non-specific DNA binding site [nucleotide binding]; other site 96563000941 salt bridge; other site 96563000942 sequence-specific DNA binding site [nucleotide binding]; other site 96563000943 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 96563000944 Aspartase; Region: Aspartase; cd01357 96563000945 active sites [active] 96563000946 tetramer interface [polypeptide binding]; other site 96563000947 cell density-dependent motility repressor; Provisional; Region: PRK10082 96563000948 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563000949 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 96563000950 dimerization interface [polypeptide binding]; other site 96563000951 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 96563000952 Subfamily of fatty acid CoA ligase (FACL) similar to Fum10p of Gibberella moniliformis; Region: FACL_fum10p_like; cd05926 96563000953 acyl-activating enzyme (AAE) consensus motif; other site 96563000954 putative AMP binding site [chemical binding]; other site 96563000955 putative active site [active] 96563000956 putative CoA binding site [chemical binding]; other site 96563000957 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 96563000958 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 96563000959 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 96563000960 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 96563000961 dimer interface [polypeptide binding]; other site 96563000962 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 96563000963 active site 96563000964 Fe binding site [ion binding]; other site 96563000965 Cache domain; Region: Cache_1; pfam02743 96563000966 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 96563000967 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 96563000968 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 96563000969 putative active site [active] 96563000970 heme pocket [chemical binding]; other site 96563000971 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 96563000972 dimer interface [polypeptide binding]; other site 96563000973 phosphorylation site [posttranslational modification] 96563000974 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 96563000975 ATP binding site [chemical binding]; other site 96563000976 Mg2+ binding site [ion binding]; other site 96563000977 G-X-G motif; other site 96563000978 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 96563000979 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 96563000980 ATP-grasp domain; Region: ATP-grasp; pfam02222 96563000981 Predicted membrane protein [Function unknown]; Region: COG2261 96563000982 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 96563000983 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 96563000984 active site 96563000985 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 96563000986 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 96563000987 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 96563000988 putative ligand binding site [chemical binding]; other site 96563000989 putative NAD binding site [chemical binding]; other site 96563000990 catalytic site [active] 96563000991 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 96563000992 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 96563000993 Walker A/P-loop; other site 96563000994 ATP binding site [chemical binding]; other site 96563000995 Q-loop/lid; other site 96563000996 ABC transporter signature motif; other site 96563000997 Walker B; other site 96563000998 D-loop; other site 96563000999 H-loop/switch region; other site 96563001000 TOBE-like domain; Region: TOBE_3; pfam12857 96563001001 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563001002 dimer interface [polypeptide binding]; other site 96563001003 conserved gate region; other site 96563001004 putative PBP binding loops; other site 96563001005 ABC-ATPase subunit interface; other site 96563001006 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 96563001007 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563001008 dimer interface [polypeptide binding]; other site 96563001009 conserved gate region; other site 96563001010 putative PBP binding loops; other site 96563001011 ABC-ATPase subunit interface; other site 96563001012 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 96563001013 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 96563001014 substrate binding pocket [chemical binding]; other site 96563001015 membrane-bound complex binding site; other site 96563001016 hinge residues; other site 96563001017 Uncharacterized small protein [Function unknown]; Region: COG5583 96563001018 Serine hydrolase; Region: Ser_hydrolase; pfam06821 96563001019 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 96563001020 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 96563001021 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 96563001022 dimer interface [polypeptide binding]; other site 96563001023 decamer (pentamer of dimers) interface [polypeptide binding]; other site 96563001024 catalytic triad [active] 96563001025 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 96563001026 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 96563001027 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 96563001028 Mrr N-terminal domain; Region: Mrr_N; pfam14338 96563001029 Restriction endonuclease; Region: Mrr_cat; pfam04471 96563001030 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 96563001031 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 96563001032 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 96563001033 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 96563001034 HsdM N-terminal domain; Region: HsdM_N; pfam12161 96563001035 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 96563001036 S-adenosylmethionine binding site [chemical binding]; other site 96563001037 RloB-like protein; Region: RloB; pfam13707 96563001038 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563001039 AAA domain; Region: AAA_21; pfam13304 96563001040 Walker A/P-loop; other site 96563001041 ATP binding site [chemical binding]; other site 96563001042 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 96563001043 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 96563001044 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 96563001045 ATP binding site [chemical binding]; other site 96563001046 putative Mg++ binding site [ion binding]; other site 96563001047 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 96563001048 nucleotide binding region [chemical binding]; other site 96563001049 ATP-binding site [chemical binding]; other site 96563001050 Methyltransferase domain; Region: Methyltransf_32; pfam13679 96563001051 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 96563001052 DctM-like transporters; Region: DctM; pfam06808 96563001053 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 96563001054 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 96563001055 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 96563001056 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 96563001057 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 96563001058 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 96563001059 PAS domain S-box; Region: sensory_box; TIGR00229 96563001060 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 96563001061 putative active site [active] 96563001062 heme pocket [chemical binding]; other site 96563001063 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 96563001064 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 96563001065 putative active site [active] 96563001066 heme pocket [chemical binding]; other site 96563001067 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 96563001068 putative active site [active] 96563001069 heme pocket [chemical binding]; other site 96563001070 PAS fold; Region: PAS_3; pfam08447 96563001071 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 96563001072 GAF domain; Region: GAF; pfam01590 96563001073 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 96563001074 PAS domain; Region: PAS_9; pfam13426 96563001075 putative active site [active] 96563001076 heme pocket [chemical binding]; other site 96563001077 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 96563001078 dimer interface [polypeptide binding]; other site 96563001079 phosphorylation site [posttranslational modification] 96563001080 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 96563001081 ATP binding site [chemical binding]; other site 96563001082 Mg2+ binding site [ion binding]; other site 96563001083 G-X-G motif; other site 96563001084 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96563001085 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563001086 active site 96563001087 phosphorylation site [posttranslational modification] 96563001088 intermolecular recognition site; other site 96563001089 dimerization interface [polypeptide binding]; other site 96563001090 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 96563001091 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 96563001092 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 96563001093 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 96563001094 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 96563001095 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 96563001096 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 96563001097 Walker A motif; other site 96563001098 ATP binding site [chemical binding]; other site 96563001099 Walker B motif; other site 96563001100 Uncharacterized conserved protein [Function unknown]; Region: COG3025 96563001101 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 96563001102 putative active site [active] 96563001103 putative metal binding residues [ion binding]; other site 96563001104 signature motif; other site 96563001105 putative triphosphate binding site [ion binding]; other site 96563001106 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 96563001107 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 96563001108 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 96563001109 acetylornithine deacetylase; Provisional; Region: PRK05111 96563001110 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 96563001111 metal binding site [ion binding]; metal-binding site 96563001112 putative dimer interface [polypeptide binding]; other site 96563001113 N-acetylglutamate synthase; Validated; Region: PRK05279 96563001114 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 96563001115 putative feedback inhibition sensing region; other site 96563001116 putative nucleotide binding site [chemical binding]; other site 96563001117 putative substrate binding site [chemical binding]; other site 96563001118 N-acetylglutamate synthase and related acetyltransferases [Amino acid transport and metabolism]; Region: ArgA; COG1246 96563001119 glutamate--cysteine ligase; Provisional; Region: PRK02107 96563001120 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 96563001121 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 96563001122 CoenzymeA binding site [chemical binding]; other site 96563001123 subunit interaction site [polypeptide binding]; other site 96563001124 PHB binding site; other site 96563001125 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 96563001126 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 96563001127 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 96563001128 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 96563001129 RNA binding site [nucleotide binding]; other site 96563001130 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 96563001131 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 96563001132 binding surface 96563001133 TPR motif; other site 96563001134 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 96563001135 binding surface 96563001136 TPR motif; other site 96563001137 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 96563001138 cellulose synthase regulator protein; Provisional; Region: PRK11114 96563001139 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 96563001140 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 96563001141 DXD motif; other site 96563001142 PilZ domain; Region: PilZ; pfam07238 96563001143 YhjQ protein; Region: YhjQ; pfam06564 96563001144 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 96563001145 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 96563001146 Protein of unknown function (DUF3260); Region: DUF3260; pfam11658 96563001147 Protein of unknown function (DUF2636); Region: DUF2636; cl11897 96563001148 Protein of unknown function (DUF2819); Region: DUF2819; pfam10995 96563001149 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 96563001150 osmolarity response regulator; Provisional; Region: ompR; PRK09468 96563001151 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563001152 active site 96563001153 phosphorylation site [posttranslational modification] 96563001154 intermolecular recognition site; other site 96563001155 dimerization interface [polypeptide binding]; other site 96563001156 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 96563001157 DNA binding site [nucleotide binding] 96563001158 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 96563001159 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 96563001160 dimerization interface [polypeptide binding]; other site 96563001161 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 96563001162 ATP binding site [chemical binding]; other site 96563001163 Mg2+ binding site [ion binding]; other site 96563001164 G-X-G motif; other site 96563001165 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 96563001166 RimK-like ATP-grasp domain; Region: RimK; pfam08443 96563001167 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 96563001168 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 96563001169 RNA binding surface [nucleotide binding]; other site 96563001170 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 96563001171 active site 96563001172 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 96563001173 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 96563001174 dimerization interface [polypeptide binding]; other site 96563001175 domain crossover interface; other site 96563001176 redox-dependent activation switch; other site 96563001177 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 96563001178 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 96563001179 active site 96563001180 substrate-binding site [chemical binding]; other site 96563001181 metal-binding site [ion binding] 96563001182 ATP binding site [chemical binding]; other site 96563001183 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 96563001184 dimer interface [polypeptide binding]; other site 96563001185 FMN binding site [chemical binding]; other site 96563001186 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 96563001187 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 96563001188 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 96563001189 ATP binding site [chemical binding]; other site 96563001190 putative Mg++ binding site [ion binding]; other site 96563001191 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 96563001192 nucleotide binding region [chemical binding]; other site 96563001193 ATP-binding site [chemical binding]; other site 96563001194 FIST N domain; Region: FIST; smart00897 96563001195 FIST C domain; Region: FIST_C; pfam10442 96563001196 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563001197 dimer interface [polypeptide binding]; other site 96563001198 putative CheW interface [polypeptide binding]; other site 96563001199 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 96563001200 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 96563001201 dimerization interface [polypeptide binding]; other site 96563001202 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96563001203 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563001204 dimer interface [polypeptide binding]; other site 96563001205 putative CheW interface [polypeptide binding]; other site 96563001206 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 96563001207 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 96563001208 active site 96563001209 catalytic tetrad [active] 96563001210 TLC ATP/ADP transporter; Region: TLC; cl03940 96563001211 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 96563001212 30S subunit binding site; other site 96563001213 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; cl11399 96563001214 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 96563001215 active site 96563001216 catalytic residues [active] 96563001217 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 96563001218 dimer interface [polypeptide binding]; other site 96563001219 phosphorylation site [posttranslational modification] 96563001220 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 96563001221 ATP binding site [chemical binding]; other site 96563001222 Mg2+ binding site [ion binding]; other site 96563001223 G-X-G motif; other site 96563001224 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 96563001225 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 96563001226 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 96563001227 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 96563001228 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 96563001229 ATP binding site [chemical binding]; other site 96563001230 Mg2+ binding site [ion binding]; other site 96563001231 G-X-G motif; other site 96563001232 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 96563001233 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 96563001234 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 96563001235 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563001236 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563001237 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 96563001238 dimerization interface [polypeptide binding]; other site 96563001239 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 96563001240 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 96563001241 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 96563001242 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 96563001243 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 96563001244 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 96563001245 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96563001246 active site 96563001247 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 96563001248 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 96563001249 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 96563001250 putative active site [active] 96563001251 metal binding site [ion binding]; metal-binding site 96563001252 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 96563001253 active site 96563001254 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 96563001255 PAS fold; Region: PAS; pfam00989 96563001256 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 96563001257 heme pocket [chemical binding]; other site 96563001258 putative active site [active] 96563001259 PAS fold; Region: PAS_4; pfam08448 96563001260 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 96563001261 putative active site [active] 96563001262 heme pocket [chemical binding]; other site 96563001263 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 96563001264 dimer interface [polypeptide binding]; other site 96563001265 phosphorylation site [posttranslational modification] 96563001266 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 96563001267 ATP binding site [chemical binding]; other site 96563001268 Mg2+ binding site [ion binding]; other site 96563001269 G-X-G motif; other site 96563001270 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96563001271 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563001272 active site 96563001273 phosphorylation site [posttranslational modification] 96563001274 intermolecular recognition site; other site 96563001275 dimerization interface [polypeptide binding]; other site 96563001276 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 96563001277 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 96563001278 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 96563001279 motif II; other site 96563001280 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 96563001281 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 96563001282 dimer interface [polypeptide binding]; other site 96563001283 ADP-ribose binding site [chemical binding]; other site 96563001284 active site 96563001285 nudix motif; other site 96563001286 metal binding site [ion binding]; metal-binding site 96563001287 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 96563001288 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 96563001289 active site 96563001290 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 96563001291 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 96563001292 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 96563001293 homodimer interface [polypeptide binding]; other site 96563001294 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 96563001295 active site pocket [active] 96563001296 fructose-1,6-bisphosphatase family protein; Region: PLN02628 96563001297 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 96563001298 AMP binding site [chemical binding]; other site 96563001299 metal binding site [ion binding]; metal-binding site 96563001300 active site 96563001301 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 96563001302 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 96563001303 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 96563001304 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 96563001305 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 96563001306 TAP-like protein; Region: Abhydrolase_4; pfam08386 96563001307 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 96563001308 putative active site [active] 96563001309 dimerization interface [polypeptide binding]; other site 96563001310 putative tRNAtyr binding site [nucleotide binding]; other site 96563001311 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 96563001312 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 96563001313 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 96563001314 sec-independent translocase; Provisional; Region: tatB; PRK00404 96563001315 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 96563001316 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 96563001317 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 96563001318 metal binding site [ion binding]; metal-binding site 96563001319 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 96563001320 ABC1 family; Region: ABC1; cl17513 96563001321 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 96563001322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 96563001323 SCP-2 sterol transfer family; Region: SCP2; pfam02036 96563001324 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 96563001325 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 96563001326 S-adenosylmethionine binding site [chemical binding]; other site 96563001327 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; pfam09650 96563001328 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 96563001329 dimerization interface [polypeptide binding]; other site 96563001330 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96563001331 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563001332 dimer interface [polypeptide binding]; other site 96563001333 putative CheW interface [polypeptide binding]; other site 96563001334 Protein of unknown function (DUF971); Region: DUF971; pfam06155 96563001335 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 96563001336 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 96563001337 Walker A motif; other site 96563001338 ATP binding site [chemical binding]; other site 96563001339 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 96563001340 Walker B motif; other site 96563001341 arginine finger; other site 96563001342 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 96563001343 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 96563001344 active site 96563001345 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 96563001346 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 96563001347 putative molybdopterin cofactor binding site [chemical binding]; other site 96563001348 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 96563001349 putative molybdopterin cofactor binding site; other site 96563001350 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 96563001351 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 96563001352 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563001353 active site 96563001354 phosphorylation site [posttranslational modification] 96563001355 intermolecular recognition site; other site 96563001356 dimerization interface [polypeptide binding]; other site 96563001357 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 96563001358 Walker A motif; other site 96563001359 ATP binding site [chemical binding]; other site 96563001360 Walker B motif; other site 96563001361 arginine finger; other site 96563001362 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96563001363 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 96563001364 PAS domain; Region: PAS; smart00091 96563001365 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 96563001366 dimer interface [polypeptide binding]; other site 96563001367 phosphorylation site [posttranslational modification] 96563001368 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 96563001369 ATP binding site [chemical binding]; other site 96563001370 Mg2+ binding site [ion binding]; other site 96563001371 G-X-G motif; other site 96563001372 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 96563001373 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 96563001374 glutamine synthetase; Provisional; Region: glnA; PRK09469 96563001375 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 96563001376 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 96563001377 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 96563001378 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 96563001379 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 96563001380 Ligand Binding Site [chemical binding]; other site 96563001381 thiazole biosynthesis domain; Region: ThiI_C_thiazole; TIGR04271 96563001382 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 96563001383 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 96563001384 G1 box; other site 96563001385 putative GEF interaction site [polypeptide binding]; other site 96563001386 GTP/Mg2+ binding site [chemical binding]; other site 96563001387 Switch I region; other site 96563001388 G2 box; other site 96563001389 G3 box; other site 96563001390 Switch II region; other site 96563001391 G4 box; other site 96563001392 G5 box; other site 96563001393 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 96563001394 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 96563001395 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96563001396 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563001397 dimer interface [polypeptide binding]; other site 96563001398 putative CheW interface [polypeptide binding]; other site 96563001399 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 96563001400 sensory histidine kinase DcuS; Provisional; Region: PRK11086 96563001401 PAS domain; Region: PAS; smart00091 96563001402 putative active site [active] 96563001403 heme pocket [chemical binding]; other site 96563001404 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 96563001405 ATP binding site [chemical binding]; other site 96563001406 Mg2+ binding site [ion binding]; other site 96563001407 G-X-G motif; other site 96563001408 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 96563001409 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563001410 active site 96563001411 phosphorylation site [posttranslational modification] 96563001412 intermolecular recognition site; other site 96563001413 dimerization interface [polypeptide binding]; other site 96563001414 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 96563001415 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 96563001416 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 96563001417 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 96563001418 dimerization interface [polypeptide binding]; other site 96563001419 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96563001420 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 96563001421 phosphorylation site [posttranslational modification] 96563001422 dimer interface [polypeptide binding]; other site 96563001423 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 96563001424 ATP binding site [chemical binding]; other site 96563001425 Mg2+ binding site [ion binding]; other site 96563001426 G-X-G motif; other site 96563001427 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 96563001428 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563001429 active site 96563001430 phosphorylation site [posttranslational modification] 96563001431 intermolecular recognition site; other site 96563001432 dimerization interface [polypeptide binding]; other site 96563001433 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 96563001434 Walker A motif; other site 96563001435 ATP binding site [chemical binding]; other site 96563001436 Walker B motif; other site 96563001437 arginine finger; other site 96563001438 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 96563001439 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 96563001440 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 96563001441 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 96563001442 Cytochrome c; Region: Cytochrom_C; cl11414 96563001443 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 96563001444 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563001445 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563001446 metal binding site [ion binding]; metal-binding site 96563001447 active site 96563001448 I-site; other site 96563001449 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 96563001450 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 96563001451 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 96563001452 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 96563001453 active site 96563001454 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 96563001455 short chain dehydrogenase; Provisional; Region: PRK06181 96563001456 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 96563001457 putative NAD(P) binding site [chemical binding]; other site 96563001458 active site 96563001459 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 96563001460 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 96563001461 DTAP/Switch II; other site 96563001462 Switch I; other site 96563001463 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 96563001464 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 96563001465 Carbon starvation protein CstA; Region: CstA; pfam02554 96563001466 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 96563001467 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 96563001468 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 96563001469 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 96563001470 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 96563001471 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 96563001472 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 96563001473 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 96563001474 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 96563001475 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 96563001476 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 96563001477 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 96563001478 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 96563001479 dimer interface [polypeptide binding]; other site 96563001480 phosphorylation site [posttranslational modification] 96563001481 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 96563001482 ATP binding site [chemical binding]; other site 96563001483 Mg2+ binding site [ion binding]; other site 96563001484 G-X-G motif; other site 96563001485 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 96563001486 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563001487 active site 96563001488 phosphorylation site [posttranslational modification] 96563001489 intermolecular recognition site; other site 96563001490 dimerization interface [polypeptide binding]; other site 96563001491 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 96563001492 DNA binding site [nucleotide binding] 96563001493 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 96563001494 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 96563001495 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 96563001496 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 96563001497 Curlin associated repeat; Region: Curlin_rpt; pfam07012 96563001498 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 96563001499 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 96563001500 DNA binding residues [nucleotide binding] 96563001501 dimerization interface [polypeptide binding]; other site 96563001502 OPT oligopeptide transporter protein; Region: OPT; cl14607 96563001503 OPT oligopeptide transporter protein; Region: OPT; cl14607 96563001504 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 96563001505 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 96563001506 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 96563001507 ligand binding site [chemical binding]; other site 96563001508 NAD binding site [chemical binding]; other site 96563001509 tetramer interface [polypeptide binding]; other site 96563001510 catalytic site [active] 96563001511 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 96563001512 L-serine binding site [chemical binding]; other site 96563001513 ACT domain interface; other site 96563001514 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 96563001515 FAD binding domain; Region: FAD_binding_4; pfam01565 96563001516 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 96563001517 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 96563001518 SdiA-regulated; Region: SdiA-regulated; pfam06977 96563001519 SdiA-regulated; Region: SdiA-regulated; cd09971 96563001520 putative active site [active] 96563001521 SdiA-regulated; Region: SdiA-regulated; pfam06977 96563001522 SdiA-regulated; Region: SdiA-regulated; cd09971 96563001523 putative active site [active] 96563001524 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 96563001525 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 96563001526 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 96563001527 tetramer (dimer of dimers) interface [polypeptide binding]; other site 96563001528 active site 96563001529 dimer interface [polypeptide binding]; other site 96563001530 threonine dehydratase; Reviewed; Region: PRK09224 96563001531 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 96563001532 tetramer interface [polypeptide binding]; other site 96563001533 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563001534 catalytic residue [active] 96563001535 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 96563001536 putative Ile/Val binding site [chemical binding]; other site 96563001537 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 96563001538 putative Ile/Val binding site [chemical binding]; other site 96563001539 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 96563001540 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 96563001541 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 96563001542 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 96563001543 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 96563001544 putative active site [active] 96563001545 Ap4A binding site [chemical binding]; other site 96563001546 nudix motif; other site 96563001547 putative metal binding site [ion binding]; other site 96563001548 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 96563001549 GAF domain; Region: GAF; pfam01590 96563001550 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 96563001551 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 96563001552 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 96563001553 NRDE protein; Region: NRDE; cl01315 96563001554 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 96563001555 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 96563001556 thymidylate synthase; Reviewed; Region: thyA; PRK01827 96563001557 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 96563001558 dimerization interface [polypeptide binding]; other site 96563001559 active site 96563001560 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 96563001561 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 96563001562 P-loop; other site 96563001563 Magnesium ion binding site [ion binding]; other site 96563001564 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 96563001565 Magnesium ion binding site [ion binding]; other site 96563001566 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 96563001567 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 96563001568 TM-ABC transporter signature motif; other site 96563001569 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 96563001570 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 96563001571 TM-ABC transporter signature motif; other site 96563001572 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 96563001573 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 96563001574 Walker A/P-loop; other site 96563001575 ATP binding site [chemical binding]; other site 96563001576 Q-loop/lid; other site 96563001577 ABC transporter signature motif; other site 96563001578 Walker B; other site 96563001579 D-loop; other site 96563001580 H-loop/switch region; other site 96563001581 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 96563001582 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 96563001583 Walker A/P-loop; other site 96563001584 ATP binding site [chemical binding]; other site 96563001585 Q-loop/lid; other site 96563001586 ABC transporter signature motif; other site 96563001587 Walker B; other site 96563001588 D-loop; other site 96563001589 H-loop/switch region; other site 96563001590 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 96563001591 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 96563001592 putative ligand binding site [chemical binding]; other site 96563001593 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 96563001594 Ligand Binding Site [chemical binding]; other site 96563001595 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 96563001596 Ligand Binding Site [chemical binding]; other site 96563001597 Response regulator receiver domain; Region: Response_reg; pfam00072 96563001598 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563001599 active site 96563001600 phosphorylation site [posttranslational modification] 96563001601 intermolecular recognition site; other site 96563001602 dimerization interface [polypeptide binding]; other site 96563001603 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 96563001604 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 96563001605 Peptidase family M23; Region: Peptidase_M23; pfam01551 96563001606 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 96563001607 Domain of unknown function DUF21; Region: DUF21; pfam01595 96563001608 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 96563001609 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 96563001610 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 96563001611 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 96563001612 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 96563001613 putative active site [active] 96563001614 heme pocket [chemical binding]; other site 96563001615 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 96563001616 dimer interface [polypeptide binding]; other site 96563001617 phosphorylation site [posttranslational modification] 96563001618 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 96563001619 ATP binding site [chemical binding]; other site 96563001620 Mg2+ binding site [ion binding]; other site 96563001621 G-X-G motif; other site 96563001622 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 96563001623 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563001624 active site 96563001625 phosphorylation site [posttranslational modification] 96563001626 intermolecular recognition site; other site 96563001627 dimerization interface [polypeptide binding]; other site 96563001628 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 96563001629 DNA binding site [nucleotide binding] 96563001630 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 96563001631 UbiA prenyltransferase family; Region: UbiA; pfam01040 96563001632 Chorismate lyase; Region: Chor_lyase; cl01230 96563001633 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 96563001634 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 96563001635 DNA-binding site [nucleotide binding]; DNA binding site 96563001636 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 96563001637 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 96563001638 FAD binding domain; Region: FAD_binding_4; pfam01565 96563001639 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 96563001640 FAD binding domain; Region: FAD_binding_4; pfam01565 96563001641 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 96563001642 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 96563001643 Cysteine-rich domain; Region: CCG; pfam02754 96563001644 Cysteine-rich domain; Region: CCG; pfam02754 96563001645 Domain of unknown function (DUF336); Region: DUF336; cl01249 96563001646 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 96563001647 active site 96563001648 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 96563001649 L-lactate permease; Region: Lactate_perm; cl00701 96563001650 Rubredoxin [Energy production and conversion]; Region: COG1773 96563001651 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 96563001652 iron binding site [ion binding]; other site 96563001653 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 96563001654 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 96563001655 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 96563001656 IHF dimer interface [polypeptide binding]; other site 96563001657 IHF - DNA interface [nucleotide binding]; other site 96563001658 Iron/zinc purple acid phosphatase-like protein C; Region: Metallophos_C; pfam14008 96563001659 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 96563001660 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563001661 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 96563001662 dimerization interface [polypeptide binding]; other site 96563001663 substrate binding pocket [chemical binding]; other site 96563001664 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 96563001665 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96563001666 FAD binding site [chemical binding]; other site 96563001667 substrate binding pocket [chemical binding]; other site 96563001668 catalytic base [active] 96563001669 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 96563001670 CoA-transferase family III; Region: CoA_transf_3; pfam02515 96563001671 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 96563001672 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 96563001673 putative NAD(P) binding site [chemical binding]; other site 96563001674 dimer interface [polypeptide binding]; other site 96563001675 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563001676 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563001677 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 96563001678 putative effector binding pocket; other site 96563001679 dimerization interface [polypeptide binding]; other site 96563001680 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 96563001681 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 96563001682 Repair protein; Region: Repair_PSII; pfam04536 96563001683 Repair protein; Region: Repair_PSII; cl01535 96563001684 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 96563001685 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 96563001686 conserved cys residue [active] 96563001687 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 96563001688 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563001689 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 96563001690 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 96563001691 Walker A motif; other site 96563001692 ATP binding site [chemical binding]; other site 96563001693 Walker B motif; other site 96563001694 arginine finger; other site 96563001695 Peptidase family M41; Region: Peptidase_M41; pfam01434 96563001696 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 96563001697 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 96563001698 substrate binding pocket [chemical binding]; other site 96563001699 membrane-bound complex binding site; other site 96563001700 hinge residues; other site 96563001701 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 96563001702 Cytochrome c; Region: Cytochrom_C; pfam00034 96563001703 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 96563001704 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 96563001705 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 96563001706 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 96563001707 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 96563001708 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 96563001709 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 96563001710 catalytic loop [active] 96563001711 iron binding site [ion binding]; other site 96563001712 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 96563001713 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 96563001714 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 96563001715 ligand binding site [chemical binding]; other site 96563001716 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 96563001717 homotrimer interaction site [polypeptide binding]; other site 96563001718 putative active site [active] 96563001719 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 96563001720 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96563001721 Zn2+ binding site [ion binding]; other site 96563001722 Mg2+ binding site [ion binding]; other site 96563001723 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 96563001724 synthetase active site [active] 96563001725 NTP binding site [chemical binding]; other site 96563001726 metal binding site [ion binding]; metal-binding site 96563001727 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 96563001728 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 96563001729 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 96563001730 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 96563001731 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 96563001732 catalytic site [active] 96563001733 G-X2-G-X-G-K; other site 96563001734 hypothetical protein; Provisional; Region: PRK11820 96563001735 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 96563001736 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 96563001737 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 96563001738 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 96563001739 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 96563001740 putative active site [active] 96563001741 putative NTP binding site [chemical binding]; other site 96563001742 putative nucleic acid binding site [nucleotide binding]; other site 96563001743 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 96563001744 Transposase; Region: HTH_Tnp_1; cl17663 96563001745 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 96563001746 IS2 transposase TnpB; Reviewed; Region: PRK09409 96563001747 HTH-like domain; Region: HTH_21; pfam13276 96563001748 Integrase core domain; Region: rve; pfam00665 96563001749 Integrase core domain; Region: rve_3; pfam13683 96563001750 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 96563001751 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 96563001752 active site 96563001753 ribonuclease PH; Reviewed; Region: rph; PRK00173 96563001754 Ribonuclease PH; Region: RNase_PH_bact; cd11362 96563001755 hexamer interface [polypeptide binding]; other site 96563001756 active site 96563001757 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 96563001758 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 96563001759 putative active site [active] 96563001760 putative catalytic site [active] 96563001761 putative DNA binding site [nucleotide binding]; other site 96563001762 putative phosphate binding site [ion binding]; other site 96563001763 metal binding site A [ion binding]; metal-binding site 96563001764 putative AP binding site [nucleotide binding]; other site 96563001765 putative metal binding site B [ion binding]; other site 96563001766 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 96563001767 active site 96563001768 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 96563001769 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 96563001770 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 96563001771 feedback inhibition sensing region; other site 96563001772 homohexameric interface [polypeptide binding]; other site 96563001773 nucleotide binding site [chemical binding]; other site 96563001774 N-acetyl-L-glutamate binding site [chemical binding]; other site 96563001775 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 96563001776 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 96563001777 active site 96563001778 substrate binding site [chemical binding]; other site 96563001779 metal binding site [ion binding]; metal-binding site 96563001780 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 96563001781 trimer interface [polypeptide binding]; other site 96563001782 active site 96563001783 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 96563001784 Flavoprotein; Region: Flavoprotein; pfam02441 96563001785 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 96563001786 hypothetical protein; Reviewed; Region: PRK00024 96563001787 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 96563001788 MPN+ (JAMM) motif; other site 96563001789 Zinc-binding site [ion binding]; other site 96563001790 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 96563001791 CoenzymeA binding site [chemical binding]; other site 96563001792 subunit interaction site [polypeptide binding]; other site 96563001793 PHB binding site; other site 96563001794 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 96563001795 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 96563001796 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 96563001797 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 96563001798 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96563001799 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563001800 dimer interface [polypeptide binding]; other site 96563001801 putative CheW interface [polypeptide binding]; other site 96563001802 Protein of unknown function (DUF962); Region: DUF962; cl01879 96563001803 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 96563001804 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 96563001805 putative active site [active] 96563001806 catalytic site [active] 96563001807 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 96563001808 putative active site [active] 96563001809 catalytic site [active] 96563001810 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 96563001811 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 96563001812 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 96563001813 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 96563001814 putative DNA binding site [nucleotide binding]; other site 96563001815 putative Zn2+ binding site [ion binding]; other site 96563001816 AsnC family; Region: AsnC_trans_reg; pfam01037 96563001817 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 96563001818 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 96563001819 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 96563001820 homotrimer interaction site [polypeptide binding]; other site 96563001821 putative active site [active] 96563001822 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 96563001823 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 96563001824 non-specific DNA binding site [nucleotide binding]; other site 96563001825 salt bridge; other site 96563001826 sequence-specific DNA binding site [nucleotide binding]; other site 96563001827 Cupin domain; Region: Cupin_2; pfam07883 96563001828 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 96563001829 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 96563001830 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 96563001831 active site 96563001832 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 96563001833 trehalose synthase; Region: treS_nterm; TIGR02456 96563001834 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 96563001835 active site 96563001836 catalytic site [active] 96563001837 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 96563001838 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 96563001839 active site 96563001840 catalytic site [active] 96563001841 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 96563001842 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 96563001843 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 96563001844 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 96563001845 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 96563001846 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 96563001847 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 96563001848 putative active site [active] 96563001849 metal binding site [ion binding]; metal-binding site 96563001850 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 96563001851 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 96563001852 tetrameric interface [polypeptide binding]; other site 96563001853 NAD binding site [chemical binding]; other site 96563001854 catalytic residues [active] 96563001855 Transcriptional regulator [Transcription]; Region: IclR; COG1414 96563001856 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 96563001857 Bacterial transcriptional regulator; Region: IclR; pfam01614 96563001858 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 96563001859 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 96563001860 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 96563001861 Part of AAA domain; Region: AAA_19; pfam13245 96563001862 Family description; Region: UvrD_C_2; pfam13538 96563001863 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563001864 metal binding site [ion binding]; metal-binding site 96563001865 active site 96563001866 I-site; other site 96563001867 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 96563001868 BCCT family transporter; Region: BCCT; cl00569 96563001869 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 96563001870 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 96563001871 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 96563001872 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 96563001873 Walker A motif; other site 96563001874 ATP binding site [chemical binding]; other site 96563001875 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 96563001876 Membrane fusogenic activity; Region: BMFP; pfam04380 96563001877 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 96563001878 Nitrogen regulatory protein P-II; Region: P-II; smart00938 96563001879 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 96563001880 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 96563001881 Uncharacterized conserved protein [Function unknown]; Region: COG0432 96563001882 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 96563001883 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 96563001884 motif II; other site 96563001885 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 96563001886 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 96563001887 active site 96563001888 DNA binding site [nucleotide binding] 96563001889 Int/Topo IB signature motif; other site 96563001890 Protein of unknown function, DUF484; Region: DUF484; pfam04340 96563001891 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 96563001892 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 96563001893 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 96563001894 diaminopimelate decarboxylase; Region: lysA; TIGR01048 96563001895 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 96563001896 active site 96563001897 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 96563001898 substrate binding site [chemical binding]; other site 96563001899 catalytic residues [active] 96563001900 dimer interface [polypeptide binding]; other site 96563001901 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 96563001902 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 96563001903 putative iron binding site [ion binding]; other site 96563001904 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 96563001905 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 96563001906 adenylate cyclase; Provisional; Region: cyaA; PRK09450 96563001907 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 96563001908 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 96563001909 TIGR02647 family protein; Region: DNA 96563001910 NnrS protein; Region: NnrS; pfam05940 96563001911 argininosuccinate lyase; Provisional; Region: PRK00855 96563001912 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 96563001913 active sites [active] 96563001914 tetramer interface [polypeptide binding]; other site 96563001915 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 96563001916 Histidine kinase; Region: His_kinase; pfam06580 96563001917 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 96563001918 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563001919 active site 96563001920 phosphorylation site [posttranslational modification] 96563001921 intermolecular recognition site; other site 96563001922 dimerization interface [polypeptide binding]; other site 96563001923 LytTr DNA-binding domain; Region: LytTR; pfam04397 96563001924 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 96563001925 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 96563001926 domain interfaces; other site 96563001927 active site 96563001928 uroporphyrinogen-III synthase; Validated; Region: PRK05752 96563001929 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 96563001930 active site 96563001931 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 96563001932 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 96563001933 HemY protein N-terminus; Region: HemY_N; pfam07219 96563001934 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 96563001935 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; pfam04353 96563001936 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 96563001937 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 96563001938 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 96563001939 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 96563001940 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 96563001941 ABC transporter; Region: ABC_tran_2; pfam12848 96563001942 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 96563001943 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 96563001944 Mechanosensitive ion channel; Region: MS_channel; pfam00924 96563001945 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 96563001946 LysE type translocator; Region: LysE; cl00565 96563001947 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 96563001948 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 96563001949 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 96563001950 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 96563001951 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563001952 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563001953 metal binding site [ion binding]; metal-binding site 96563001954 active site 96563001955 I-site; other site 96563001956 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 96563001957 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 96563001958 CoenzymeA binding site [chemical binding]; other site 96563001959 subunit interaction site [polypeptide binding]; other site 96563001960 PHB binding site; other site 96563001961 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 96563001962 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 96563001963 conserved cys residue [active] 96563001964 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 96563001965 dimer interface [polypeptide binding]; other site 96563001966 allosteric magnesium binding site [ion binding]; other site 96563001967 active site 96563001968 aspartate-rich active site metal binding site; other site 96563001969 Schiff base residues; other site 96563001970 polyphosphate kinase; Provisional; Region: PRK05443 96563001971 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 96563001972 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 96563001973 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 96563001974 putative active site [active] 96563001975 catalytic site [active] 96563001976 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 96563001977 putative domain interface [polypeptide binding]; other site 96563001978 putative active site [active] 96563001979 catalytic site [active] 96563001980 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 96563001981 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 96563001982 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 96563001983 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 96563001984 catalytic residues [active] 96563001985 transcription termination factor Rho; Provisional; Region: rho; PRK09376 96563001986 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 96563001987 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 96563001988 RNA binding site [nucleotide binding]; other site 96563001989 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 96563001990 multimer interface [polypeptide binding]; other site 96563001991 Walker A motif; other site 96563001992 ATP binding site [chemical binding]; other site 96563001993 Walker B motif; other site 96563001994 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 96563001995 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 96563001996 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 96563001997 catalytic loop [active] 96563001998 iron binding site [ion binding]; other site 96563001999 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 96563002000 FAD binding pocket [chemical binding]; other site 96563002001 FAD binding motif [chemical binding]; other site 96563002002 phosphate binding motif [ion binding]; other site 96563002003 beta-alpha-beta structure motif; other site 96563002004 NAD binding pocket [chemical binding]; other site 96563002005 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 96563002006 Sporulation related domain; Region: SPOR; pfam05036 96563002007 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 96563002008 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 96563002009 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 96563002010 active site 96563002011 HIGH motif; other site 96563002012 KMSK motif region; other site 96563002013 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 96563002014 tRNA binding surface [nucleotide binding]; other site 96563002015 anticodon binding site; other site 96563002016 primosome assembly protein PriA; Validated; Region: PRK05580 96563002017 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 96563002018 ATP binding site [chemical binding]; other site 96563002019 putative Mg++ binding site [ion binding]; other site 96563002020 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 96563002021 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 96563002022 ATP-binding site [chemical binding]; other site 96563002023 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 96563002024 Staphylococcal nuclease homologues; Region: SNc; smart00318 96563002025 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 96563002026 Catalytic site; other site 96563002027 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 96563002028 Malic enzyme, N-terminal domain; Region: malic; pfam00390 96563002029 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 96563002030 putative NAD(P) binding site [chemical binding]; other site 96563002031 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 96563002032 Transglycosylase; Region: Transgly; pfam00912 96563002033 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 96563002034 Competence protein A; Region: Competence_A; pfam11104 96563002035 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 96563002036 nucleotide binding site [chemical binding]; other site 96563002037 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 96563002038 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 96563002039 Pilus assembly protein, PilO; Region: PilO; pfam04350 96563002040 Pilus assembly protein, PilP; Region: PilP; pfam04351 96563002041 AMIN domain; Region: AMIN; pfam11741 96563002042 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 96563002043 Secretin and TonB N terminus short domain; Region: STN; smart00965 96563002044 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 96563002045 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 96563002046 shikimate kinase; Reviewed; Region: aroK; PRK00131 96563002047 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 96563002048 ADP binding site [chemical binding]; other site 96563002049 magnesium binding site [ion binding]; other site 96563002050 putative shikimate binding site; other site 96563002051 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 96563002052 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 96563002053 active site 96563002054 dimer interface [polypeptide binding]; other site 96563002055 metal binding site [ion binding]; metal-binding site 96563002056 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 96563002057 Sporulation related domain; Region: SPOR; pfam05036 96563002058 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 96563002059 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 96563002060 active site 96563002061 dimer interface [polypeptide binding]; other site 96563002062 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 96563002063 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 96563002064 active site 96563002065 FMN binding site [chemical binding]; other site 96563002066 substrate binding site [chemical binding]; other site 96563002067 3Fe-4S cluster binding site [ion binding]; other site 96563002068 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 96563002069 domain interface; other site 96563002070 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 96563002071 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 96563002072 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 96563002073 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 96563002074 substrate binding site [chemical binding]; other site 96563002075 active site 96563002076 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 96563002077 putative substrate translocation pore; other site 96563002078 Major Facilitator Superfamily; Region: MFS_1; pfam07690 96563002079 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 96563002080 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563002081 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 96563002082 dimerization interface [polypeptide binding]; other site 96563002083 substrate binding pocket [chemical binding]; other site 96563002084 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 96563002085 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 96563002086 catalytic residues [active] 96563002087 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 96563002088 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 96563002089 homodimer interface [polypeptide binding]; other site 96563002090 substrate-cofactor binding pocket; other site 96563002091 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563002092 catalytic residue [active] 96563002093 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 96563002094 transmembrane helices; other site 96563002095 TrkA-C domain; Region: TrkA_C; pfam02080 96563002096 TrkA-C domain; Region: TrkA_C; pfam02080 96563002097 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 96563002098 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 96563002099 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 96563002100 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 96563002101 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 96563002102 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 96563002103 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 96563002104 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 96563002105 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 96563002106 DNA binding residues [nucleotide binding] 96563002107 DNA primase, catalytic core; Region: dnaG; TIGR01391 96563002108 CHC2 zinc finger; Region: zf-CHC2; pfam01807 96563002109 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 96563002110 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 96563002111 active site 96563002112 metal binding site [ion binding]; metal-binding site 96563002113 interdomain interaction site; other site 96563002114 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 96563002115 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 96563002116 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 96563002117 UGMP family protein; Validated; Region: PRK09604 96563002118 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 96563002119 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 96563002120 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 96563002121 homooctamer interface [polypeptide binding]; other site 96563002122 active site 96563002123 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 96563002124 catalytic center binding site [active] 96563002125 ATP binding site [chemical binding]; other site 96563002126 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 96563002127 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 96563002128 active site 96563002129 NTP binding site [chemical binding]; other site 96563002130 metal binding triad [ion binding]; metal-binding site 96563002131 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 96563002132 SpoVR family protein; Provisional; Region: PRK11767 96563002133 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 96563002134 hypothetical protein; Provisional; Region: PRK05325 96563002135 PrkA family serine protein kinase; Provisional; Region: PRK15455 96563002136 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 96563002137 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 96563002138 active site residue [active] 96563002139 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 96563002140 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 96563002141 active site 96563002142 metal binding site [ion binding]; metal-binding site 96563002143 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 96563002144 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 96563002145 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 96563002146 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 96563002147 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 96563002148 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 96563002149 SurA N-terminal domain; Region: SurA_N; pfam09312 96563002150 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 96563002151 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 96563002152 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 96563002153 OstA-like protein; Region: OstA; cl00844 96563002154 Organic solvent tolerance protein; Region: OstA_C; pfam04453 96563002155 Phosphotransferase enzyme family; Region: APH; pfam01636 96563002156 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 96563002157 active site 96563002158 ATP binding site [chemical binding]; other site 96563002159 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 96563002160 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 96563002161 Substrate binding site; other site 96563002162 metal-binding site 96563002163 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 96563002164 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 96563002165 putative metal binding site [ion binding]; other site 96563002166 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 96563002167 HSP70 interaction site [polypeptide binding]; other site 96563002168 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 96563002169 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 96563002170 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 96563002171 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 96563002172 substrate binding pocket [chemical binding]; other site 96563002173 membrane-bound complex binding site; other site 96563002174 hinge residues; other site 96563002175 PAS domain; Region: PAS_9; pfam13426 96563002176 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 96563002177 PAS fold; Region: PAS_3; pfam08447 96563002178 putative active site [active] 96563002179 heme pocket [chemical binding]; other site 96563002180 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 96563002181 Histidine kinase; Region: HisKA_3; pfam07730 96563002182 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 96563002183 ATP binding site [chemical binding]; other site 96563002184 Mg2+ binding site [ion binding]; other site 96563002185 G-X-G motif; other site 96563002186 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 96563002187 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563002188 active site 96563002189 phosphorylation site [posttranslational modification] 96563002190 intermolecular recognition site; other site 96563002191 dimerization interface [polypeptide binding]; other site 96563002192 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 96563002193 DNA binding residues [nucleotide binding] 96563002194 dimerization interface [polypeptide binding]; other site 96563002195 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 96563002196 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 96563002197 Walker A/P-loop; other site 96563002198 ATP binding site [chemical binding]; other site 96563002199 Q-loop/lid; other site 96563002200 ABC transporter signature motif; other site 96563002201 Walker B; other site 96563002202 D-loop; other site 96563002203 H-loop/switch region; other site 96563002204 TOBE domain; Region: TOBE_2; pfam08402 96563002205 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 96563002206 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 96563002207 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563002208 dimer interface [polypeptide binding]; other site 96563002209 conserved gate region; other site 96563002210 putative PBP binding loops; other site 96563002211 ABC-ATPase subunit interface; other site 96563002212 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 96563002213 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563002214 dimer interface [polypeptide binding]; other site 96563002215 conserved gate region; other site 96563002216 putative PBP binding loops; other site 96563002217 ABC-ATPase subunit interface; other site 96563002218 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 96563002219 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 96563002220 tetramerization interface [polypeptide binding]; other site 96563002221 NAD(P) binding site [chemical binding]; other site 96563002222 catalytic residues [active] 96563002223 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 96563002224 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 96563002225 inhibitor-cofactor binding pocket; inhibition site 96563002226 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563002227 catalytic residue [active] 96563002228 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 96563002229 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 96563002230 substrate binding site [chemical binding]; other site 96563002231 hexamer interface [polypeptide binding]; other site 96563002232 metal binding site [ion binding]; metal-binding site 96563002233 phosphoglycolate phosphatase; Provisional; Region: PRK13222 96563002234 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 96563002235 motif II; other site 96563002236 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 96563002237 anthranilate synthase component I; Provisional; Region: PRK13565 96563002238 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 96563002239 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 96563002240 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 96563002241 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 96563002242 glutamine binding [chemical binding]; other site 96563002243 catalytic triad [active] 96563002244 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 96563002245 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 96563002246 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 96563002247 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 96563002248 active site 96563002249 ribulose/triose binding site [chemical binding]; other site 96563002250 phosphate binding site [ion binding]; other site 96563002251 substrate (anthranilate) binding pocket [chemical binding]; other site 96563002252 product (indole) binding pocket [chemical binding]; other site 96563002253 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 96563002254 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 96563002255 ligand binding site [chemical binding]; other site 96563002256 flexible hinge region; other site 96563002257 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 96563002258 putative switch regulator; other site 96563002259 non-specific DNA interactions [nucleotide binding]; other site 96563002260 DNA binding site [nucleotide binding] 96563002261 sequence specific DNA binding site [nucleotide binding]; other site 96563002262 putative cAMP binding site [chemical binding]; other site 96563002263 OsmC-like protein; Region: OsmC; cl00767 96563002264 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 96563002265 diiron binding motif [ion binding]; other site 96563002266 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 96563002267 nucleotide binding site/active site [active] 96563002268 HIT family signature motif; other site 96563002269 catalytic residue [active] 96563002270 Ycf46; Provisional; Region: ycf46; CHL00195 96563002271 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 96563002272 Walker A motif; other site 96563002273 ATP binding site [chemical binding]; other site 96563002274 Walker B motif; other site 96563002275 arginine finger; other site 96563002276 Protein of unknown function (DUF805); Region: DUF805; pfam05656 96563002277 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 96563002278 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 96563002279 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 96563002280 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 96563002281 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 96563002282 putative peptidase; Provisional; Region: PRK11649 96563002283 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 96563002284 Peptidase family M23; Region: Peptidase_M23; pfam01551 96563002285 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 96563002286 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 96563002287 active site 96563002288 HIGH motif; other site 96563002289 dimer interface [polypeptide binding]; other site 96563002290 KMSKS motif; other site 96563002291 Sporulation related domain; Region: SPOR; cl10051 96563002292 elongation factor Tu; Reviewed; Region: PRK00049 96563002293 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 96563002294 G1 box; other site 96563002295 GEF interaction site [polypeptide binding]; other site 96563002296 GTP/Mg2+ binding site [chemical binding]; other site 96563002297 Switch I region; other site 96563002298 G2 box; other site 96563002299 G3 box; other site 96563002300 Switch II region; other site 96563002301 G4 box; other site 96563002302 G5 box; other site 96563002303 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 96563002304 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 96563002305 Antibiotic Binding Site [chemical binding]; other site 96563002306 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 96563002307 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 96563002308 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 96563002309 putative homodimer interface [polypeptide binding]; other site 96563002310 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 96563002311 heterodimer interface [polypeptide binding]; other site 96563002312 homodimer interface [polypeptide binding]; other site 96563002313 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 96563002314 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 96563002315 23S rRNA interface [nucleotide binding]; other site 96563002316 L7/L12 interface [polypeptide binding]; other site 96563002317 putative thiostrepton binding site; other site 96563002318 L25 interface [polypeptide binding]; other site 96563002319 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 96563002320 mRNA/rRNA interface [nucleotide binding]; other site 96563002321 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 96563002322 23S rRNA interface [nucleotide binding]; other site 96563002323 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 96563002324 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 96563002325 core dimer interface [polypeptide binding]; other site 96563002326 peripheral dimer interface [polypeptide binding]; other site 96563002327 L10 interface [polypeptide binding]; other site 96563002328 L11 interface [polypeptide binding]; other site 96563002329 putative EF-Tu interaction site [polypeptide binding]; other site 96563002330 putative EF-G interaction site [polypeptide binding]; other site 96563002331 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 96563002332 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 96563002333 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 96563002334 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 96563002335 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 96563002336 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 96563002337 RPB3 interaction site [polypeptide binding]; other site 96563002338 RPB1 interaction site [polypeptide binding]; other site 96563002339 RPB11 interaction site [polypeptide binding]; other site 96563002340 RPB10 interaction site [polypeptide binding]; other site 96563002341 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 96563002342 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 96563002343 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 96563002344 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 96563002345 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 96563002346 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 96563002347 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 96563002348 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 96563002349 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 96563002350 DNA binding site [nucleotide binding] 96563002351 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 96563002352 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 96563002353 S17 interaction site [polypeptide binding]; other site 96563002354 S8 interaction site; other site 96563002355 16S rRNA interaction site [nucleotide binding]; other site 96563002356 streptomycin interaction site [chemical binding]; other site 96563002357 23S rRNA interaction site [nucleotide binding]; other site 96563002358 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 96563002359 30S ribosomal protein S7; Validated; Region: PRK05302 96563002360 elongation factor G; Reviewed; Region: PRK00007 96563002361 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 96563002362 G1 box; other site 96563002363 putative GEF interaction site [polypeptide binding]; other site 96563002364 GTP/Mg2+ binding site [chemical binding]; other site 96563002365 Switch I region; other site 96563002366 G2 box; other site 96563002367 G3 box; other site 96563002368 Switch II region; other site 96563002369 G4 box; other site 96563002370 G5 box; other site 96563002371 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 96563002372 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 96563002373 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 96563002374 elongation factor Tu; Reviewed; Region: PRK00049 96563002375 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 96563002376 G1 box; other site 96563002377 GEF interaction site [polypeptide binding]; other site 96563002378 GTP/Mg2+ binding site [chemical binding]; other site 96563002379 Switch I region; other site 96563002380 G2 box; other site 96563002381 G3 box; other site 96563002382 Switch II region; other site 96563002383 G4 box; other site 96563002384 G5 box; other site 96563002385 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 96563002386 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 96563002387 Antibiotic Binding Site [chemical binding]; other site 96563002388 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 96563002389 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 96563002390 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 96563002391 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 96563002392 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 96563002393 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 96563002394 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 96563002395 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 96563002396 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 96563002397 protein-rRNA interface [nucleotide binding]; other site 96563002398 putative translocon binding site; other site 96563002399 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 96563002400 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 96563002401 G-X-X-G motif; other site 96563002402 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 96563002403 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 96563002404 23S rRNA interface [nucleotide binding]; other site 96563002405 5S rRNA interface [nucleotide binding]; other site 96563002406 putative antibiotic binding site [chemical binding]; other site 96563002407 L25 interface [polypeptide binding]; other site 96563002408 L27 interface [polypeptide binding]; other site 96563002409 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 96563002410 23S rRNA interface [nucleotide binding]; other site 96563002411 putative translocon interaction site; other site 96563002412 signal recognition particle (SRP54) interaction site; other site 96563002413 L23 interface [polypeptide binding]; other site 96563002414 trigger factor interaction site; other site 96563002415 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 96563002416 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 96563002417 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 96563002418 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 96563002419 RNA binding site [nucleotide binding]; other site 96563002420 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 96563002421 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 96563002422 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 96563002423 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 96563002424 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 96563002425 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 96563002426 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 96563002427 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 96563002428 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 96563002429 5S rRNA interface [nucleotide binding]; other site 96563002430 23S rRNA interface [nucleotide binding]; other site 96563002431 L5 interface [polypeptide binding]; other site 96563002432 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 96563002433 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 96563002434 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 96563002435 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 96563002436 23S rRNA binding site [nucleotide binding]; other site 96563002437 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 96563002438 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 96563002439 SecY translocase; Region: SecY; pfam00344 96563002440 Ribosomal protein L36 [Translation, ribosomal structure and biogenesis]; Region: RpmJ; COG0257 96563002441 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 96563002442 30S ribosomal protein S13; Region: bact_S13; TIGR03631 96563002443 30S ribosomal protein S11; Validated; Region: PRK05309 96563002444 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 96563002445 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 96563002446 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 96563002447 RNA binding surface [nucleotide binding]; other site 96563002448 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 96563002449 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 96563002450 alphaNTD homodimer interface [polypeptide binding]; other site 96563002451 alphaNTD - beta interaction site [polypeptide binding]; other site 96563002452 alphaNTD - beta' interaction site [polypeptide binding]; other site 96563002453 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 96563002454 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 96563002455 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 96563002456 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 96563002457 tetramer interface [polypeptide binding]; other site 96563002458 heme binding pocket [chemical binding]; other site 96563002459 NADPH binding site [chemical binding]; other site 96563002460 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 96563002461 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 96563002462 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 96563002463 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 96563002464 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 96563002465 Major Facilitator Superfamily; Region: MFS_1; pfam07690 96563002466 putative substrate translocation pore; other site 96563002467 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 96563002468 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 96563002469 dimer interface [polypeptide binding]; other site 96563002470 ssDNA binding site [nucleotide binding]; other site 96563002471 tetramer (dimer of dimers) interface [polypeptide binding]; other site 96563002472 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 96563002473 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96563002474 NAD(P) binding site [chemical binding]; other site 96563002475 active site 96563002476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96563002477 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 96563002478 NAD(P) binding site [chemical binding]; other site 96563002479 active site 96563002480 OmpW family; Region: OmpW; cl17427 96563002481 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 96563002482 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 96563002483 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 96563002484 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 96563002485 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 96563002486 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 96563002487 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 96563002488 binding surface 96563002489 TPR motif; other site 96563002490 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 96563002491 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 96563002492 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 96563002493 FtsX-like permease family; Region: FtsX; pfam02687 96563002494 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 96563002495 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 96563002496 Walker A/P-loop; other site 96563002497 ATP binding site [chemical binding]; other site 96563002498 Q-loop/lid; other site 96563002499 ABC transporter signature motif; other site 96563002500 Walker B; other site 96563002501 D-loop; other site 96563002502 H-loop/switch region; other site 96563002503 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 96563002504 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 96563002505 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 96563002506 putative inner membrane protein; Provisional; Region: PRK11099 96563002507 hypothetical protein; Provisional; Region: PRK11018 96563002508 CPxP motif; other site 96563002509 2'-5' RNA ligase; Provisional; Region: PRK15124 96563002510 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 96563002511 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 96563002512 Predicted methyltransferase [General function prediction only]; Region: COG3897 96563002513 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 96563002514 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 96563002515 ATP cone domain; Region: ATP-cone; pfam03477 96563002516 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 96563002517 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 96563002518 catalytic motif [active] 96563002519 Zn binding site [ion binding]; other site 96563002520 RibD C-terminal domain; Region: RibD_C; cl17279 96563002521 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 96563002522 Lumazine binding domain; Region: Lum_binding; pfam00677 96563002523 Lumazine binding domain; Region: Lum_binding; pfam00677 96563002524 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 96563002525 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 96563002526 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 96563002527 dimerization interface [polypeptide binding]; other site 96563002528 active site 96563002529 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 96563002530 homopentamer interface [polypeptide binding]; other site 96563002531 active site 96563002532 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 96563002533 putative RNA binding site [nucleotide binding]; other site 96563002534 thiamine monophosphate kinase; Provisional; Region: PRK05731 96563002535 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 96563002536 ATP binding site [chemical binding]; other site 96563002537 dimerization interface [polypeptide binding]; other site 96563002538 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 96563002539 tetramer interfaces [polypeptide binding]; other site 96563002540 binuclear metal-binding site [ion binding]; other site 96563002541 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 96563002542 catalytic motif [active] 96563002543 Catalytic residue [active] 96563002544 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 96563002545 dimerization interface [polypeptide binding]; other site 96563002546 active site 96563002547 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 96563002548 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 96563002549 cobalamin binding residues [chemical binding]; other site 96563002550 putative BtuC binding residues; other site 96563002551 dimer interface [polypeptide binding]; other site 96563002552 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 96563002553 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 96563002554 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 96563002555 Walker A/P-loop; other site 96563002556 ATP binding site [chemical binding]; other site 96563002557 Q-loop/lid; other site 96563002558 ABC transporter signature motif; other site 96563002559 Walker B; other site 96563002560 D-loop; other site 96563002561 H-loop/switch region; other site 96563002562 FecCD transport family; Region: FecCD; pfam01032 96563002563 dimer interface [polypeptide binding]; other site 96563002564 putative PBP binding regions; other site 96563002565 ABC-ATPase subunit interface; other site 96563002566 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 96563002567 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; cd00636 96563002568 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 96563002569 intersubunit interface [polypeptide binding]; other site 96563002570 intersubunit interface [polypeptide binding]; other site 96563002571 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 96563002572 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 96563002573 N-terminal plug; other site 96563002574 ligand-binding site [chemical binding]; other site 96563002575 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563002576 Walker A/P-loop; other site 96563002577 ATP binding site [chemical binding]; other site 96563002578 Q-loop/lid; other site 96563002579 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563002580 ABC transporter signature motif; other site 96563002581 Walker B; other site 96563002582 D-loop; other site 96563002583 H-loop/switch region; other site 96563002584 exonuclease subunit SbcD; Provisional; Region: PRK10966 96563002585 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 96563002586 active site 96563002587 metal binding site [ion binding]; metal-binding site 96563002588 DNA binding site [nucleotide binding] 96563002589 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 96563002590 WYL domain; Region: WYL; pfam13280 96563002591 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 96563002592 ATP binding site [chemical binding]; other site 96563002593 Mg2+ binding site [ion binding]; other site 96563002594 G-X-G motif; other site 96563002595 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 96563002596 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563002597 active site 96563002598 phosphorylation site [posttranslational modification] 96563002599 intermolecular recognition site; other site 96563002600 dimerization interface [polypeptide binding]; other site 96563002601 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 96563002602 DNA binding site [nucleotide binding] 96563002603 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 96563002604 Predicted membrane protein [Function unknown]; Region: COG3212 96563002605 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 96563002606 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 96563002607 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 96563002608 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 96563002609 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 96563002610 probable active site [active] 96563002611 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 96563002612 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 96563002613 putative DNA binding site [nucleotide binding]; other site 96563002614 catalytic residue [active] 96563002615 putative H2TH interface [polypeptide binding]; other site 96563002616 putative catalytic residues [active] 96563002617 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 96563002618 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 96563002619 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 96563002620 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 96563002621 active site 96563002622 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 96563002623 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 96563002624 NAD binding site [chemical binding]; other site 96563002625 homotetramer interface [polypeptide binding]; other site 96563002626 homodimer interface [polypeptide binding]; other site 96563002627 substrate binding site [chemical binding]; other site 96563002628 active site 96563002629 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 96563002630 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 96563002631 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 96563002632 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 96563002633 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 96563002634 putative DNA binding site [nucleotide binding]; other site 96563002635 putative Zn2+ binding site [ion binding]; other site 96563002636 AsnC family; Region: AsnC_trans_reg; pfam01037 96563002637 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 96563002638 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 96563002639 dimer interface [polypeptide binding]; other site 96563002640 PYR/PP interface [polypeptide binding]; other site 96563002641 TPP binding site [chemical binding]; other site 96563002642 substrate binding site [chemical binding]; other site 96563002643 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 96563002644 TPP-binding site; other site 96563002645 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 96563002646 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 96563002647 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 96563002648 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 96563002649 NAD binding site [chemical binding]; other site 96563002650 Phe binding site; other site 96563002651 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 96563002652 Na2 binding site [ion binding]; other site 96563002653 putative substrate binding site 1 [chemical binding]; other site 96563002654 Na binding site 1 [ion binding]; other site 96563002655 putative substrate binding site 2 [chemical binding]; other site 96563002656 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 96563002657 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 96563002658 dimer interface [polypeptide binding]; other site 96563002659 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 96563002660 active site 96563002661 Fe binding site [ion binding]; other site 96563002662 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 96563002663 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 96563002664 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 96563002665 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 96563002666 maleylacetoacetate isomerase; Region: maiA; TIGR01262 96563002667 C-terminal domain interface [polypeptide binding]; other site 96563002668 GSH binding site (G-site) [chemical binding]; other site 96563002669 putative dimer interface [polypeptide binding]; other site 96563002670 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 96563002671 dimer interface [polypeptide binding]; other site 96563002672 N-terminal domain interface [polypeptide binding]; other site 96563002673 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 96563002674 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 96563002675 Na2 binding site [ion binding]; other site 96563002676 putative substrate binding site 1 [chemical binding]; other site 96563002677 Na binding site 1 [ion binding]; other site 96563002678 putative substrate binding site 2 [chemical binding]; other site 96563002679 Vibrio chemotaxis protein N terminus; Region: MCP_N; pfam05581 96563002680 Cache domain; Region: Cache_1; pfam02743 96563002681 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 96563002682 dimerization interface [polypeptide binding]; other site 96563002683 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563002684 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96563002685 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563002686 dimer interface [polypeptide binding]; other site 96563002687 putative CheW interface [polypeptide binding]; other site 96563002688 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 96563002689 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 96563002690 potential catalytic triad [active] 96563002691 conserved cys residue [active] 96563002692 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 96563002693 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 96563002694 DEAD-like helicases superfamily; Region: DEXDc; smart00487 96563002695 ATP binding site [chemical binding]; other site 96563002696 Mg++ binding site [ion binding]; other site 96563002697 motif III; other site 96563002698 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 96563002699 nucleotide binding region [chemical binding]; other site 96563002700 ATP-binding site [chemical binding]; other site 96563002701 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 96563002702 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 96563002703 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 96563002704 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563002705 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 96563002706 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563002707 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 96563002708 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 96563002709 NAD binding site [chemical binding]; other site 96563002710 substrate binding site [chemical binding]; other site 96563002711 catalytic Zn binding site [ion binding]; other site 96563002712 tetramer interface [polypeptide binding]; other site 96563002713 structural Zn binding site [ion binding]; other site 96563002714 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 96563002715 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 96563002716 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 96563002717 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 96563002718 putative active site [active] 96563002719 Zn binding site [ion binding]; other site 96563002720 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 96563002721 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 96563002722 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 96563002723 active site 96563002724 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 96563002725 catalytic triad [active] 96563002726 dimer interface [polypeptide binding]; other site 96563002727 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 96563002728 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 96563002729 active site 96563002730 motif I; other site 96563002731 motif II; other site 96563002732 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 96563002733 Predicted metalloprotease [General function prediction only]; Region: COG2321 96563002734 Predicted metal-binding protein [General function prediction only]; Region: COG3019 96563002735 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 96563002736 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 96563002737 ligand binding site [chemical binding]; other site 96563002738 flexible hinge region; other site 96563002739 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 96563002740 putative switch regulator; other site 96563002741 non-specific DNA interactions [nucleotide binding]; other site 96563002742 DNA binding site [nucleotide binding] 96563002743 sequence specific DNA binding site [nucleotide binding]; other site 96563002744 putative cAMP binding site [chemical binding]; other site 96563002745 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 96563002746 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 96563002747 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563002748 active site 96563002749 phosphorylation site [posttranslational modification] 96563002750 intermolecular recognition site; other site 96563002751 dimerization interface [polypeptide binding]; other site 96563002752 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 96563002753 DNA binding residues [nucleotide binding] 96563002754 dimerization interface [polypeptide binding]; other site 96563002755 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 96563002756 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 96563002757 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 96563002758 dimerization interface [polypeptide binding]; other site 96563002759 Histidine kinase; Region: HisKA_3; pfam07730 96563002760 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 96563002761 ATP binding site [chemical binding]; other site 96563002762 Mg2+ binding site [ion binding]; other site 96563002763 G-X-G motif; other site 96563002764 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 96563002765 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 96563002766 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 96563002767 Ligand Binding Site [chemical binding]; other site 96563002768 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 96563002769 putative substrate translocation pore; other site 96563002770 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 96563002771 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 96563002772 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 96563002773 [4Fe-4S] binding site [ion binding]; other site 96563002774 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 96563002775 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 96563002776 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 96563002777 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 96563002778 molybdopterin cofactor binding site; other site 96563002779 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 96563002780 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 96563002781 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 96563002782 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 96563002783 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 96563002784 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 96563002785 FeS/SAM binding site; other site 96563002786 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 96563002787 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 96563002788 MPT binding site; other site 96563002789 trimer interface [polypeptide binding]; other site 96563002790 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 96563002791 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 96563002792 dimer interface [polypeptide binding]; other site 96563002793 putative functional site; other site 96563002794 putative MPT binding site; other site 96563002795 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 96563002796 sensor protein QseC; Provisional; Region: PRK10337 96563002797 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 96563002798 dimer interface [polypeptide binding]; other site 96563002799 phosphorylation site [posttranslational modification] 96563002800 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 96563002801 ATP binding site [chemical binding]; other site 96563002802 Mg2+ binding site [ion binding]; other site 96563002803 G-X-G motif; other site 96563002804 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 96563002805 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563002806 active site 96563002807 phosphorylation site [posttranslational modification] 96563002808 intermolecular recognition site; other site 96563002809 dimerization interface [polypeptide binding]; other site 96563002810 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 96563002811 DNA binding site [nucleotide binding] 96563002812 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 96563002813 TPR motif; other site 96563002814 binding surface 96563002815 short chain dehydrogenase; Provisional; Region: PRK09072 96563002816 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96563002817 NAD(P) binding site [chemical binding]; other site 96563002818 active site 96563002819 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 96563002820 heme binding pocket [chemical binding]; other site 96563002821 heme ligand [chemical binding]; other site 96563002822 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 96563002823 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 96563002824 acyl-activating enzyme (AAE) consensus motif; other site 96563002825 putative AMP binding site [chemical binding]; other site 96563002826 putative active site [active] 96563002827 putative CoA binding site [chemical binding]; other site 96563002828 Thermostable hemolysin; Region: T_hemolysin; pfam12261 96563002829 SdiA-regulated; Region: SdiA-regulated; pfam06977 96563002830 SdiA-regulated; Region: SdiA-regulated; cd09971 96563002831 putative active site [active] 96563002832 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 96563002833 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563002834 active site 96563002835 phosphorylation site [posttranslational modification] 96563002836 intermolecular recognition site; other site 96563002837 dimerization interface [polypeptide binding]; other site 96563002838 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 96563002839 DNA binding site [nucleotide binding] 96563002840 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96563002841 HAMP domain; Region: HAMP; pfam00672 96563002842 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 96563002843 dimer interface [polypeptide binding]; other site 96563002844 phosphorylation site [posttranslational modification] 96563002845 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 96563002846 ATP binding site [chemical binding]; other site 96563002847 Mg2+ binding site [ion binding]; other site 96563002848 G-X-G motif; other site 96563002849 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 96563002850 S-adenosylmethionine binding site [chemical binding]; other site 96563002851 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 96563002852 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 96563002853 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 96563002854 Sulfatase; Region: Sulfatase; pfam00884 96563002855 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 96563002856 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 96563002857 S-adenosylmethionine binding site [chemical binding]; other site 96563002858 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 96563002859 DJ-1 family protein; Region: not_thiJ; TIGR01383 96563002860 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 96563002861 conserved cys residue [active] 96563002862 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 96563002863 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 96563002864 XdhC Rossmann domain; Region: XdhC_C; pfam13478 96563002865 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 96563002866 Ligand binding site; other site 96563002867 metal-binding site 96563002868 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 96563002869 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 96563002870 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 96563002871 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 96563002872 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 96563002873 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 96563002874 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 96563002875 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 96563002876 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 96563002877 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 96563002878 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 96563002879 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 96563002880 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 96563002881 DNA binding residues [nucleotide binding] 96563002882 putative dimer interface [polypeptide binding]; other site 96563002883 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 96563002884 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 96563002885 S-adenosylmethionine binding site [chemical binding]; other site 96563002886 ferredoxin-NADP reductase; Provisional; Region: PRK10926 96563002887 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 96563002888 FAD binding pocket [chemical binding]; other site 96563002889 FAD binding motif [chemical binding]; other site 96563002890 phosphate binding motif [ion binding]; other site 96563002891 beta-alpha-beta structure motif; other site 96563002892 NAD binding pocket [chemical binding]; other site 96563002893 glutamate dehydrogenase; Provisional; Region: PRK09414 96563002894 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 96563002895 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 96563002896 NAD(P) binding site [chemical binding]; other site 96563002897 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563002898 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563002899 metal binding site [ion binding]; metal-binding site 96563002900 active site 96563002901 I-site; other site 96563002902 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 96563002903 Cache domain; Region: Cache_1; pfam02743 96563002904 HAMP domain; Region: HAMP; pfam00672 96563002905 dimerization interface [polypeptide binding]; other site 96563002906 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 96563002907 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 96563002908 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 96563002909 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563002910 Walker A/P-loop; other site 96563002911 ATP binding site [chemical binding]; other site 96563002912 Q-loop/lid; other site 96563002913 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 96563002914 ABC transporter signature motif; other site 96563002915 Walker B; other site 96563002916 D-loop; other site 96563002917 ABC transporter; Region: ABC_tran_2; pfam12848 96563002918 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 96563002919 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 96563002920 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 96563002921 dimer interface [polypeptide binding]; other site 96563002922 active site 96563002923 glycine-pyridoxal phosphate binding site [chemical binding]; other site 96563002924 folate binding site [chemical binding]; other site 96563002925 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 96563002926 PilZ domain; Region: PilZ; pfam07238 96563002927 DNA repair protein RadA; Provisional; Region: PRK11823 96563002928 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 96563002929 Walker A motif/ATP binding site; other site 96563002930 ATP binding site [chemical binding]; other site 96563002931 Walker B motif; other site 96563002932 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 96563002933 Protein of unknown function (DUF465); Region: DUF465; cl01070 96563002934 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 96563002935 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 96563002936 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 96563002937 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 96563002938 metal ion-dependent adhesion site (MIDAS); other site 96563002939 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 96563002940 MoxR-like ATPases [General function prediction only]; Region: COG0714 96563002941 Walker A motif; other site 96563002942 ATP binding site [chemical binding]; other site 96563002943 Walker B motif; other site 96563002944 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 96563002945 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 96563002946 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 96563002947 Cytochrome c; Region: Cytochrom_C; pfam00034 96563002948 Cytochrome c; Region: Cytochrom_C; pfam00034 96563002949 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 96563002950 AAA domain; Region: AAA_32; pfam13654 96563002951 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 96563002952 hypothetical protein; Provisional; Region: PRK05208 96563002953 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 96563002954 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 96563002955 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 96563002956 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 96563002957 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 96563002958 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 96563002959 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 96563002960 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 96563002961 substrate binding pocket [chemical binding]; other site 96563002962 chain length determination region; other site 96563002963 substrate-Mg2+ binding site; other site 96563002964 catalytic residues [active] 96563002965 aspartate-rich region 1; other site 96563002966 active site lid residues [active] 96563002967 aspartate-rich region 2; other site 96563002968 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 96563002969 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 96563002970 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 96563002971 GTPase CgtA; Reviewed; Region: obgE; PRK12298 96563002972 GTP1/OBG; Region: GTP1_OBG; pfam01018 96563002973 Obg GTPase; Region: Obg; cd01898 96563002974 G1 box; other site 96563002975 GTP/Mg2+ binding site [chemical binding]; other site 96563002976 Switch I region; other site 96563002977 G2 box; other site 96563002978 G3 box; other site 96563002979 Switch II region; other site 96563002980 G4 box; other site 96563002981 G5 box; other site 96563002982 gamma-glutamyl kinase; Provisional; Region: PRK05429 96563002983 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 96563002984 nucleotide binding site [chemical binding]; other site 96563002985 homotetrameric interface [polypeptide binding]; other site 96563002986 putative phosphate binding site [ion binding]; other site 96563002987 putative allosteric binding site; other site 96563002988 PUA domain; Region: PUA; pfam01472 96563002989 CreA protein; Region: CreA; pfam05981 96563002990 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 96563002991 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 96563002992 MviN-like protein; Region: MVIN; pfam03023 96563002993 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 96563002994 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 96563002995 active site 96563002996 Riboflavin kinase; Region: Flavokinase; smart00904 96563002997 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 96563002998 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 96563002999 active site 96563003000 HIGH motif; other site 96563003001 nucleotide binding site [chemical binding]; other site 96563003002 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 96563003003 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 96563003004 active site 96563003005 KMSKS motif; other site 96563003006 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 96563003007 tRNA binding surface [nucleotide binding]; other site 96563003008 anticodon binding site; other site 96563003009 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 96563003010 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 96563003011 lipoprotein signal peptidase; Provisional; Region: PRK14787 96563003012 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 96563003013 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 96563003014 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 96563003015 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 96563003016 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 96563003017 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 96563003018 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 96563003019 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 96563003020 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 96563003021 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 96563003022 Prokaryotic N-terminal methylation site; Region: N_methyl_3; pfam13633 96563003023 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 96563003024 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 96563003025 Type II transport protein GspH; Region: GspH; pfam12019 96563003026 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 96563003027 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 96563003028 translation initiation factor Sui1; Validated; Region: PRK06824 96563003029 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 96563003030 putative rRNA binding site [nucleotide binding]; other site 96563003031 arginine decarboxylase; Provisional; Region: PRK05354 96563003032 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 96563003033 dimer interface [polypeptide binding]; other site 96563003034 active site 96563003035 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 96563003036 catalytic residues [active] 96563003037 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 96563003038 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 96563003039 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 96563003040 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 96563003041 SdiA-regulated; Region: SdiA-regulated; pfam06977 96563003042 SdiA-regulated; Region: SdiA-regulated; cd09971 96563003043 putative active site [active] 96563003044 Protein of unknown function, DUF606; Region: DUF606; pfam04657 96563003045 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 96563003046 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 96563003047 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 96563003048 S-adenosylmethionine binding site [chemical binding]; other site 96563003049 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 96563003050 homodimer interface [polypeptide binding]; other site 96563003051 chemical substrate binding site [chemical binding]; other site 96563003052 oligomer interface [polypeptide binding]; other site 96563003053 metal binding site [ion binding]; metal-binding site 96563003054 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 96563003055 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 96563003056 DNA binding site [nucleotide binding] 96563003057 domain linker motif; other site 96563003058 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 96563003059 dimerization interface [polypeptide binding]; other site 96563003060 ligand binding site [chemical binding]; other site 96563003061 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 96563003062 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 96563003063 active site 96563003064 phosphorylation site [posttranslational modification] 96563003065 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 96563003066 regulatory protein interface [polypeptide binding]; other site 96563003067 active site 96563003068 regulatory phosphorylation site [posttranslational modification]; other site 96563003069 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 96563003070 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 96563003071 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 96563003072 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 96563003073 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 96563003074 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 96563003075 putative substrate binding site [chemical binding]; other site 96563003076 putative ATP binding site [chemical binding]; other site 96563003077 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 96563003078 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 96563003079 active site 96563003080 P-loop; other site 96563003081 phosphorylation site [posttranslational modification] 96563003082 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 96563003083 active site 96563003084 P-loop; other site 96563003085 phosphorylation site [posttranslational modification] 96563003086 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 96563003087 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 96563003088 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 96563003089 Trp docking motif [polypeptide binding]; other site 96563003090 putative active site [active] 96563003091 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 96563003092 putative active site [active] 96563003093 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 96563003094 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 96563003095 G1 box; other site 96563003096 putative GEF interaction site [polypeptide binding]; other site 96563003097 GTP/Mg2+ binding site [chemical binding]; other site 96563003098 Switch I region; other site 96563003099 G2 box; other site 96563003100 G3 box; other site 96563003101 Switch II region; other site 96563003102 G4 box; other site 96563003103 G5 box; other site 96563003104 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 96563003105 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 96563003106 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 96563003107 dimer interface [polypeptide binding]; other site 96563003108 active site 96563003109 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 96563003110 catalytic residues [active] 96563003111 substrate binding site [chemical binding]; other site 96563003112 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 96563003113 Sel1-like repeats; Region: SEL1; smart00671 96563003114 Sel1-like repeats; Region: SEL1; smart00671 96563003115 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 96563003116 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 96563003117 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 96563003118 N-terminal plug; other site 96563003119 ligand-binding site [chemical binding]; other site 96563003120 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 96563003121 Flavodoxin; Region: Flavodoxin_1; pfam00258 96563003122 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 96563003123 FAD binding pocket [chemical binding]; other site 96563003124 FAD binding motif [chemical binding]; other site 96563003125 catalytic residues [active] 96563003126 NAD binding pocket [chemical binding]; other site 96563003127 phosphate binding motif [ion binding]; other site 96563003128 beta-alpha-beta structure motif; other site 96563003129 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 96563003130 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 96563003131 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 96563003132 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 96563003133 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 96563003134 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 96563003135 N-terminal plug; other site 96563003136 ligand-binding site [chemical binding]; other site 96563003137 Uncharacterized conserved protein [Function unknown]; Region: COG2968 96563003138 Protein of unknown function (DUF541); Region: SIMPL; cl01077 96563003139 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96563003140 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 96563003141 ATP binding site [chemical binding]; other site 96563003142 G-X-G motif; other site 96563003143 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 96563003144 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563003145 active site 96563003146 phosphorylation site [posttranslational modification] 96563003147 intermolecular recognition site; other site 96563003148 dimerization interface [polypeptide binding]; other site 96563003149 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96563003150 Predicted permeases [General function prediction only]; Region: COG0679 96563003151 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 96563003152 Peptidase family M23; Region: Peptidase_M23; pfam01551 96563003153 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 96563003154 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 96563003155 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 96563003156 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 96563003157 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 96563003158 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 96563003159 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 96563003160 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 96563003161 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 96563003162 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 96563003163 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 96563003164 GatB domain; Region: GatB_Yqey; smart00845 96563003165 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 96563003166 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 96563003167 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 96563003168 rod shape-determining protein MreB; Provisional; Region: PRK13927 96563003169 MreB and similar proteins; Region: MreB_like; cd10225 96563003170 nucleotide binding site [chemical binding]; other site 96563003171 Mg binding site [ion binding]; other site 96563003172 putative protofilament interaction site [polypeptide binding]; other site 96563003173 RodZ interaction site [polypeptide binding]; other site 96563003174 rod shape-determining protein MreC; Provisional; Region: PRK13922 96563003175 Baculovirus gp64 envelope glycoprotein family; Region: Baculo_gp64; pfam03273 96563003176 rod shape-determining protein MreC; Region: MreC; pfam04085 96563003177 rod shape-determining protein MreD; Region: MreD; cl01087 96563003178 PEGA domain; Region: PEGA; pfam08308 96563003179 Maf-like protein; Region: Maf; pfam02545 96563003180 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 96563003181 active site 96563003182 dimer interface [polypeptide binding]; other site 96563003183 ribonuclease G; Provisional; Region: PRK11712 96563003184 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 96563003185 homodimer interface [polypeptide binding]; other site 96563003186 oligonucleotide binding site [chemical binding]; other site 96563003187 TIGR02099 family protein; Region: TIGR02099 96563003188 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 96563003189 nitrilase; Region: PLN02798 96563003190 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 96563003191 putative active site [active] 96563003192 catalytic triad [active] 96563003193 dimer interface [polypeptide binding]; other site 96563003194 protease TldD; Provisional; Region: tldD; PRK10735 96563003195 hypothetical protein; Provisional; Region: PRK05255 96563003196 peptidase PmbA; Provisional; Region: PRK11040 96563003197 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 96563003198 dimerization domain swap beta strand [polypeptide binding]; other site 96563003199 regulatory protein interface [polypeptide binding]; other site 96563003200 active site 96563003201 regulatory phosphorylation site [posttranslational modification]; other site 96563003202 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 96563003203 AAA domain; Region: AAA_18; pfam13238 96563003204 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 96563003205 active site 96563003206 phosphorylation site [posttranslational modification] 96563003207 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 96563003208 30S subunit binding site; other site 96563003209 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 96563003210 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 96563003211 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 96563003212 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 96563003213 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 96563003214 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 96563003215 Walker A/P-loop; other site 96563003216 ATP binding site [chemical binding]; other site 96563003217 Q-loop/lid; other site 96563003218 ABC transporter signature motif; other site 96563003219 Walker B; other site 96563003220 D-loop; other site 96563003221 H-loop/switch region; other site 96563003222 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 96563003223 OstA-like protein; Region: OstA; pfam03968 96563003224 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 96563003225 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 96563003226 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 96563003227 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 96563003228 active site 96563003229 motif I; other site 96563003230 motif II; other site 96563003231 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 96563003232 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 96563003233 putative active site [active] 96563003234 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 96563003235 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 96563003236 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 96563003237 Walker A/P-loop; other site 96563003238 ATP binding site [chemical binding]; other site 96563003239 Q-loop/lid; other site 96563003240 ABC transporter signature motif; other site 96563003241 Walker B; other site 96563003242 D-loop; other site 96563003243 H-loop/switch region; other site 96563003244 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 96563003245 conserved hypothetical integral membrane protein; Region: TIGR00056 96563003246 mce related protein; Region: MCE; pfam02470 96563003247 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 96563003248 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 96563003249 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 96563003250 anti sigma factor interaction site; other site 96563003251 regulatory phosphorylation site [posttranslational modification]; other site 96563003252 Predicted membrane protein [Function unknown]; Region: COG3223 96563003253 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 96563003254 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 96563003255 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 96563003256 hinge; other site 96563003257 active site 96563003258 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 96563003259 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 96563003260 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 96563003261 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 96563003262 NAD binding site [chemical binding]; other site 96563003263 dimerization interface [polypeptide binding]; other site 96563003264 product binding site; other site 96563003265 substrate binding site [chemical binding]; other site 96563003266 zinc binding site [ion binding]; other site 96563003267 catalytic residues [active] 96563003268 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 96563003269 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 96563003270 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563003271 homodimer interface [polypeptide binding]; other site 96563003272 catalytic residue [active] 96563003273 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 96563003274 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 96563003275 protein binding site [polypeptide binding]; other site 96563003276 Uncharacterized conserved protein [Function unknown]; Region: COG0327 96563003277 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 96563003278 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 96563003279 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 96563003280 Active Sites [active] 96563003281 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 96563003282 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 96563003283 CysD dimerization site [polypeptide binding]; other site 96563003284 G1 box; other site 96563003285 putative GEF interaction site [polypeptide binding]; other site 96563003286 GTP/Mg2+ binding site [chemical binding]; other site 96563003287 Switch I region; other site 96563003288 G2 box; other site 96563003289 G3 box; other site 96563003290 Switch II region; other site 96563003291 G4 box; other site 96563003292 G5 box; other site 96563003293 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 96563003294 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 96563003295 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 96563003296 ligand-binding site [chemical binding]; other site 96563003297 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 96563003298 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 96563003299 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 96563003300 Walker A motif; other site 96563003301 ATP binding site [chemical binding]; other site 96563003302 Walker B motif; other site 96563003303 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 96563003304 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 96563003305 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 96563003306 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 96563003307 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 96563003308 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 96563003309 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 96563003310 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 96563003311 CoA-binding site [chemical binding]; other site 96563003312 ATP-binding [chemical binding]; other site 96563003313 Predicted membrane protein [Function unknown]; Region: COG3235 96563003314 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 96563003315 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 96563003316 active site 96563003317 catalytic tetrad [active] 96563003318 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 96563003319 23S rRNA interface [nucleotide binding]; other site 96563003320 L3 interface [polypeptide binding]; other site 96563003321 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 96563003322 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 96563003323 Transposase; Region: DDE_Tnp_ISL3; pfam01610 96563003324 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 96563003325 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 96563003326 [2Fe-2S] cluster binding site [ion binding]; other site 96563003327 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 96563003328 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 96563003329 Qi binding site; other site 96563003330 intrachain domain interface; other site 96563003331 interchain domain interface [polypeptide binding]; other site 96563003332 heme bH binding site [chemical binding]; other site 96563003333 heme bL binding site [chemical binding]; other site 96563003334 Qo binding site; other site 96563003335 interchain domain interface [polypeptide binding]; other site 96563003336 intrachain domain interface; other site 96563003337 Qi binding site; other site 96563003338 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 96563003339 Qo binding site; other site 96563003340 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 96563003341 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 96563003342 stringent starvation protein A; Provisional; Region: sspA; PRK09481 96563003343 C-terminal domain interface [polypeptide binding]; other site 96563003344 putative GSH binding site (G-site) [chemical binding]; other site 96563003345 dimer interface [polypeptide binding]; other site 96563003346 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 96563003347 dimer interface [polypeptide binding]; other site 96563003348 N-terminal domain interface [polypeptide binding]; other site 96563003349 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 96563003350 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 96563003351 BON domain; Region: BON; pfam04972 96563003352 BON domain; Region: BON; pfam04972 96563003353 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 96563003354 dimer interface [polypeptide binding]; other site 96563003355 active site 96563003356 hypothetical protein; Reviewed; Region: PRK12497 96563003357 LppC putative lipoprotein; Region: LppC; pfam04348 96563003358 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 96563003359 putative ligand binding site [chemical binding]; other site 96563003360 Predicted methyltransferases [General function prediction only]; Region: COG0313 96563003361 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 96563003362 putative SAM binding site [chemical binding]; other site 96563003363 putative homodimer interface [polypeptide binding]; other site 96563003364 cell division protein MraZ; Reviewed; Region: PRK00326 96563003365 MraZ protein; Region: MraZ; pfam02381 96563003366 MraZ protein; Region: MraZ; pfam02381 96563003367 MraW methylase family; Region: Methyltransf_5; cl17771 96563003368 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 96563003369 Cell division protein FtsL; Region: FtsL; pfam04999 96563003370 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 96563003371 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 96563003372 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 96563003373 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 96563003374 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 96563003375 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 96563003376 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 96563003377 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 96563003378 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 96563003379 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 96563003380 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 96563003381 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 96563003382 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 96563003383 Mg++ binding site [ion binding]; other site 96563003384 putative catalytic motif [active] 96563003385 putative substrate binding site [chemical binding]; other site 96563003386 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 96563003387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96563003388 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 96563003389 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 96563003390 cell division protein FtsW; Region: ftsW; TIGR02614 96563003391 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 96563003392 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 96563003393 active site 96563003394 homodimer interface [polypeptide binding]; other site 96563003395 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 96563003396 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 96563003397 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 96563003398 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 96563003399 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 96563003400 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 96563003401 ATP-grasp domain; Region: ATP-grasp_4; cl17255 96563003402 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 96563003403 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 96563003404 Cell division protein FtsQ; Region: FtsQ; pfam03799 96563003405 cell division protein FtsA; Region: ftsA; TIGR01174 96563003406 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 96563003407 nucleotide binding site [chemical binding]; other site 96563003408 Cell division protein FtsA; Region: FtsA; pfam14450 96563003409 cell division protein FtsZ; Validated; Region: PRK09330 96563003410 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 96563003411 nucleotide binding site [chemical binding]; other site 96563003412 SulA interaction site; other site 96563003413 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 96563003414 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 96563003415 Ferritin-like domain; Region: Ferritin; pfam00210 96563003416 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 96563003417 dinuclear metal binding motif [ion binding]; other site 96563003418 transcription termination factor Rho; Provisional; Region: rho; PRK09376 96563003419 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 96563003420 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 96563003421 MgtC family; Region: MgtC; pfam02308 96563003422 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 96563003423 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 96563003424 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 96563003425 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 96563003426 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 96563003427 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 96563003428 NAD binding site [chemical binding]; other site 96563003429 homodimer interface [polypeptide binding]; other site 96563003430 active site 96563003431 putative transporter; Provisional; Region: PRK11660 96563003432 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 96563003433 Sulfate transporter family; Region: Sulfate_transp; pfam00916 96563003434 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 96563003435 malate:quinone oxidoreductase; Reviewed; Region: PRK13339 96563003436 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 96563003437 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 96563003438 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 96563003439 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 96563003440 putative acyl-acceptor binding pocket; other site 96563003441 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 96563003442 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 96563003443 Uncharacterized conserved protein [Function unknown]; Region: COG2135 96563003444 Cache domain; Region: Cache_1; pfam02743 96563003445 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 96563003446 dimerization interface [polypeptide binding]; other site 96563003447 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96563003448 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563003449 dimer interface [polypeptide binding]; other site 96563003450 putative CheW interface [polypeptide binding]; other site 96563003451 Peptidase family M48; Region: Peptidase_M48; pfam01435 96563003452 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 96563003453 Predicted membrane protein [Function unknown]; Region: COG2119 96563003454 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 96563003455 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 96563003456 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 96563003457 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 96563003458 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 96563003459 S-adenosylmethionine binding site [chemical binding]; other site 96563003460 glycerate dehydrogenase; Provisional; Region: PRK06487 96563003461 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 96563003462 putative ligand binding site [chemical binding]; other site 96563003463 putative NAD binding site [chemical binding]; other site 96563003464 catalytic site [active] 96563003465 LysE type translocator; Region: LysE; cl00565 96563003466 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 96563003467 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96563003468 acyl-activating enzyme (AAE) consensus motif; other site 96563003469 AMP binding site [chemical binding]; other site 96563003470 active site 96563003471 CoA binding site [chemical binding]; other site 96563003472 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 96563003473 dimer interface [polypeptide binding]; other site 96563003474 phosphorylation site [posttranslational modification] 96563003475 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 96563003476 ATP binding site [chemical binding]; other site 96563003477 G-X-G motif; other site 96563003478 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96563003479 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563003480 active site 96563003481 phosphorylation site [posttranslational modification] 96563003482 intermolecular recognition site; other site 96563003483 dimerization interface [polypeptide binding]; other site 96563003484 PAS domain; Region: PAS_9; pfam13426 96563003485 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 96563003486 putative outer membrane lipoprotein; Provisional; Region: PRK10510 96563003487 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 96563003488 ligand binding site [chemical binding]; other site 96563003489 CHASE domain; Region: CHASE; pfam03924 96563003490 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 96563003491 PAS domain; Region: PAS_9; pfam13426 96563003492 putative active site [active] 96563003493 heme pocket [chemical binding]; other site 96563003494 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 96563003495 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 96563003496 putative active site [active] 96563003497 heme pocket [chemical binding]; other site 96563003498 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 96563003499 dimer interface [polypeptide binding]; other site 96563003500 phosphorylation site [posttranslational modification] 96563003501 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 96563003502 ATP binding site [chemical binding]; other site 96563003503 Mg2+ binding site [ion binding]; other site 96563003504 G-X-G motif; other site 96563003505 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563003506 Response regulator receiver domain; Region: Response_reg; pfam00072 96563003507 active site 96563003508 phosphorylation site [posttranslational modification] 96563003509 intermolecular recognition site; other site 96563003510 dimerization interface [polypeptide binding]; other site 96563003511 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 96563003512 active site 96563003513 phosphorylation site [posttranslational modification] 96563003514 intermolecular recognition site; other site 96563003515 dimerization interface [polypeptide binding]; other site 96563003516 Response regulator receiver domain; Region: Response_reg; pfam00072 96563003517 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563003518 active site 96563003519 phosphorylation site [posttranslational modification] 96563003520 intermolecular recognition site; other site 96563003521 dimerization interface [polypeptide binding]; other site 96563003522 Response regulator receiver domain; Region: Response_reg; pfam00072 96563003523 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563003524 active site 96563003525 phosphorylation site [posttranslational modification] 96563003526 intermolecular recognition site; other site 96563003527 dimerization interface [polypeptide binding]; other site 96563003528 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 96563003529 putative active site [active] 96563003530 heme pocket [chemical binding]; other site 96563003531 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563003532 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563003533 metal binding site [ion binding]; metal-binding site 96563003534 active site 96563003535 I-site; other site 96563003536 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 96563003537 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 96563003538 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 96563003539 putative acyl-acceptor binding pocket; other site 96563003540 phosphate acetyltransferase; Reviewed; Region: PRK05632 96563003541 DRTGG domain; Region: DRTGG; pfam07085 96563003542 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 96563003543 propionate/acetate kinase; Provisional; Region: PRK12379 96563003544 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 96563003545 nucleotide binding site [chemical binding]; other site 96563003546 butyrate kinase; Provisional; Region: PRK03011 96563003547 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 96563003548 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 96563003549 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 96563003550 catalytic residues [active] 96563003551 dimer interface [polypeptide binding]; other site 96563003552 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96563003553 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96563003554 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 96563003555 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 96563003556 putative active site [active] 96563003557 putative FMN binding site [chemical binding]; other site 96563003558 putative substrate binding site [chemical binding]; other site 96563003559 putative catalytic residue [active] 96563003560 putative sulfate transport protein CysZ; Validated; Region: PRK04949 96563003561 HopJ type III effector protein; Region: HopJ; pfam08888 96563003562 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 96563003563 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 96563003564 homooctamer interface [polypeptide binding]; other site 96563003565 active site 96563003566 dihydromonapterin reductase; Provisional; Region: PRK06483 96563003567 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 96563003568 NADP binding site [chemical binding]; other site 96563003569 substrate binding pocket [chemical binding]; other site 96563003570 active site 96563003571 PilZ domain; Region: PilZ; pfam07238 96563003572 flavodoxin; Provisional; Region: PRK05723 96563003573 aldolase II superfamily protein; Provisional; Region: PRK07044 96563003574 intersubunit interface [polypeptide binding]; other site 96563003575 active site 96563003576 Zn2+ binding site [ion binding]; other site 96563003577 Protein of unknown function, DUF479; Region: DUF479; cl01203 96563003578 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 96563003579 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 96563003580 putative acyl-acceptor binding pocket; other site 96563003581 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 96563003582 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96563003583 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 96563003584 putative active site [active] 96563003585 catalytic site [active] 96563003586 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 96563003587 PLD-like domain; Region: PLDc_2; pfam13091 96563003588 putative active site [active] 96563003589 catalytic site [active] 96563003590 intracellular protease, PfpI family; Region: PfpI; TIGR01382 96563003591 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 96563003592 conserved cys residue [active] 96563003593 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 96563003594 putative fumarate hydratase; Provisional; Region: PRK15392 96563003595 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 96563003596 Fumarase C-terminus; Region: Fumerase_C; pfam05683 96563003597 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563003598 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563003599 metal binding site [ion binding]; metal-binding site 96563003600 active site 96563003601 I-site; other site 96563003602 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 96563003603 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an N-terminal Iron-Sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible...; Region: FNR_N-term_Iron_sulfur_binding; cd06194 96563003604 FAD binding pocket [chemical binding]; other site 96563003605 FAD binding motif [chemical binding]; other site 96563003606 phosphate binding motif [ion binding]; other site 96563003607 beta-alpha-beta structure motif; other site 96563003608 NAD binding pocket [chemical binding]; other site 96563003609 pyruvate kinase; Provisional; Region: PRK05826 96563003610 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 96563003611 domain interfaces; other site 96563003612 active site 96563003613 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 96563003614 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 96563003615 PilZ domain; Region: PilZ; pfam07238 96563003616 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 96563003617 Protein of unknown function DUF58; Region: DUF58; pfam01882 96563003618 von Willebrand factor type A domain; Region: VWA_2; pfam13519 96563003619 MoxR-like ATPases [General function prediction only]; Region: COG0714 96563003620 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 96563003621 Walker A motif; other site 96563003622 ATP binding site [chemical binding]; other site 96563003623 Walker B motif; other site 96563003624 arginine finger; other site 96563003625 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 96563003626 Uncharacterized membrane protein [Function unknown]; Region: SpoIIM; COG1300 96563003627 RDD family; Region: RDD; pfam06271 96563003628 exonuclease I; Provisional; Region: sbcB; PRK11779 96563003629 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 96563003630 active site 96563003631 catalytic site [active] 96563003632 substrate binding site [chemical binding]; other site 96563003633 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 96563003634 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 96563003635 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 96563003636 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 96563003637 putative active site [active] 96563003638 putative substrate binding site [chemical binding]; other site 96563003639 putative cosubstrate binding site; other site 96563003640 catalytic site [active] 96563003641 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 96563003642 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 96563003643 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 96563003644 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 96563003645 Substrate binding site; other site 96563003646 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 96563003647 hypothetical protein; Validated; Region: PRK02101 96563003648 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 96563003649 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 96563003650 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 96563003651 putative active site [active] 96563003652 PhoH-like protein; Region: PhoH; pfam02562 96563003653 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 96563003654 trimer interface [polypeptide binding]; other site 96563003655 dimer interface [polypeptide binding]; other site 96563003656 putative active site [active] 96563003657 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 96563003658 MoaE interaction surface [polypeptide binding]; other site 96563003659 MoeB interaction surface [polypeptide binding]; other site 96563003660 thiocarboxylated glycine; other site 96563003661 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 96563003662 MoaE homodimer interface [polypeptide binding]; other site 96563003663 MoaD interaction [polypeptide binding]; other site 96563003664 active site residues [active] 96563003665 helicase 45; Provisional; Region: PTZ00424 96563003666 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 96563003667 ATP binding site [chemical binding]; other site 96563003668 Mg++ binding site [ion binding]; other site 96563003669 motif III; other site 96563003670 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 96563003671 nucleotide binding region [chemical binding]; other site 96563003672 ATP-binding site [chemical binding]; other site 96563003673 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 96563003674 putative hydrolase; Provisional; Region: PRK11460 96563003675 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 96563003676 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 96563003677 substrate binding pocket [chemical binding]; other site 96563003678 membrane-bound complex binding site; other site 96563003679 hinge residues; other site 96563003680 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 96563003681 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563003682 conserved gate region; other site 96563003683 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563003684 putative PBP binding loops; other site 96563003685 dimer interface [polypeptide binding]; other site 96563003686 ABC-ATPase subunit interface; other site 96563003687 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563003688 dimer interface [polypeptide binding]; other site 96563003689 conserved gate region; other site 96563003690 putative PBP binding loops; other site 96563003691 ABC-ATPase subunit interface; other site 96563003692 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 96563003693 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 96563003694 Walker A/P-loop; other site 96563003695 ATP binding site [chemical binding]; other site 96563003696 Q-loop/lid; other site 96563003697 ABC transporter signature motif; other site 96563003698 Walker B; other site 96563003699 D-loop; other site 96563003700 H-loop/switch region; other site 96563003701 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 96563003702 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 96563003703 dimerization interface [polypeptide binding]; other site 96563003704 ATP binding site [chemical binding]; other site 96563003705 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 96563003706 dimerization interface [polypeptide binding]; other site 96563003707 ATP binding site [chemical binding]; other site 96563003708 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 96563003709 putative active site [active] 96563003710 catalytic triad [active] 96563003711 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 96563003712 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 96563003713 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 96563003714 nudix motif; other site 96563003715 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 96563003716 putative active site [active] 96563003717 putative CoA binding site [chemical binding]; other site 96563003718 nudix motif; other site 96563003719 metal binding site [ion binding]; metal-binding site 96563003720 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 96563003721 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 96563003722 trimer interface [polypeptide binding]; other site 96563003723 putative metal binding site [ion binding]; other site 96563003724 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 96563003725 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 96563003726 ATP-grasp domain; Region: ATP-grasp; pfam02222 96563003727 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 96563003728 Domain of unknown function DUF21; Region: DUF21; pfam01595 96563003729 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 96563003730 Transporter associated domain; Region: CorC_HlyC; smart01091 96563003731 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 96563003732 signal recognition particle protein; Provisional; Region: PRK10867 96563003733 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 96563003734 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 96563003735 P loop; other site 96563003736 GTP binding site [chemical binding]; other site 96563003737 Signal peptide binding domain; Region: SRP_SPB; pfam02978 96563003738 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 96563003739 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 96563003740 RimM N-terminal domain; Region: RimM; pfam01782 96563003741 PRC-barrel domain; Region: PRC; pfam05239 96563003742 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 96563003743 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 96563003744 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 96563003745 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 96563003746 active site 96563003747 Int/Topo IB signature motif; other site 96563003748 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 96563003749 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 96563003750 dimerization domain [polypeptide binding]; other site 96563003751 dimer interface [polypeptide binding]; other site 96563003752 catalytic residues [active] 96563003753 Uncharacterized conserved protein [Function unknown]; Region: COG3791 96563003754 homoserine dehydrogenase; Provisional; Region: PRK06349 96563003755 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 96563003756 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 96563003757 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 96563003758 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 96563003759 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 96563003760 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563003761 catalytic residue [active] 96563003762 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 96563003763 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 96563003764 dimer interface [polypeptide binding]; other site 96563003765 catalytic site [active] 96563003766 putative active site [active] 96563003767 putative substrate binding site [chemical binding]; other site 96563003768 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 96563003769 active site 96563003770 substrate binding pocket [chemical binding]; other site 96563003771 dimer interface [polypeptide binding]; other site 96563003772 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 96563003773 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 96563003774 ligand binding site [chemical binding]; other site 96563003775 argininosuccinate synthase; Provisional; Region: PRK13820 96563003776 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 96563003777 ANP binding site [chemical binding]; other site 96563003778 Substrate Binding Site II [chemical binding]; other site 96563003779 Substrate Binding Site I [chemical binding]; other site 96563003780 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 96563003781 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 96563003782 dimer interface [polypeptide binding]; other site 96563003783 active site 96563003784 metal binding site [ion binding]; metal-binding site 96563003785 glutathione binding site [chemical binding]; other site 96563003786 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 96563003787 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 96563003788 minor groove reading motif; other site 96563003789 helix-hairpin-helix signature motif; other site 96563003790 substrate binding pocket [chemical binding]; other site 96563003791 active site 96563003792 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 96563003793 electron transport complex RsxE subunit; Provisional; Region: PRK12405 96563003794 FMN-binding domain; Region: FMN_bind; cl01081 96563003795 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 96563003796 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 96563003797 SLBB domain; Region: SLBB; pfam10531 96563003798 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 96563003799 ferredoxin; Provisional; Region: PRK08764 96563003800 Putative Fe-S cluster; Region: FeS; pfam04060 96563003801 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 96563003802 electron transport complex protein RsxA; Provisional; Region: PRK05151 96563003803 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 96563003804 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 96563003805 substrate binding site [chemical binding]; other site 96563003806 oxyanion hole (OAH) forming residues; other site 96563003807 trimer interface [polypeptide binding]; other site 96563003808 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 96563003809 enoyl-CoA hydratase; Provisional; Region: PRK09076 96563003810 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 96563003811 substrate binding site [chemical binding]; other site 96563003812 oxyanion hole (OAH) forming residues; other site 96563003813 trimer interface [polypeptide binding]; other site 96563003814 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 96563003815 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 96563003816 putative ligand binding site [chemical binding]; other site 96563003817 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 96563003818 ligand binding site [chemical binding]; other site 96563003819 active site 96563003820 UGI interface [polypeptide binding]; other site 96563003821 catalytic site [active] 96563003822 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 96563003823 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 96563003824 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 96563003825 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 96563003826 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 96563003827 Uncharacterized conserved protein [Function unknown]; Region: COG2938 96563003828 L-aspartate oxidase; Provisional; Region: PRK09077 96563003829 L-aspartate oxidase; Provisional; Region: PRK06175 96563003830 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 96563003831 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 96563003832 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 96563003833 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 96563003834 DNA binding residues [nucleotide binding] 96563003835 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 96563003836 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 96563003837 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 96563003838 MucB/RseB family; Region: MucB_RseB; pfam03888 96563003839 anti-sigma E factor; Provisional; Region: rseB; PRK09455 96563003840 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 96563003841 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 96563003842 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 96563003843 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 96563003844 protein binding site [polypeptide binding]; other site 96563003845 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 96563003846 protein binding site [polypeptide binding]; other site 96563003847 GTP-binding protein LepA; Provisional; Region: PRK05433 96563003848 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 96563003849 G1 box; other site 96563003850 putative GEF interaction site [polypeptide binding]; other site 96563003851 GTP/Mg2+ binding site [chemical binding]; other site 96563003852 Switch I region; other site 96563003853 G2 box; other site 96563003854 G3 box; other site 96563003855 Switch II region; other site 96563003856 G4 box; other site 96563003857 G5 box; other site 96563003858 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 96563003859 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 96563003860 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 96563003861 signal peptidase I; Provisional; Region: PRK10861 96563003862 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 96563003863 Catalytic site [active] 96563003864 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 96563003865 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 96563003866 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 96563003867 dimerization interface [polypeptide binding]; other site 96563003868 active site 96563003869 metal binding site [ion binding]; metal-binding site 96563003870 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 96563003871 GTPase Era; Reviewed; Region: era; PRK00089 96563003872 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 96563003873 G1 box; other site 96563003874 GTP/Mg2+ binding site [chemical binding]; other site 96563003875 Switch I region; other site 96563003876 G2 box; other site 96563003877 Switch II region; other site 96563003878 G3 box; other site 96563003879 G4 box; other site 96563003880 G5 box; other site 96563003881 KH domain; Region: KH_2; pfam07650 96563003882 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 96563003883 Recombination protein O N terminal; Region: RecO_N; pfam11967 96563003884 Recombination protein O C terminal; Region: RecO_C; pfam02565 96563003885 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 96563003886 active site 96563003887 hydrophilic channel; other site 96563003888 dimerization interface [polypeptide binding]; other site 96563003889 catalytic residues [active] 96563003890 active site lid [active] 96563003891 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 96563003892 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563003893 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563003894 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 96563003895 dimerization interface [polypeptide binding]; other site 96563003896 Methyltransferase domain; Region: Methyltransf_31; pfam13847 96563003897 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 96563003898 S-adenosylmethionine binding site [chemical binding]; other site 96563003899 Methyltransferase domain; Region: Methyltransf_31; pfam13847 96563003900 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 96563003901 S-adenosylmethionine binding site [chemical binding]; other site 96563003902 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 96563003903 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 96563003904 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 96563003905 Walker A motif; other site 96563003906 ATP binding site [chemical binding]; other site 96563003907 Walker B motif; other site 96563003908 arginine finger; other site 96563003909 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 96563003910 Cupin domain; Region: Cupin_2; cl17218 96563003911 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563003912 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 96563003913 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563003914 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 96563003915 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 96563003916 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 96563003917 Glutamate binding site [chemical binding]; other site 96563003918 NAD binding site [chemical binding]; other site 96563003919 catalytic residues [active] 96563003920 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 96563003921 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 96563003922 Na binding site [ion binding]; other site 96563003923 Protein of unknown function (DUF3203); Region: DUF3203; pfam11462 96563003924 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 96563003925 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 96563003926 N-terminal plug; other site 96563003927 ligand-binding site [chemical binding]; other site 96563003928 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 96563003929 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 96563003930 Na binding site [ion binding]; other site 96563003931 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 96563003932 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 96563003933 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 96563003934 heterodimer interface [polypeptide binding]; other site 96563003935 multimer interface [polypeptide binding]; other site 96563003936 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 96563003937 active site 96563003938 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 96563003939 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 96563003940 heterodimer interface [polypeptide binding]; other site 96563003941 active site 96563003942 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 96563003943 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 96563003944 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 96563003945 Bacterial transcriptional regulator; Region: IclR; pfam01614 96563003946 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 96563003947 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 96563003948 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 96563003949 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 96563003950 dimer interface [polypeptide binding]; other site 96563003951 active site 96563003952 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 96563003953 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 96563003954 tetramer interface [polypeptide binding]; other site 96563003955 active site 96563003956 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 96563003957 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 96563003958 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563003959 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563003960 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 96563003961 dimerization interface [polypeptide binding]; other site 96563003962 substrate binding pocket [chemical binding]; other site 96563003963 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 96563003964 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563003965 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 96563003966 dimerization interface [polypeptide binding]; other site 96563003967 substrate binding pocket [chemical binding]; other site 96563003968 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 96563003969 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 96563003970 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 96563003971 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 96563003972 Magnesium ion binding site [ion binding]; other site 96563003973 YcfA-like protein; Region: YcfA; cl00752 96563003974 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 96563003975 ParB-like nuclease domain; Region: ParBc; pfam02195 96563003976 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 96563003977 RelB antitoxin; Region: RelB; cl01171 96563003978 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 96563003979 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 96563003980 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 96563003981 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 96563003982 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 96563003983 dimer interface [polypeptide binding]; other site 96563003984 ssDNA binding site [nucleotide binding]; other site 96563003985 tetramer (dimer of dimers) interface [polypeptide binding]; other site 96563003986 DNA topoisomerase III; Provisional; Region: PRK07726 96563003987 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 96563003988 active site 96563003989 putative interdomain interaction site [polypeptide binding]; other site 96563003990 putative metal-binding site [ion binding]; other site 96563003991 putative nucleotide binding site [chemical binding]; other site 96563003992 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 96563003993 domain I; other site 96563003994 DNA binding groove [nucleotide binding] 96563003995 phosphate binding site [ion binding]; other site 96563003996 domain II; other site 96563003997 domain III; other site 96563003998 nucleotide binding site [chemical binding]; other site 96563003999 catalytic site [active] 96563004000 domain IV; other site 96563004001 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 96563004002 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 96563004003 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 96563004004 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 96563004005 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 96563004006 S-adenosylmethionine binding site [chemical binding]; other site 96563004007 DEAD-like helicases superfamily; Region: DEXDc; smart00487 96563004008 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 96563004009 nucleotide binding region [chemical binding]; other site 96563004010 ATP-binding site [chemical binding]; other site 96563004011 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 96563004012 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 96563004013 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 96563004014 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 96563004015 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 96563004016 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 96563004017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 96563004018 ABC transporter signature motif; other site 96563004019 Walker B; other site 96563004020 D-loop; other site 96563004021 H-loop/switch region; other site 96563004022 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 96563004023 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 96563004024 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 96563004025 DNA methylase; Region: N6_N4_Mtase; pfam01555 96563004026 DNA methylase; Region: N6_N4_Mtase; pfam01555 96563004027 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 96563004028 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 96563004029 active site 96563004030 catalytic triad [active] 96563004031 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 96563004032 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 96563004033 Walker A motif; other site 96563004034 ATP binding site [chemical binding]; other site 96563004035 Walker B motif; other site 96563004036 arginine finger; other site 96563004037 DEAD-like helicases superfamily; Region: DEXDc; smart00487 96563004038 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 96563004039 ATP binding site [chemical binding]; other site 96563004040 putative Mg++ binding site [ion binding]; other site 96563004041 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 96563004042 nucleotide binding region [chemical binding]; other site 96563004043 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 96563004044 ATP-binding site [chemical binding]; other site 96563004045 Helix-turn-helix domain; Region: HTH_17; pfam12728 96563004046 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 96563004047 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 96563004048 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 96563004049 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 96563004050 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 96563004051 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 96563004052 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 96563004053 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 96563004054 Protein of unknown function (DUF904); Region: DUF904; pfam06005 96563004055 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 96563004056 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 96563004057 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 96563004058 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 96563004059 catalytic residues [active] 96563004060 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 96563004061 MPN+ (JAMM) motif; other site 96563004062 Zinc-binding site [ion binding]; other site 96563004063 Protein of unknown function (DUF1525); Region: DUF1525; pfam07511 96563004064 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 96563004065 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 96563004066 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 96563004067 Protein of unknown function (DUF3742); Region: DUF3742; pfam12553 96563004068 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 96563004069 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 96563004070 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 96563004071 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 96563004072 Putative helicase; Region: TraI_2; pfam07514 96563004073 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 96563004074 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 96563004075 multiple promoter invertase; Provisional; Region: mpi; PRK13413 96563004076 catalytic residues [active] 96563004077 catalytic nucleophile [active] 96563004078 Presynaptic Site I dimer interface [polypeptide binding]; other site 96563004079 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 96563004080 Synaptic Flat tetramer interface [polypeptide binding]; other site 96563004081 Synaptic Site I dimer interface [polypeptide binding]; other site 96563004082 DNA binding site [nucleotide binding] 96563004083 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 96563004084 DNA-binding interface [nucleotide binding]; DNA binding site 96563004085 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 96563004086 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 96563004087 putative mercury resistance protein; Provisional; Region: PRK13747 96563004088 transcriptional regulator MerD; Provisional; Region: PRK13749 96563004089 Helix-Turn-Helix DNA binding domain of the MerD transcription regulator; Region: HTH_MerD; cd01111 96563004090 DNA binding residues [nucleotide binding] 96563004091 putative dimer interface [polypeptide binding]; other site 96563004092 putative mercuric reductase; Provisional; Region: PRK13748 96563004093 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 96563004094 metal-binding site [ion binding] 96563004095 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 96563004096 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 96563004097 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 96563004098 metal-binding site [ion binding] 96563004099 putative mercuric transport protein; Provisional; Region: PRK13751 96563004100 putative transcriptional regulator MerR; Provisional; Region: PRK13752 96563004101 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 96563004102 DNA binding residues [nucleotide binding] 96563004103 dimer interface [polypeptide binding]; other site 96563004104 mercury binding site [ion binding]; other site 96563004105 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 96563004106 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 96563004107 dimerization interface [polypeptide binding]; other site 96563004108 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 96563004109 dimer interface [polypeptide binding]; other site 96563004110 phosphorylation site [posttranslational modification] 96563004111 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 96563004112 ATP binding site [chemical binding]; other site 96563004113 Mg2+ binding site [ion binding]; other site 96563004114 G-X-G motif; other site 96563004115 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 96563004116 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563004117 active site 96563004118 phosphorylation site [posttranslational modification] 96563004119 intermolecular recognition site; other site 96563004120 dimerization interface [polypeptide binding]; other site 96563004121 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 96563004122 DNA binding site [nucleotide binding] 96563004123 outer membrane porin, OprD family; Region: OprD; pfam03573 96563004124 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 96563004125 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 96563004126 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 96563004127 HlyD family secretion protein; Region: HlyD_3; pfam13437 96563004128 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 96563004129 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 96563004130 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 96563004131 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 96563004132 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 96563004133 sequence-specific DNA binding site [nucleotide binding]; other site 96563004134 salt bridge; other site 96563004135 LysR substrate binding domain; Region: LysR_substrate; pfam03466 96563004136 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 96563004137 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 96563004138 active site 96563004139 Int/Topo IB signature motif; other site 96563004140 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 96563004141 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 96563004142 RNA binding surface [nucleotide binding]; other site 96563004143 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 96563004144 active site 96563004145 uracil binding [chemical binding]; other site 96563004146 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 96563004147 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 96563004148 active site 96563004149 HIGH motif; other site 96563004150 KMSKS motif; other site 96563004151 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 96563004152 anticodon binding site; other site 96563004153 tRNA binding surface [nucleotide binding]; other site 96563004154 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 96563004155 dimer interface [polypeptide binding]; other site 96563004156 putative tRNA-binding site [nucleotide binding]; other site 96563004157 antiporter inner membrane protein; Provisional; Region: PRK11670 96563004158 Domain of unknown function DUF59; Region: DUF59; pfam01883 96563004159 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 96563004160 Walker A motif; other site 96563004161 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 96563004162 DNA-binding site [nucleotide binding]; DNA binding site 96563004163 RNA-binding motif; other site 96563004164 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 96563004165 trimer interface [polypeptide binding]; other site 96563004166 active site 96563004167 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 96563004168 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 96563004169 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 96563004170 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 96563004171 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 96563004172 [4Fe-4S] binding site [ion binding]; other site 96563004173 molybdopterin cofactor binding site; other site 96563004174 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 96563004175 molybdopterin cofactor binding site; other site 96563004176 NapD protein; Region: NapD; pfam03927 96563004177 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 96563004178 hypothetical protein; Provisional; Region: PRK04860 96563004179 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 96563004180 Yip1 domain; Region: Yip1; pfam04893 96563004181 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 96563004182 DNA-J related protein; Region: DNAJ_related; pfam12339 96563004183 DnaJ molecular chaperone homology domain; Region: DnaJ; smart00271 96563004184 HSP70 interaction site [polypeptide binding]; other site 96563004185 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 96563004186 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 96563004187 Ligand Binding Site [chemical binding]; other site 96563004188 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 96563004189 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 96563004190 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 96563004191 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 96563004192 AZL_007950 family protein; Region: AZL_007950_fam; TIGR04061 96563004193 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 96563004194 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 96563004195 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 96563004196 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 96563004197 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; cl11451 96563004198 NAD-dependent deacetylase; Provisional; Region: PRK00481 96563004199 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 96563004200 NAD+ binding site [chemical binding]; other site 96563004201 substrate binding site [chemical binding]; other site 96563004202 Zn binding site [ion binding]; other site 96563004203 NlpC/P60 family; Region: NLPC_P60; pfam00877 96563004204 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 96563004205 NlpC/P60 family; Region: NLPC_P60; pfam00877 96563004206 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 96563004207 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 96563004208 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 96563004209 putative active site [active] 96563004210 putative metal binding site [ion binding]; other site 96563004211 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 96563004212 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 96563004213 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 96563004214 N-terminal plug; other site 96563004215 ligand-binding site [chemical binding]; other site 96563004216 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 96563004217 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 96563004218 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 96563004219 Walker A motif; other site 96563004220 homodimer interface [polypeptide binding]; other site 96563004221 ATP binding site [chemical binding]; other site 96563004222 hydroxycobalamin binding site [chemical binding]; other site 96563004223 Walker B motif; other site 96563004224 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 96563004225 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 96563004226 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 96563004227 catalytic triad [active] 96563004228 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 96563004229 putative FMN binding site [chemical binding]; other site 96563004230 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 96563004231 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 96563004232 cobalamin binding residues [chemical binding]; other site 96563004233 putative BtuC binding residues; other site 96563004234 dimer interface [polypeptide binding]; other site 96563004235 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 96563004236 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 96563004237 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 96563004238 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563004239 homodimer interface [polypeptide binding]; other site 96563004240 catalytic residue [active] 96563004241 cobyric acid synthase; Provisional; Region: PRK00784 96563004242 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 96563004243 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 96563004244 catalytic triad [active] 96563004245 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 96563004246 homotrimer interface [polypeptide binding]; other site 96563004247 Walker A motif; other site 96563004248 GTP binding site [chemical binding]; other site 96563004249 Walker B motif; other site 96563004250 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 96563004251 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 96563004252 putative dimer interface [polypeptide binding]; other site 96563004253 active site pocket [active] 96563004254 putative cataytic base [active] 96563004255 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 96563004256 catalytic core [active] 96563004257 cobalamin synthase; Reviewed; Region: cobS; PRK00235 96563004258 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563004259 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563004260 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 96563004261 putative effector binding pocket; other site 96563004262 putative dimerization interface [polypeptide binding]; other site 96563004263 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 96563004264 homotrimer interaction site [polypeptide binding]; other site 96563004265 putative active site [active] 96563004266 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 96563004267 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563004268 Walker A/P-loop; other site 96563004269 ATP binding site [chemical binding]; other site 96563004270 Q-loop/lid; other site 96563004271 ABC transporter signature motif; other site 96563004272 Walker B; other site 96563004273 D-loop; other site 96563004274 H-loop/switch region; other site 96563004275 TOBE domain; Region: TOBE; pfam03459 96563004276 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 96563004277 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563004278 dimer interface [polypeptide binding]; other site 96563004279 conserved gate region; other site 96563004280 putative PBP binding loops; other site 96563004281 ABC-ATPase subunit interface; other site 96563004282 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 96563004283 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 96563004284 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 96563004285 catalytic residues [active] 96563004286 dimer interface [polypeptide binding]; other site 96563004287 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 96563004288 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 96563004289 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 96563004290 active site residue [active] 96563004291 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 96563004292 active site residue [active] 96563004293 ribonuclease D; Region: rnd; TIGR01388 96563004294 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 96563004295 catalytic site [active] 96563004296 putative active site [active] 96563004297 putative substrate binding site [chemical binding]; other site 96563004298 HRDC domain; Region: HRDC; pfam00570 96563004299 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 96563004300 hypothetical protein; Provisional; Region: PRK05170 96563004301 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 96563004302 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 96563004303 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 96563004304 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 96563004305 tetramer interface [polypeptide binding]; other site 96563004306 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563004307 catalytic residue [active] 96563004308 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 96563004309 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 96563004310 motif 1; other site 96563004311 active site 96563004312 motif 2; other site 96563004313 motif 3; other site 96563004314 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 96563004315 DHHA1 domain; Region: DHHA1; pfam02272 96563004316 aspartate kinase; Reviewed; Region: PRK06635 96563004317 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 96563004318 putative nucleotide binding site [chemical binding]; other site 96563004319 putative catalytic residues [active] 96563004320 putative Mg ion binding site [ion binding]; other site 96563004321 putative aspartate binding site [chemical binding]; other site 96563004322 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 96563004323 putative allosteric regulatory site; other site 96563004324 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 96563004325 putative allosteric regulatory residue; other site 96563004326 carbon storage regulator; Provisional; Region: PRK01712 96563004327 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 96563004328 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 96563004329 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 96563004330 MgtE intracellular N domain; Region: MgtE_N; smart00924 96563004331 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 96563004332 Divalent cation transporter; Region: MgtE; cl00786 96563004333 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK02919 96563004334 oxaloacetate decarboxylase; Provisional; Region: PRK14040 96563004335 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 96563004336 active site 96563004337 catalytic residues [active] 96563004338 metal binding site [ion binding]; metal-binding site 96563004339 homodimer binding site [polypeptide binding]; other site 96563004340 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 96563004341 carboxyltransferase (CT) interaction site; other site 96563004342 biotinylation site [posttranslational modification]; other site 96563004343 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 96563004344 Arc-like DNA binding domain; Region: Arc; pfam03869 96563004345 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 96563004346 Transposase; Region: DDE_Tnp_ISL3; pfam01610 96563004347 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 96563004348 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 96563004349 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 96563004350 Walker A motif; other site 96563004351 ATP binding site [chemical binding]; other site 96563004352 Walker B motif; other site 96563004353 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563004354 Integrase core domain; Region: rve; pfam00665 96563004355 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563004356 Flagellar regulator YcgR; Region: YcgR; pfam07317 96563004357 PilZ domain; Region: PilZ; pfam07238 96563004358 FlgN protein; Region: FlgN; pfam05130 96563004359 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 96563004360 SAF-like; Region: SAF_2; pfam13144 96563004361 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 96563004362 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 96563004363 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 96563004364 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96563004365 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563004366 active site 96563004367 phosphorylation site [posttranslational modification] 96563004368 intermolecular recognition site; other site 96563004369 dimerization interface [polypeptide binding]; other site 96563004370 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 96563004371 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 96563004372 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 96563004373 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 96563004374 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 96563004375 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 96563004376 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 96563004377 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 96563004378 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 96563004379 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 96563004380 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 96563004381 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 96563004382 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 96563004383 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 96563004384 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 96563004385 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 96563004386 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 96563004387 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 96563004388 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 96563004389 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 96563004390 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 96563004391 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 96563004392 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 96563004393 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 96563004394 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 96563004395 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 96563004396 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 96563004397 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 96563004398 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 96563004399 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 96563004400 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 96563004401 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 96563004402 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 96563004403 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 96563004404 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 96563004405 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 96563004406 non-specific DNA binding site [nucleotide binding]; other site 96563004407 salt bridge; other site 96563004408 sequence-specific DNA binding site [nucleotide binding]; other site 96563004409 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 96563004410 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 96563004411 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 96563004412 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563004413 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563004414 metal binding site [ion binding]; metal-binding site 96563004415 active site 96563004416 I-site; other site 96563004417 carboxy-terminal protease; Provisional; Region: PRK11186 96563004418 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 96563004419 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 96563004420 protein binding site [polypeptide binding]; other site 96563004421 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 96563004422 Catalytic dyad [active] 96563004423 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 96563004424 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 96563004425 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 96563004426 NAD(P) binding site [chemical binding]; other site 96563004427 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 96563004428 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 96563004429 active site 96563004430 metal binding site [ion binding]; metal-binding site 96563004431 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 96563004432 S-adenosylmethionine binding site [chemical binding]; other site 96563004433 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 96563004434 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 96563004435 active site 96563004436 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 96563004437 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 96563004438 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 96563004439 Switch I; other site 96563004440 Switch II; other site 96563004441 septum formation inhibitor; Reviewed; Region: minC; PRK00339 96563004442 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 96563004443 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 96563004444 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 96563004445 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 96563004446 putative acyl-acceptor binding pocket; other site 96563004447 Pirin-related protein [General function prediction only]; Region: COG1741 96563004448 Pirin; Region: Pirin; pfam02678 96563004449 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 96563004450 VacJ like lipoprotein; Region: VacJ; cl01073 96563004451 Predicted membrane protein [Function unknown]; Region: COG3205 96563004452 Predicted membrane protein [Function unknown]; Region: COG3162 96563004453 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 96563004454 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 96563004455 Na binding site [ion binding]; other site 96563004456 short chain dehydrogenase; Provisional; Region: PRK05650 96563004457 classical (c) SDRs; Region: SDR_c; cd05233 96563004458 NAD(P) binding site [chemical binding]; other site 96563004459 active site 96563004460 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 96563004461 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 96563004462 putative substrate translocation pore; other site 96563004463 hypothetical protein; Provisional; Region: PRK00304 96563004464 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 96563004465 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 96563004466 putative oligomer interface [polypeptide binding]; other site 96563004467 putative active site [active] 96563004468 metal binding site [ion binding]; metal-binding site 96563004469 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 96563004470 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96563004471 Coenzyme A binding pocket [chemical binding]; other site 96563004472 ATP-grasp domain; Region: ATP-grasp_4; cl17255 96563004473 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 96563004474 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 96563004475 active site 96563004476 dimer interface [polypeptide binding]; other site 96563004477 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 96563004478 Ligand Binding Site [chemical binding]; other site 96563004479 Molecular Tunnel; other site 96563004480 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 96563004481 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 96563004482 active site 96563004483 catalytic residues [active] 96563004484 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 96563004485 Methyltransferase domain; Region: Methyltransf_25; pfam13649 96563004486 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 96563004487 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 96563004488 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 96563004489 Protein of unknown function (DUF1264); Region: DUF1264; pfam06884 96563004490 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 96563004491 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96563004492 NAD(P) binding site [chemical binding]; other site 96563004493 active site 96563004494 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 96563004495 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 96563004496 RNA binding surface [nucleotide binding]; other site 96563004497 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 96563004498 active site 96563004499 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 96563004500 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 96563004501 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 96563004502 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 96563004503 Trp docking motif [polypeptide binding]; other site 96563004504 putative active site [active] 96563004505 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 96563004506 S1 domain; Region: S1_2; pfam13509 96563004507 S1 domain; Region: S1_2; pfam13509 96563004508 Protein of unknown function, DUF488; Region: DUF488; pfam04343 96563004509 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 96563004510 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 96563004511 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 96563004512 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 96563004513 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 96563004514 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 96563004515 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96563004516 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96563004517 Helix-turn-helix domain; Region: HTH_18; pfam12833 96563004518 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563004519 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 96563004520 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563004521 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563004522 metal binding site [ion binding]; metal-binding site 96563004523 active site 96563004524 I-site; other site 96563004525 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 96563004526 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 96563004527 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96563004528 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 96563004529 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 96563004530 Predicted deacetylase [General function prediction only]; Region: COG3233 96563004531 putative active site [active] 96563004532 putative Zn binding site [ion binding]; other site 96563004533 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 96563004534 CsbD-like; Region: CsbD; pfam05532 96563004535 Ferredoxin [Energy production and conversion]; Region: COG1146 96563004536 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 96563004537 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 96563004538 MutS domain I; Region: MutS_I; pfam01624 96563004539 MutS domain II; Region: MutS_II; pfam05188 96563004540 MutS domain III; Region: MutS_III; pfam05192 96563004541 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 96563004542 Walker A/P-loop; other site 96563004543 ATP binding site [chemical binding]; other site 96563004544 Q-loop/lid; other site 96563004545 ABC transporter signature motif; other site 96563004546 Walker B; other site 96563004547 D-loop; other site 96563004548 H-loop/switch region; other site 96563004549 Acyltransferase family; Region: Acyl_transf_3; pfam01757 96563004550 Competence-damaged protein; Region: CinA; pfam02464 96563004551 recombinase A; Provisional; Region: recA; PRK09354 96563004552 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 96563004553 hexamer interface [polypeptide binding]; other site 96563004554 Walker A motif; other site 96563004555 ATP binding site [chemical binding]; other site 96563004556 Walker B motif; other site 96563004557 recombination regulator RecX; Reviewed; Region: recX; PRK00117 96563004558 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 96563004559 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 96563004560 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 96563004561 Beta-Casp domain; Region: Beta-Casp; smart01027 96563004562 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 96563004563 Phosphoketolase [Carbohydrate transport and metabolism]; Region: COG3957 96563004564 XFP N-terminal domain; Region: XFP_N; pfam09364 96563004565 Domain of unknown function (DUF4146); Region: DUF4146; pfam13652 96563004566 Uncharacterized conserved protein [Function unknown]; Region: COG3148 96563004567 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 96563004568 EamA-like transporter family; Region: EamA; pfam00892 96563004569 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 96563004570 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563004571 active site 96563004572 phosphorylation site [posttranslational modification] 96563004573 intermolecular recognition site; other site 96563004574 dimerization interface [polypeptide binding]; other site 96563004575 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 96563004576 DNA binding residues [nucleotide binding] 96563004577 dimerization interface [polypeptide binding]; other site 96563004578 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 96563004579 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563004580 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 96563004581 putative dimerization interface [polypeptide binding]; other site 96563004582 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 96563004583 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 96563004584 FAD binding pocket [chemical binding]; other site 96563004585 FAD binding motif [chemical binding]; other site 96563004586 phosphate binding motif [ion binding]; other site 96563004587 beta-alpha-beta structure motif; other site 96563004588 NAD binding pocket [chemical binding]; other site 96563004589 hypothetical protein; Provisional; Region: PRK00183 96563004590 SEC-C motif; Region: SEC-C; pfam02810 96563004591 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 96563004592 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 96563004593 ligand binding site [chemical binding]; other site 96563004594 Predicted integral membrane protein [Function unknown]; Region: COG5615 96563004595 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 96563004596 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 96563004597 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 96563004598 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 96563004599 Beta-lactamase; Region: Beta-lactamase; pfam00144 96563004600 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 96563004601 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 96563004602 ligand binding site [chemical binding]; other site 96563004603 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 96563004604 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 96563004605 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 96563004606 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 96563004607 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 96563004608 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 96563004609 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 96563004610 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 96563004611 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 96563004612 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 96563004613 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 96563004614 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 96563004615 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 96563004616 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 96563004617 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 96563004618 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 96563004619 metal binding triad; other site 96563004620 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 96563004621 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96563004622 Zn2+ binding site [ion binding]; other site 96563004623 Mg2+ binding site [ion binding]; other site 96563004624 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 96563004625 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 96563004626 methionine aminopeptidase; Provisional; Region: PRK08671 96563004627 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 96563004628 active site 96563004629 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 96563004630 rRNA interaction site [nucleotide binding]; other site 96563004631 S8 interaction site; other site 96563004632 putative laminin-1 binding site; other site 96563004633 elongation factor Ts; Provisional; Region: tsf; PRK09377 96563004634 UBA/TS-N domain; Region: UBA; pfam00627 96563004635 Elongation factor TS; Region: EF_TS; pfam00889 96563004636 Elongation factor TS; Region: EF_TS; pfam00889 96563004637 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 96563004638 putative nucleotide binding site [chemical binding]; other site 96563004639 uridine monophosphate binding site [chemical binding]; other site 96563004640 homohexameric interface [polypeptide binding]; other site 96563004641 ribosome recycling factor; Reviewed; Region: frr; PRK00083 96563004642 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 96563004643 hinge region; other site 96563004644 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 96563004645 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 96563004646 catalytic residue [active] 96563004647 putative FPP diphosphate binding site; other site 96563004648 putative FPP binding hydrophobic cleft; other site 96563004649 dimer interface [polypeptide binding]; other site 96563004650 putative IPP diphosphate binding site; other site 96563004651 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 96563004652 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 96563004653 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 96563004654 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 96563004655 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 96563004656 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 96563004657 zinc metallopeptidase RseP; Provisional; Region: PRK10779 96563004658 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 96563004659 active site 96563004660 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 96563004661 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 96563004662 protein binding site [polypeptide binding]; other site 96563004663 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 96563004664 putative substrate binding region [chemical binding]; other site 96563004665 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 96563004666 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 96563004667 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 96563004668 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 96563004669 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 96563004670 Surface antigen; Region: Bac_surface_Ag; pfam01103 96563004671 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 96563004672 periplasmic chaperone; Provisional; Region: PRK10780 96563004673 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 96563004674 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 96563004675 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 96563004676 trimer interface [polypeptide binding]; other site 96563004677 active site 96563004678 UDP-GlcNAc binding site [chemical binding]; other site 96563004679 lipid binding site [chemical binding]; lipid-binding site 96563004680 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 96563004681 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 96563004682 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 96563004683 active site 96563004684 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 96563004685 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 96563004686 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 96563004687 RNA/DNA hybrid binding site [nucleotide binding]; other site 96563004688 active site 96563004689 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 96563004690 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 96563004691 putative active site [active] 96563004692 putative PHP Thumb interface [polypeptide binding]; other site 96563004693 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 96563004694 generic binding surface II; other site 96563004695 generic binding surface I; other site 96563004696 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 96563004697 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 96563004698 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 96563004699 Ligand Binding Site [chemical binding]; other site 96563004700 TilS substrate binding domain; Region: TilS; pfam09179 96563004701 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 96563004702 CTP synthetase; Validated; Region: pyrG; PRK05380 96563004703 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 96563004704 Catalytic site [active] 96563004705 active site 96563004706 UTP binding site [chemical binding]; other site 96563004707 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 96563004708 active site 96563004709 putative oxyanion hole; other site 96563004710 catalytic triad [active] 96563004711 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 96563004712 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 96563004713 enolase; Provisional; Region: eno; PRK00077 96563004714 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 96563004715 dimer interface [polypeptide binding]; other site 96563004716 metal binding site [ion binding]; metal-binding site 96563004717 substrate binding pocket [chemical binding]; other site 96563004718 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 96563004719 Septum formation initiator; Region: DivIC; cl17659 96563004720 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 96563004721 substrate binding site; other site 96563004722 dimer interface; other site 96563004723 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 96563004724 30S subunit binding site; other site 96563004725 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563004726 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563004727 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 96563004728 putative effector binding pocket; other site 96563004729 putative dimerization interface [polypeptide binding]; other site 96563004730 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 96563004731 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 96563004732 substrate binding site [chemical binding]; other site 96563004733 catalytic Zn binding site [ion binding]; other site 96563004734 NAD binding site [chemical binding]; other site 96563004735 structural Zn binding site [ion binding]; other site 96563004736 dimer interface [polypeptide binding]; other site 96563004737 S-formylglutathione hydrolase; Region: PLN02442 96563004738 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 96563004739 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 96563004740 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 96563004741 FMN binding site [chemical binding]; other site 96563004742 active site 96563004743 substrate binding site [chemical binding]; other site 96563004744 catalytic residue [active] 96563004745 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 96563004746 dimerization interface [polypeptide binding]; other site 96563004747 putative DNA binding site [nucleotide binding]; other site 96563004748 putative Zn2+ binding site [ion binding]; other site 96563004749 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 96563004750 homotrimer interaction site [polypeptide binding]; other site 96563004751 zinc binding site [ion binding]; other site 96563004752 CDP-binding sites; other site 96563004753 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 96563004754 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 96563004755 Permutation of conserved domain; other site 96563004756 active site 96563004757 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 96563004758 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 96563004759 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 96563004760 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 96563004761 S-adenosylmethionine binding site [chemical binding]; other site 96563004762 Domain of unknown function (DUF368); Region: DUF368; pfam04018 96563004763 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 96563004764 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 96563004765 Peptidase family M23; Region: Peptidase_M23; pfam01551 96563004766 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 96563004767 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 96563004768 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 96563004769 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 96563004770 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 96563004771 DNA binding residues [nucleotide binding] 96563004772 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96563004773 Coenzyme A binding pocket [chemical binding]; other site 96563004774 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 96563004775 nudix motif; other site 96563004776 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 96563004777 Na binding site [ion binding]; other site 96563004778 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 96563004779 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 96563004780 active site 96563004781 dimerization interface [polypeptide binding]; other site 96563004782 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 96563004783 heme-binding site [chemical binding]; other site 96563004784 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 96563004785 Ligand Binding Site [chemical binding]; other site 96563004786 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 96563004787 active site 96563004788 hypothetical protein; Provisional; Region: PRK12378 96563004789 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 96563004790 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 96563004791 MOSC domain; Region: MOSC; pfam03473 96563004792 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 96563004793 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96563004794 Zn2+ binding site [ion binding]; other site 96563004795 Mg2+ binding site [ion binding]; other site 96563004796 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 96563004797 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 96563004798 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 96563004799 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 96563004800 putative ligand binding site [chemical binding]; other site 96563004801 NAD binding site [chemical binding]; other site 96563004802 dimerization interface [polypeptide binding]; other site 96563004803 catalytic site [active] 96563004804 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 96563004805 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 96563004806 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 96563004807 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 96563004808 active site 96563004809 dimerization interface [polypeptide binding]; other site 96563004810 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 96563004811 30S subunit binding site; other site 96563004812 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 96563004813 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 96563004814 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 96563004815 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 96563004816 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563004817 dimer interface [polypeptide binding]; other site 96563004818 putative CheW interface [polypeptide binding]; other site 96563004819 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 96563004820 PBP superfamily domain; Region: PBP_like_2; cl17296 96563004821 macrolide transporter subunit MacA; Provisional; Region: PRK11578 96563004822 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 96563004823 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 96563004824 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 96563004825 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 96563004826 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 96563004827 putative DNA binding site [nucleotide binding]; other site 96563004828 putative Zn2+ binding site [ion binding]; other site 96563004829 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 96563004830 glycerol kinase; Provisional; Region: glpK; PRK00047 96563004831 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 96563004832 N- and C-terminal domain interface [polypeptide binding]; other site 96563004833 active site 96563004834 MgATP binding site [chemical binding]; other site 96563004835 catalytic site [active] 96563004836 metal binding site [ion binding]; metal-binding site 96563004837 glycerol binding site [chemical binding]; other site 96563004838 homotetramer interface [polypeptide binding]; other site 96563004839 homodimer interface [polypeptide binding]; other site 96563004840 FBP binding site [chemical binding]; other site 96563004841 protein IIAGlc interface [polypeptide binding]; other site 96563004842 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 96563004843 amphipathic channel; other site 96563004844 Asn-Pro-Ala signature motifs; other site 96563004845 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 96563004846 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 96563004847 ATP binding site [chemical binding]; other site 96563004848 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 96563004849 putative Mg++ binding site [ion binding]; other site 96563004850 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 96563004851 nucleotide binding region [chemical binding]; other site 96563004852 ATP-binding site [chemical binding]; other site 96563004853 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 96563004854 Ion transport protein; Region: Ion_trans; pfam00520 96563004855 Ion channel; Region: Ion_trans_2; pfam07885 96563004856 Protein of unknown function DUF72; Region: DUF72; pfam01904 96563004857 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 96563004858 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 96563004859 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 96563004860 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 96563004861 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_3; cd06151 96563004862 homotrimer interaction site [polypeptide binding]; other site 96563004863 putative active site [active] 96563004864 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 96563004865 putative arabinose transporter; Provisional; Region: PRK03545 96563004866 putative substrate translocation pore; other site 96563004867 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 96563004868 Peptidase family U32; Region: Peptidase_U32; pfam01136 96563004869 Collagenase; Region: DUF3656; pfam12392 96563004870 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 96563004871 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 96563004872 DNA binding residues [nucleotide binding] 96563004873 putative dimer interface [polypeptide binding]; other site 96563004874 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 96563004875 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 96563004876 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 96563004877 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 96563004878 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 96563004879 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 96563004880 metal binding site [ion binding]; metal-binding site 96563004881 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 96563004882 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 96563004883 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 96563004884 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 96563004885 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 96563004886 DNA binding residues [nucleotide binding] 96563004887 dimer interface [polypeptide binding]; other site 96563004888 putative metal binding site [ion binding]; other site 96563004889 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 96563004890 Strictosidine synthase; Region: Str_synth; pfam03088 96563004891 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 96563004892 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 96563004893 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 96563004894 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563004895 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563004896 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 96563004897 putative substrate binding pocket [chemical binding]; other site 96563004898 putative dimerization interface [polypeptide binding]; other site 96563004899 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 96563004900 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 96563004901 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 96563004902 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 96563004903 dimer interface [polypeptide binding]; other site 96563004904 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 96563004905 active site 96563004906 heme binding site [chemical binding]; other site 96563004907 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 96563004908 Methyltransferase domain; Region: Methyltransf_25; pfam13649 96563004909 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96563004910 Coenzyme A binding pocket [chemical binding]; other site 96563004911 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 96563004912 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 96563004913 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 96563004914 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563004915 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 96563004916 dimerization interface [polypeptide binding]; other site 96563004917 substrate binding pocket [chemical binding]; other site 96563004918 Restriction endonuclease; Region: Mrr_cat; pfam04471 96563004919 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 96563004920 deoxyguanosinetriphosphate triphosphohydrolase, putative; Region: dGTP_triPase; TIGR01353 96563004921 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 96563004922 dimer interface [polypeptide binding]; other site 96563004923 putative radical transfer pathway; other site 96563004924 diiron center [ion binding]; other site 96563004925 tyrosyl radical; other site 96563004926 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 96563004927 ATP cone domain; Region: ATP-cone; pfam03477 96563004928 ATP cone domain; Region: ATP-cone; pfam03477 96563004929 Class I ribonucleotide reductase; Region: RNR_I; cd01679 96563004930 active site 96563004931 dimer interface [polypeptide binding]; other site 96563004932 catalytic residues [active] 96563004933 effector binding site; other site 96563004934 R2 peptide binding site; other site 96563004935 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 96563004936 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563004937 active site 96563004938 phosphorylation site [posttranslational modification] 96563004939 intermolecular recognition site; other site 96563004940 dimerization interface [polypeptide binding]; other site 96563004941 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 96563004942 DNA binding site [nucleotide binding] 96563004943 sensor protein RstB; Provisional; Region: PRK10604 96563004944 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 96563004945 dimerization interface [polypeptide binding]; other site 96563004946 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 96563004947 dimer interface [polypeptide binding]; other site 96563004948 phosphorylation site [posttranslational modification] 96563004949 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 96563004950 ATP binding site [chemical binding]; other site 96563004951 Mg2+ binding site [ion binding]; other site 96563004952 G-X-G motif; other site 96563004953 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 96563004954 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 96563004955 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 96563004956 active site 96563004957 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 96563004958 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 96563004959 Mechanosensitive ion channel; Region: MS_channel; pfam00924 96563004960 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 96563004961 active site residue [active] 96563004962 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 96563004963 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 96563004964 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 96563004965 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96563004966 Zn2+ binding site [ion binding]; other site 96563004967 Mg2+ binding site [ion binding]; other site 96563004968 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 96563004969 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 96563004970 substrate binding site [chemical binding]; other site 96563004971 oxyanion hole (OAH) forming residues; other site 96563004972 trimer interface [polypeptide binding]; other site 96563004973 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 96563004974 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 96563004975 inhibitor-cofactor binding pocket; inhibition site 96563004976 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563004977 catalytic residue [active] 96563004978 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 96563004979 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 96563004980 putative active site [active] 96563004981 Zn binding site [ion binding]; other site 96563004982 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 96563004983 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563004984 Walker A/P-loop; other site 96563004985 ATP binding site [chemical binding]; other site 96563004986 Q-loop/lid; other site 96563004987 ABC transporter signature motif; other site 96563004988 Walker B; other site 96563004989 D-loop; other site 96563004990 H-loop/switch region; other site 96563004991 inner membrane transport permease; Provisional; Region: PRK15066 96563004992 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 96563004993 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 96563004994 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 96563004995 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 96563004996 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 96563004997 VacJ like lipoprotein; Region: VacJ; cl01073 96563004998 PilZ domain; Region: PilZ; pfam07238 96563004999 Response regulator receiver domain; Region: Response_reg; pfam00072 96563005000 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563005001 active site 96563005002 phosphorylation site [posttranslational modification] 96563005003 intermolecular recognition site; other site 96563005004 dimerization interface [polypeptide binding]; other site 96563005005 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 96563005006 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 96563005007 anti sigma factor interaction site; other site 96563005008 regulatory phosphorylation site [posttranslational modification]; other site 96563005009 transaldolase-like protein; Provisional; Region: PTZ00411 96563005010 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 96563005011 active site 96563005012 dimer interface [polypeptide binding]; other site 96563005013 catalytic residue [active] 96563005014 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 96563005015 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 96563005016 FMN binding site [chemical binding]; other site 96563005017 active site 96563005018 catalytic residues [active] 96563005019 substrate binding site [chemical binding]; other site 96563005020 DctM-like transporters; Region: DctM; pfam06808 96563005021 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 96563005022 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 96563005023 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 96563005024 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 96563005025 Tannase and feruloyl esterase; Region: Tannase; pfam07519 96563005026 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 96563005027 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563005028 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 96563005029 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563005030 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 96563005031 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 96563005032 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 96563005033 putative alpha subunit interface [polypeptide binding]; other site 96563005034 putative active site [active] 96563005035 putative substrate binding site [chemical binding]; other site 96563005036 Fe binding site [ion binding]; other site 96563005037 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 96563005038 inter-subunit interface; other site 96563005039 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 96563005040 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 96563005041 catalytic loop [active] 96563005042 iron binding site [ion binding]; other site 96563005043 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 96563005044 FAD binding pocket [chemical binding]; other site 96563005045 FAD binding motif [chemical binding]; other site 96563005046 phosphate binding motif [ion binding]; other site 96563005047 beta-alpha-beta structure motif; other site 96563005048 NAD binding pocket [chemical binding]; other site 96563005049 benzoate transport; Region: 2A0115; TIGR00895 96563005050 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 96563005051 putative substrate translocation pore; other site 96563005052 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 96563005053 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 96563005054 octamer interface [polypeptide binding]; other site 96563005055 active site 96563005056 Muconolactone delta-isomerase; Region: MIase; cl01992 96563005057 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 96563005058 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 96563005059 dimer interface [polypeptide binding]; other site 96563005060 active site 96563005061 Benzoate membrane transport protein; Region: BenE; pfam03594 96563005062 benzoate transporter; Region: benE; TIGR00843 96563005063 outer membrane porin, OprD family; Region: OprD; pfam03573 96563005064 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 96563005065 Transposase; Region: HTH_Tnp_1; pfam01527 96563005066 putative transposase OrfB; Reviewed; Region: PHA02517 96563005067 HTH-like domain; Region: HTH_21; pfam13276 96563005068 Integrase core domain; Region: rve; pfam00665 96563005069 Integrase core domain; Region: rve_2; pfam13333 96563005070 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 96563005071 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 96563005072 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 96563005073 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 96563005074 PAS domain; Region: PAS_9; pfam13426 96563005075 putative active site [active] 96563005076 heme pocket [chemical binding]; other site 96563005077 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 96563005078 dimer interface [polypeptide binding]; other site 96563005079 phosphorylation site [posttranslational modification] 96563005080 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 96563005081 ATP binding site [chemical binding]; other site 96563005082 Mg2+ binding site [ion binding]; other site 96563005083 G-X-G motif; other site 96563005084 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563005085 active site 96563005086 phosphorylation site [posttranslational modification] 96563005087 intermolecular recognition site; other site 96563005088 dimerization interface [polypeptide binding]; other site 96563005089 Uncharacterized conserved protein [Function unknown]; Region: COG0398 96563005090 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 96563005091 mercuric reductase; Validated; Region: PRK06370 96563005092 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 96563005093 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 96563005094 fumarate hydratase; Provisional; Region: PRK12425 96563005095 Class II fumarases; Region: Fumarase_classII; cd01362 96563005096 active site 96563005097 tetramer interface [polypeptide binding]; other site 96563005098 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 96563005099 BolA-like protein; Region: BolA; pfam01722 96563005100 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 96563005101 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 96563005102 active site residue [active] 96563005103 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 96563005104 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 96563005105 catalytic residues [active] 96563005106 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 96563005107 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 96563005108 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563005109 Walker A/P-loop; other site 96563005110 ATP binding site [chemical binding]; other site 96563005111 Q-loop/lid; other site 96563005112 ABC transporter signature motif; other site 96563005113 Walker B; other site 96563005114 D-loop; other site 96563005115 H-loop/switch region; other site 96563005116 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 96563005117 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 96563005118 dimerization interface [polypeptide binding]; other site 96563005119 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563005120 dimer interface [polypeptide binding]; other site 96563005121 putative CheW interface [polypeptide binding]; other site 96563005122 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 96563005123 hypothetical protein; Provisional; Region: PRK09256 96563005124 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 96563005125 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 96563005126 putative substrate translocation pore; other site 96563005127 Predicted membrane protein [Function unknown]; Region: COG4325 96563005128 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 96563005129 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563005130 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563005131 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 96563005132 putative dimerization interface [polypeptide binding]; other site 96563005133 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 96563005134 Uncharacterized conserved protein [Function unknown]; Region: COG3777 96563005135 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 96563005136 active site 2 [active] 96563005137 active site 1 [active] 96563005138 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96563005139 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96563005140 active site 96563005141 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 96563005142 dimer interface [polypeptide binding]; other site 96563005143 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 96563005144 metal binding site [ion binding]; metal-binding site 96563005145 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 96563005146 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 96563005147 CoA-transferase family III; Region: CoA_transf_3; pfam02515 96563005148 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 96563005149 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 96563005150 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 96563005151 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 96563005152 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 96563005153 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 96563005154 active site 96563005155 catalytic residues [active] 96563005156 metal binding site [ion binding]; metal-binding site 96563005157 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 96563005158 CoA-transferase family III; Region: CoA_transf_3; pfam02515 96563005159 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563005160 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563005161 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 96563005162 putative dimerization interface [polypeptide binding]; other site 96563005163 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 96563005164 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 96563005165 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 96563005166 Predicted membrane protein [Function unknown]; Region: COG4325 96563005167 acetyl-CoA synthetase; Provisional; Region: PRK00174 96563005168 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 96563005169 active site 96563005170 CoA binding site [chemical binding]; other site 96563005171 acyl-activating enzyme (AAE) consensus motif; other site 96563005172 AMP binding site [chemical binding]; other site 96563005173 acetate binding site [chemical binding]; other site 96563005174 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 96563005175 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 96563005176 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 96563005177 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 96563005178 substrate binding site [chemical binding]; other site 96563005179 oxyanion hole (OAH) forming residues; other site 96563005180 trimer interface [polypeptide binding]; other site 96563005181 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 96563005182 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 96563005183 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 96563005184 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 96563005185 dimer interface [polypeptide binding]; other site 96563005186 active site 96563005187 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 96563005188 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 96563005189 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 96563005190 active site 96563005191 interdomain interaction site; other site 96563005192 putative metal-binding site [ion binding]; other site 96563005193 nucleotide binding site [chemical binding]; other site 96563005194 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 96563005195 domain I; other site 96563005196 DNA binding groove [nucleotide binding] 96563005197 phosphate binding site [ion binding]; other site 96563005198 domain II; other site 96563005199 domain III; other site 96563005200 nucleotide binding site [chemical binding]; other site 96563005201 catalytic site [active] 96563005202 domain IV; other site 96563005203 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 96563005204 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 96563005205 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 96563005206 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 96563005207 Cell division inhibitor SulA; Region: SulA; cl01880 96563005208 LexA repressor; Validated; Region: PRK00215 96563005209 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 96563005210 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 96563005211 Catalytic site [active] 96563005212 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96563005213 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96563005214 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 96563005215 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 96563005216 beta-hexosaminidase; Provisional; Region: PRK05337 96563005217 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 96563005218 5'-methylthioadenosine phosphorylase; Validated; Region: PRK09136 96563005219 Water Stress and Hypersensitive response; Region: WHy; smart00769 96563005220 SEC-C motif; Region: SEC-C; pfam02810 96563005221 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 96563005222 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 96563005223 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 96563005224 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 96563005225 active site 96563005226 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 96563005227 homodimer interaction site [polypeptide binding]; other site 96563005228 cofactor binding site; other site 96563005229 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 96563005230 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 96563005231 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563005232 catalytic residue [active] 96563005233 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 96563005234 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 96563005235 NAD(P) binding site [chemical binding]; other site 96563005236 catalytic residues [active] 96563005237 choline dehydrogenase; Validated; Region: PRK02106 96563005238 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 96563005239 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 96563005240 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 96563005241 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 96563005242 FeS/SAM binding site; other site 96563005243 Acyltransferase family; Region: Acyl_transf_3; pfam01757 96563005244 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 96563005245 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 96563005246 active site 96563005247 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96563005248 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 96563005249 putative ADP-binding pocket [chemical binding]; other site 96563005250 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96563005251 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 96563005252 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96563005253 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 96563005254 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 96563005255 transcriptional activator RfaH; Region: RfaH; TIGR01955 96563005256 WbqC-like protein family; Region: WbqC; pfam08889 96563005257 tyrosine kinase; Provisional; Region: PRK11519 96563005258 Chain length determinant protein; Region: Wzz; pfam02706 96563005259 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 96563005260 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 96563005261 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 96563005262 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 96563005263 active site 96563005264 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 96563005265 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 96563005266 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 96563005267 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 96563005268 inhibitor-cofactor binding pocket; inhibition site 96563005269 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563005270 catalytic residue [active] 96563005271 Homeodomain-like domain; Region: HTH_23; pfam13384 96563005272 Winged helix-turn helix; Region: HTH_29; pfam13551 96563005273 Winged helix-turn helix; Region: HTH_33; pfam13592 96563005274 DDE superfamily endonuclease; Region: DDE_3; pfam13358 96563005275 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 96563005276 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 96563005277 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 96563005278 FMN binding site [chemical binding]; other site 96563005279 active site 96563005280 catalytic residues [active] 96563005281 substrate binding site [chemical binding]; other site 96563005282 short chain dehydrogenase; Provisional; Region: PRK06123 96563005283 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96563005284 NAD(P) binding site [chemical binding]; other site 96563005285 active site 96563005286 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 96563005287 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 96563005288 putative dimer interface [polypeptide binding]; other site 96563005289 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563005290 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563005291 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 96563005292 dimerization interface [polypeptide binding]; other site 96563005293 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 96563005294 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 96563005295 substrate binding site [chemical binding]; other site 96563005296 ligand binding site [chemical binding]; other site 96563005297 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 96563005298 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 96563005299 substrate binding site [chemical binding]; other site 96563005300 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 96563005301 tartrate dehydrogenase; Region: TTC; TIGR02089 96563005302 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 96563005303 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 96563005304 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 96563005305 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 96563005306 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 96563005307 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 96563005308 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 96563005309 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 96563005310 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 96563005311 dimerization interface 3.5A [polypeptide binding]; other site 96563005312 active site 96563005313 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 96563005314 active site 96563005315 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 96563005316 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 96563005317 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 96563005318 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 96563005319 Sporulation related domain; Region: SPOR; pfam05036 96563005320 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 96563005321 Colicin V production protein; Region: Colicin_V; cl00567 96563005322 amidophosphoribosyltransferase; Provisional; Region: PRK09246 96563005323 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 96563005324 active site 96563005325 tetramer interface [polypeptide binding]; other site 96563005326 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 96563005327 active site 96563005328 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 96563005329 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 96563005330 homodimer interface [polypeptide binding]; other site 96563005331 substrate-cofactor binding pocket; other site 96563005332 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563005333 catalytic residue [active] 96563005334 type II secretion system protein D; Region: type_II_gspD; TIGR02517 96563005335 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 96563005336 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 96563005337 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 96563005338 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 96563005339 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 96563005340 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 96563005341 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 96563005342 DNA binding residues [nucleotide binding] 96563005343 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 96563005344 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 96563005345 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96563005346 Coenzyme A binding pocket [chemical binding]; other site 96563005347 Uncharacterized conserved protein (DUF2149); Region: DUF2149; cl01960 96563005348 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 96563005349 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 96563005350 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 96563005351 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 96563005352 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 96563005353 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 96563005354 N-terminal plug; other site 96563005355 ligand-binding site [chemical binding]; other site 96563005356 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 96563005357 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 96563005358 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 96563005359 tetramer interface [polypeptide binding]; other site 96563005360 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563005361 catalytic residue [active] 96563005362 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563005363 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563005364 dimerization interface [polypeptide binding]; other site 96563005365 LysR substrate binding domain; Region: LysR_substrate; pfam03466 96563005366 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 96563005367 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 96563005368 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 96563005369 putative substrate translocation pore; other site 96563005370 Major Facilitator Superfamily; Region: MFS_1; pfam07690 96563005371 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 96563005372 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 96563005373 tetramer interface [polypeptide binding]; other site 96563005374 active site 96563005375 Mg2+/Mn2+ binding site [ion binding]; other site 96563005376 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 96563005377 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 96563005378 putative active site [active] 96563005379 heme pocket [chemical binding]; other site 96563005380 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 96563005381 putative active site [active] 96563005382 heme pocket [chemical binding]; other site 96563005383 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563005384 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563005385 metal binding site [ion binding]; metal-binding site 96563005386 active site 96563005387 I-site; other site 96563005388 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 96563005389 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 96563005390 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 96563005391 active site 96563005392 Zn binding site [ion binding]; other site 96563005393 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 96563005394 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 96563005395 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 96563005396 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 96563005397 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 96563005398 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 96563005399 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563005400 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 96563005401 active site 96563005402 catalytic triad [active] 96563005403 dimer interface [polypeptide binding]; other site 96563005404 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 96563005405 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 96563005406 active site 96563005407 FMN binding site [chemical binding]; other site 96563005408 2,4-decadienoyl-CoA binding site; other site 96563005409 catalytic residue [active] 96563005410 4Fe-4S cluster binding site [ion binding]; other site 96563005411 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 96563005412 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 96563005413 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 96563005414 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 96563005415 catalytic residue [active] 96563005416 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 96563005417 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; cl00047 96563005418 ligand binding site [chemical binding]; other site 96563005419 flexible hinge region; other site 96563005420 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 96563005421 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 96563005422 ligand binding site [chemical binding]; other site 96563005423 flexible hinge region; other site 96563005424 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 96563005425 active site residue [active] 96563005426 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 96563005427 multidrug efflux protein; Reviewed; Region: PRK01766 96563005428 cation binding site [ion binding]; other site 96563005429 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 96563005430 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 96563005431 ligand binding site [chemical binding]; other site 96563005432 NAD binding site [chemical binding]; other site 96563005433 catalytic site [active] 96563005434 homodimer interface [polypeptide binding]; other site 96563005435 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 96563005436 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 96563005437 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 96563005438 putative active site [active] 96563005439 putative NTP binding site [chemical binding]; other site 96563005440 putative nucleic acid binding site [nucleotide binding]; other site 96563005441 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 96563005442 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 96563005443 active site 96563005444 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 96563005445 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 96563005446 Walker A motif; other site 96563005447 ATP binding site [chemical binding]; other site 96563005448 Walker B motif; other site 96563005449 arginine finger; other site 96563005450 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 96563005451 hypothetical protein; Validated; Region: PRK00153 96563005452 recombination protein RecR; Reviewed; Region: recR; PRK00076 96563005453 RecR protein; Region: RecR; pfam02132 96563005454 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 96563005455 putative active site [active] 96563005456 putative metal-binding site [ion binding]; other site 96563005457 tetramer interface [polypeptide binding]; other site 96563005458 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 96563005459 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 96563005460 substrate binding pocket [chemical binding]; other site 96563005461 membrane-bound complex binding site; other site 96563005462 hinge residues; other site 96563005463 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 96563005464 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 96563005465 Walker A/P-loop; other site 96563005466 ATP binding site [chemical binding]; other site 96563005467 Q-loop/lid; other site 96563005468 ABC transporter signature motif; other site 96563005469 Walker B; other site 96563005470 D-loop; other site 96563005471 H-loop/switch region; other site 96563005472 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 96563005473 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563005474 dimer interface [polypeptide binding]; other site 96563005475 conserved gate region; other site 96563005476 putative PBP binding loops; other site 96563005477 ABC-ATPase subunit interface; other site 96563005478 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 96563005479 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 96563005480 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 96563005481 Cu(I) binding site [ion binding]; other site 96563005482 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 96563005483 active site 96563005484 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 96563005485 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 96563005486 ligand binding site [chemical binding]; other site 96563005487 flexible hinge region; other site 96563005488 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 96563005489 putative switch regulator; other site 96563005490 non-specific DNA interactions [nucleotide binding]; other site 96563005491 DNA binding site [nucleotide binding] 96563005492 sequence specific DNA binding site [nucleotide binding]; other site 96563005493 putative cAMP binding site [chemical binding]; other site 96563005494 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 96563005495 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 96563005496 FeS/SAM binding site; other site 96563005497 HemN C-terminal domain; Region: HemN_C; pfam06969 96563005498 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 96563005499 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 96563005500 homodimer interface [polypeptide binding]; other site 96563005501 NAD binding pocket [chemical binding]; other site 96563005502 ATP binding pocket [chemical binding]; other site 96563005503 Mg binding site [ion binding]; other site 96563005504 active-site loop [active] 96563005505 Uncharacterized conserved protein [Function unknown]; Region: COG2836 96563005506 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 96563005507 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 96563005508 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 96563005509 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 96563005510 metal-binding site [ion binding] 96563005511 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 96563005512 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 96563005513 FixH; Region: FixH; pfam05751 96563005514 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 96563005515 4Fe-4S binding domain; Region: Fer4_5; pfam12801 96563005516 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 96563005517 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 96563005518 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 96563005519 Cytochrome c; Region: Cytochrom_C; pfam00034 96563005520 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 96563005521 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 96563005522 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 96563005523 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 96563005524 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 96563005525 Low-spin heme binding site [chemical binding]; other site 96563005526 Putative water exit pathway; other site 96563005527 Binuclear center (active site) [active] 96563005528 Putative proton exit pathway; other site 96563005529 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 96563005530 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 96563005531 Cytochrome c; Region: Cytochrom_C; pfam00034 96563005532 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 96563005533 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 96563005534 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 96563005535 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 96563005536 Low-spin heme binding site [chemical binding]; other site 96563005537 Putative water exit pathway; other site 96563005538 Binuclear center (active site) [active] 96563005539 Putative proton exit pathway; other site 96563005540 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 96563005541 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 96563005542 PAS domain; Region: PAS_9; pfam13426 96563005543 putative active site [active] 96563005544 heme pocket [chemical binding]; other site 96563005545 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96563005546 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563005547 dimer interface [polypeptide binding]; other site 96563005548 putative CheW interface [polypeptide binding]; other site 96563005549 aconitate hydratase; Validated; Region: PRK09277 96563005550 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 96563005551 substrate binding site [chemical binding]; other site 96563005552 ligand binding site [chemical binding]; other site 96563005553 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 96563005554 substrate binding site [chemical binding]; other site 96563005555 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 96563005556 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 96563005557 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 96563005558 CPxP motif; other site 96563005559 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 96563005560 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 96563005561 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 96563005562 D-pathway; other site 96563005563 Putative ubiquinol binding site [chemical binding]; other site 96563005564 Low-spin heme (heme b) binding site [chemical binding]; other site 96563005565 Putative water exit pathway; other site 96563005566 Binuclear center (heme o3/CuB) [ion binding]; other site 96563005567 K-pathway; other site 96563005568 Putative proton exit pathway; other site 96563005569 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 96563005570 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 96563005571 Cytochrome c; Region: Cytochrom_C; pfam00034 96563005572 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 96563005573 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 96563005574 Ion transport protein; Region: Ion_trans; pfam00520 96563005575 Ion channel; Region: Ion_trans_2; pfam07885 96563005576 Double zinc ribbon; Region: DZR; pfam12773 96563005577 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 96563005578 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 96563005579 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 96563005580 FeS/SAM binding site; other site 96563005581 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 96563005582 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 96563005583 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 96563005584 Walker A/P-loop; other site 96563005585 ATP binding site [chemical binding]; other site 96563005586 Q-loop/lid; other site 96563005587 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 96563005588 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 96563005589 ABC transporter signature motif; other site 96563005590 Walker B; other site 96563005591 D-loop; other site 96563005592 H-loop/switch region; other site 96563005593 cell division protein ZipA; Reviewed; Region: zipA; PRK00269 96563005594 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 96563005595 FtsZ protein binding site [polypeptide binding]; other site 96563005596 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 96563005597 DNA ligase, NAD-dependent; Region: dnlj; TIGR00575 96563005598 nucleotide binding pocket [chemical binding]; other site 96563005599 K-X-D-G motif; other site 96563005600 catalytic site [active] 96563005601 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 96563005602 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 96563005603 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 96563005604 Dimer interface [polypeptide binding]; other site 96563005605 BRCT sequence motif; other site 96563005606 Homeodomain-like domain; Region: HTH_23; pfam13384 96563005607 Winged helix-turn helix; Region: HTH_29; pfam13551 96563005608 Winged helix-turn helix; Region: HTH_33; pfam13592 96563005609 DDE superfamily endonuclease; Region: DDE_3; pfam13358 96563005610 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 96563005611 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 96563005612 FlaG protein; Region: FlaG; pfam03646 96563005613 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 96563005614 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 96563005615 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 96563005616 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 96563005617 flagellar protein FliS; Validated; Region: fliS; PRK05685 96563005618 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 96563005619 Protein of unknown function, DUF486; Region: DUF486; pfam04342 96563005620 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 96563005621 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 96563005622 dimer interface [polypeptide binding]; other site 96563005623 active site 96563005624 citrylCoA binding site [chemical binding]; other site 96563005625 NADH binding [chemical binding]; other site 96563005626 cationic pore residues; other site 96563005627 oxalacetate/citrate binding site [chemical binding]; other site 96563005628 coenzyme A binding site [chemical binding]; other site 96563005629 catalytic triad [active] 96563005630 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 96563005631 SdhD (CybS) interface [polypeptide binding]; other site 96563005632 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 96563005633 SdhC subunit interface [polypeptide binding]; other site 96563005634 proximal heme binding site [chemical binding]; other site 96563005635 cardiolipin binding site; other site 96563005636 Iron-sulfur protein interface; other site 96563005637 proximal quinone binding site [chemical binding]; other site 96563005638 L-aspartate oxidase; Provisional; Region: PRK06175 96563005639 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 96563005640 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 96563005641 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 96563005642 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 96563005643 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 96563005644 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 96563005645 TPP-binding site [chemical binding]; other site 96563005646 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 96563005647 PYR/PP interface [polypeptide binding]; other site 96563005648 dimer interface [polypeptide binding]; other site 96563005649 TPP binding site [chemical binding]; other site 96563005650 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 96563005651 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 96563005652 E3 interaction surface; other site 96563005653 lipoyl attachment site [posttranslational modification]; other site 96563005654 e3 binding domain; Region: E3_binding; pfam02817 96563005655 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 96563005656 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 96563005657 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 96563005658 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 96563005659 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 96563005660 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 96563005661 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 96563005662 CoA-ligase; Region: Ligase_CoA; pfam00549 96563005663 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 96563005664 CoA binding domain; Region: CoA_binding; smart00881 96563005665 CoA-ligase; Region: Ligase_CoA; pfam00549 96563005666 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 96563005667 Predicted membrane protein [Function unknown]; Region: COG3821 96563005668 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 96563005669 CoenzymeA binding site [chemical binding]; other site 96563005670 subunit interaction site [polypeptide binding]; other site 96563005671 PHB binding site; other site 96563005672 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 96563005673 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 96563005674 CoenzymeA binding site [chemical binding]; other site 96563005675 subunit interaction site [polypeptide binding]; other site 96563005676 PHB binding site; other site 96563005677 heat shock protein 90; Provisional; Region: PRK05218 96563005678 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 96563005679 ATP binding site [chemical binding]; other site 96563005680 Mg2+ binding site [ion binding]; other site 96563005681 G-X-G motif; other site 96563005682 OsmC-like protein; Region: OsmC; pfam02566 96563005683 Amidohydrolase; Region: Amidohydro_2; pfam04909 96563005684 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 96563005685 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 96563005686 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 96563005687 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 96563005688 dimerization interface [polypeptide binding]; other site 96563005689 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563005690 dimer interface [polypeptide binding]; other site 96563005691 putative CheW interface [polypeptide binding]; other site 96563005692 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 96563005693 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 96563005694 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563005695 dimer interface [polypeptide binding]; other site 96563005696 putative CheW interface [polypeptide binding]; other site 96563005697 serine/threonine transporter SstT; Provisional; Region: PRK13628 96563005698 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 96563005699 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 96563005700 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 96563005701 dimer interface [polypeptide binding]; other site 96563005702 active site 96563005703 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 96563005704 active site 1 [active] 96563005705 dimer interface [polypeptide binding]; other site 96563005706 active site 2 [active] 96563005707 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 96563005708 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 96563005709 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 96563005710 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 96563005711 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 96563005712 catalytic core [active] 96563005713 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 96563005714 CoenzymeA binding site [chemical binding]; other site 96563005715 subunit interaction site [polypeptide binding]; other site 96563005716 PHB binding site; other site 96563005717 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 96563005718 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 96563005719 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 96563005720 Domain of unknown function DUF20; Region: UPF0118; pfam01594 96563005721 hypothetical protein; Provisional; Region: PRK10279 96563005722 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 96563005723 active site 96563005724 nucleophile elbow; other site 96563005725 selenophosphate synthetase; Provisional; Region: PRK00943 96563005726 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 96563005727 dimerization interface [polypeptide binding]; other site 96563005728 putative ATP binding site [chemical binding]; other site 96563005729 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 96563005730 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 96563005731 active site residue [active] 96563005732 MoxR-like ATPases [General function prediction only]; Region: COG0714 96563005733 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 96563005734 Walker A motif; other site 96563005735 ATP binding site [chemical binding]; other site 96563005736 Walker B motif; other site 96563005737 arginine finger; other site 96563005738 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 96563005739 Protein of unknown function DUF58; Region: DUF58; pfam01882 96563005740 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 96563005741 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 96563005742 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 96563005743 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 96563005744 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 96563005745 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 96563005746 active site 96563005747 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 96563005748 active site 2 [active] 96563005749 Predicted membrane protein [Function unknown]; Region: COG1238 96563005750 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 96563005751 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 96563005752 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563005753 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 96563005754 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 96563005755 NAD binding site [chemical binding]; other site 96563005756 homodimer interface [polypeptide binding]; other site 96563005757 homotetramer interface [polypeptide binding]; other site 96563005758 active site 96563005759 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 96563005760 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 96563005761 dimer interface [polypeptide binding]; other site 96563005762 active site 96563005763 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96563005764 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96563005765 active site 96563005766 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 96563005767 CoA-transferase family III; Region: CoA_transf_3; pfam02515 96563005768 Homeodomain-like domain; Region: HTH_23; pfam13384 96563005769 Winged helix-turn helix; Region: HTH_29; pfam13551 96563005770 Winged helix-turn helix; Region: HTH_33; pfam13592 96563005771 DDE superfamily endonuclease; Region: DDE_3; pfam13358 96563005772 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 96563005773 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96563005774 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96563005775 active site 96563005776 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 96563005777 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 96563005778 substrate binding site [chemical binding]; other site 96563005779 oxyanion hole (OAH) forming residues; other site 96563005780 trimer interface [polypeptide binding]; other site 96563005781 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 96563005782 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 96563005783 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 96563005784 enoyl-CoA hydratase; Provisional; Region: PRK05862 96563005785 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 96563005786 substrate binding site [chemical binding]; other site 96563005787 oxyanion hole (OAH) forming residues; other site 96563005788 trimer interface [polypeptide binding]; other site 96563005789 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 96563005790 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 96563005791 tetrameric interface [polypeptide binding]; other site 96563005792 NAD binding site [chemical binding]; other site 96563005793 catalytic residues [active] 96563005794 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563005795 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563005796 LysR substrate binding domain; Region: LysR_substrate; pfam03466 96563005797 dimerization interface [polypeptide binding]; other site 96563005798 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 96563005799 putative homodimer interface [polypeptide binding]; other site 96563005800 putative active site pocket [active] 96563005801 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 96563005802 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 96563005803 putative catalytic site [active] 96563005804 putative metal binding site [ion binding]; other site 96563005805 putative phosphate binding site [ion binding]; other site 96563005806 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 96563005807 Transglycosylase; Region: Transgly; pfam00912 96563005808 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 96563005809 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 96563005810 Helix-turn-helix domain; Region: HTH_18; pfam12833 96563005811 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563005812 AzlC protein; Region: AzlC; pfam03591 96563005813 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 96563005814 Bacterial SH3 domain; Region: SH3_3; pfam08239 96563005815 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 96563005816 PAS fold; Region: PAS_3; pfam08447 96563005817 putative active site [active] 96563005818 heme pocket [chemical binding]; other site 96563005819 PAS domain S-box; Region: sensory_box; TIGR00229 96563005820 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 96563005821 putative active site [active] 96563005822 heme pocket [chemical binding]; other site 96563005823 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96563005824 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 96563005825 ATP binding site [chemical binding]; other site 96563005826 Mg2+ binding site [ion binding]; other site 96563005827 G-X-G motif; other site 96563005828 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96563005829 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563005830 active site 96563005831 phosphorylation site [posttranslational modification] 96563005832 intermolecular recognition site; other site 96563005833 dimerization interface [polypeptide binding]; other site 96563005834 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 96563005835 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 96563005836 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 96563005837 TrkA-N domain; Region: TrkA_N; pfam02254 96563005838 TrkA-C domain; Region: TrkA_C; pfam02080 96563005839 Uncharacterized conserved protein [Function unknown]; Region: COG3791 96563005840 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 96563005841 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 96563005842 putative molybdopterin cofactor binding site [chemical binding]; other site 96563005843 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 96563005844 putative molybdopterin cofactor binding site; other site 96563005845 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 96563005846 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563005847 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563005848 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 96563005849 dimerization interface [polypeptide binding]; other site 96563005850 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 96563005851 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 96563005852 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563005853 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563005854 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563005855 metal binding site [ion binding]; metal-binding site 96563005856 active site 96563005857 I-site; other site 96563005858 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 96563005859 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 96563005860 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 96563005861 Phytase; Region: Phytase; cl17685 96563005862 Phytase; Region: Phytase; cl17685 96563005863 TolQ protein; Region: tolQ; TIGR02796 96563005864 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 96563005865 TolR protein; Region: tolR; TIGR02801 96563005866 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 96563005867 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 96563005868 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 96563005869 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 96563005870 putative active site [active] 96563005871 heme pocket [chemical binding]; other site 96563005872 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 96563005873 GAF domain; Region: GAF; pfam01590 96563005874 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 96563005875 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 96563005876 dimer interface [polypeptide binding]; other site 96563005877 phosphorylation site [posttranslational modification] 96563005878 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 96563005879 ATP binding site [chemical binding]; other site 96563005880 G-X-G motif; other site 96563005881 Response regulator receiver domain; Region: Response_reg; pfam00072 96563005882 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563005883 active site 96563005884 phosphorylation site [posttranslational modification] 96563005885 intermolecular recognition site; other site 96563005886 dimerization interface [polypeptide binding]; other site 96563005887 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 96563005888 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 96563005889 Family description; Region: UvrD_C_2; pfam13538 96563005890 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 96563005891 Protein phosphatase 2C; Region: PP2C; pfam00481 96563005892 active site 96563005893 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 96563005894 Catalytic domain of Protein Kinases; Region: PKc; cd00180 96563005895 active site 96563005896 ATP binding site [chemical binding]; other site 96563005897 substrate binding site [chemical binding]; other site 96563005898 activation loop (A-loop); other site 96563005899 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 96563005900 nitrite reductase subunit NirD; Provisional; Region: PRK14989 96563005901 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 96563005902 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 96563005903 NAD-dependent deacetylase; Provisional; Region: PRK00481 96563005904 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 96563005905 NAD+ binding site [chemical binding]; other site 96563005906 substrate binding site [chemical binding]; other site 96563005907 Zn binding site [ion binding]; other site 96563005908 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 96563005909 HemN C-terminal domain; Region: HemN_C; pfam06969 96563005910 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96563005911 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563005912 dimer interface [polypeptide binding]; other site 96563005913 putative CheW interface [polypeptide binding]; other site 96563005914 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 96563005915 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 96563005916 S-adenosylmethionine binding site [chemical binding]; other site 96563005917 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 96563005918 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 96563005919 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 96563005920 short chain dehydrogenase; Provisional; Region: PRK06101 96563005921 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96563005922 NAD(P) binding site [chemical binding]; other site 96563005923 active site 96563005924 SnoaL-like domain; Region: SnoaL_2; pfam12680 96563005925 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 96563005926 DNA photolyase; Region: DNA_photolyase; pfam00875 96563005927 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 96563005928 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 96563005929 DNA binding residues [nucleotide binding] 96563005930 B12 binding domain; Region: B12-binding_2; pfam02607 96563005931 Protein of unknown function (DUF523); Region: DUF523; pfam04463 96563005932 Uncharacterized conserved protein [Function unknown]; Region: COG3272 96563005933 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 96563005934 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96563005935 TIGR01777 family protein; Region: yfcH 96563005936 NAD(P) binding site [chemical binding]; other site 96563005937 active site 96563005938 ferrochelatase; Reviewed; Region: hemH; PRK00035 96563005939 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 96563005940 C-terminal domain interface [polypeptide binding]; other site 96563005941 active site 96563005942 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 96563005943 active site 96563005944 N-terminal domain interface [polypeptide binding]; other site 96563005945 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 96563005946 PAS fold; Region: PAS_4; pfam08448 96563005947 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 96563005948 putative active site [active] 96563005949 heme pocket [chemical binding]; other site 96563005950 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 96563005951 PAS domain; Region: PAS_9; pfam13426 96563005952 putative active site [active] 96563005953 heme pocket [chemical binding]; other site 96563005954 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563005955 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563005956 metal binding site [ion binding]; metal-binding site 96563005957 active site 96563005958 I-site; other site 96563005959 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 96563005960 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 96563005961 PAS domain; Region: PAS_9; pfam13426 96563005962 putative active site [active] 96563005963 heme pocket [chemical binding]; other site 96563005964 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 96563005965 MFS/sugar transport protein; Region: MFS_2; pfam13347 96563005966 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 96563005967 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 96563005968 homooctamer interface [polypeptide binding]; other site 96563005969 active site 96563005970 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 96563005971 homodecamer interface [polypeptide binding]; other site 96563005972 GTP cyclohydrolase I; Provisional; Region: PLN03044 96563005973 active site 96563005974 putative catalytic site residues [active] 96563005975 zinc binding site [ion binding]; other site 96563005976 GTP-CH-I/GFRP interaction surface; other site 96563005977 Protein of unknown function, DUF393; Region: DUF393; pfam04134 96563005978 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 96563005979 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 96563005980 DNA binding residues [nucleotide binding] 96563005981 B12 binding domain; Region: B12-binding_2; pfam02607 96563005982 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 96563005983 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 96563005984 Gram-negative porin; Region: Porin_4; pfam13609 96563005985 Uncharacterized conserved protein [Function unknown]; Region: COG3287 96563005986 FIST N domain; Region: FIST; pfam08495 96563005987 FIST C domain; Region: FIST_C; pfam10442 96563005988 PAS fold; Region: PAS_7; pfam12860 96563005989 PAS fold; Region: PAS_7; pfam12860 96563005990 PAS domain S-box; Region: sensory_box; TIGR00229 96563005991 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 96563005992 putative active site [active] 96563005993 heme pocket [chemical binding]; other site 96563005994 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96563005995 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 96563005996 dimer interface [polypeptide binding]; other site 96563005997 phosphorylation site [posttranslational modification] 96563005998 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 96563005999 ATP binding site [chemical binding]; other site 96563006000 Mg2+ binding site [ion binding]; other site 96563006001 G-X-G motif; other site 96563006002 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96563006003 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563006004 active site 96563006005 phosphorylation site [posttranslational modification] 96563006006 intermolecular recognition site; other site 96563006007 dimerization interface [polypeptide binding]; other site 96563006008 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 96563006009 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 96563006010 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 96563006011 putative dimer interface [polypeptide binding]; other site 96563006012 N-terminal domain interface [polypeptide binding]; other site 96563006013 putative substrate binding pocket (H-site) [chemical binding]; other site 96563006014 hypothetical protein; Validated; Region: PRK09071 96563006015 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 96563006016 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 96563006017 DsrC like protein; Region: DsrC; cl01101 96563006018 DsrH like protein; Region: DsrH; cl17347 96563006019 sulfur relay protein TusC; Validated; Region: PRK00211 96563006020 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 96563006021 enterobactin exporter EntS; Provisional; Region: PRK10489 96563006022 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; cl17904 96563006023 putative substrate translocation pore; other site 96563006024 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 96563006025 YccA-like proteins; Region: YccA_like; cd10433 96563006026 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 96563006027 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 96563006028 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96563006029 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 96563006030 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 96563006031 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 96563006032 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 96563006033 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 96563006034 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 96563006035 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 96563006036 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 96563006037 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 96563006038 Walker A/P-loop; other site 96563006039 ATP binding site [chemical binding]; other site 96563006040 Q-loop/lid; other site 96563006041 ABC transporter signature motif; other site 96563006042 Walker B; other site 96563006043 D-loop; other site 96563006044 H-loop/switch region; other site 96563006045 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 96563006046 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563006047 dimer interface [polypeptide binding]; other site 96563006048 conserved gate region; other site 96563006049 putative PBP binding loops; other site 96563006050 ABC-ATPase subunit interface; other site 96563006051 Isochorismatase family; Region: Isochorismatase; pfam00857 96563006052 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 96563006053 catalytic triad [active] 96563006054 conserved cis-peptide bond; other site 96563006055 Creatinine amidohydrolase; Region: Creatininase; pfam02633 96563006056 EamA-like transporter family; Region: EamA; pfam00892 96563006057 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96563006058 NAD(P) binding site [chemical binding]; other site 96563006059 active site 96563006060 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 96563006061 classical (c) SDRs; Region: SDR_c; cd05233 96563006062 NAD(P) binding site [chemical binding]; other site 96563006063 active site 96563006064 Fatty acid desaturase; Region: FA_desaturase; pfam00487 96563006065 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 96563006066 putative di-iron ligands [ion binding]; other site 96563006067 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 96563006068 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 96563006069 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 96563006070 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 96563006071 active site 96563006072 catalytic tetrad [active] 96563006073 allophanate hydrolase; Provisional; Region: PRK08186 96563006074 Amidase; Region: Amidase; cl11426 96563006075 urea carboxylase; Region: urea_carbox; TIGR02712 96563006076 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 96563006077 ATP-grasp domain; Region: ATP-grasp_4; cl17255 96563006078 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 96563006079 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 96563006080 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 96563006081 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 96563006082 carboxyltransferase (CT) interaction site; other site 96563006083 biotinylation site [posttranslational modification]; other site 96563006084 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 96563006085 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 96563006086 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 96563006087 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 96563006088 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 96563006089 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 96563006090 Walker A/P-loop; other site 96563006091 ATP binding site [chemical binding]; other site 96563006092 Q-loop/lid; other site 96563006093 ABC transporter signature motif; other site 96563006094 Walker B; other site 96563006095 D-loop; other site 96563006096 H-loop/switch region; other site 96563006097 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 96563006098 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 96563006099 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 96563006100 dimerization interface [polypeptide binding]; other site 96563006101 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563006102 dimer interface [polypeptide binding]; other site 96563006103 putative CheW interface [polypeptide binding]; other site 96563006104 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 96563006105 active site 96563006106 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 96563006107 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 96563006108 substrate binding pocket [chemical binding]; other site 96563006109 membrane-bound complex binding site; other site 96563006110 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 96563006111 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 96563006112 N-acetyl-D-glucosamine binding site [chemical binding]; other site 96563006113 catalytic residue [active] 96563006114 lipase chaperone; Provisional; Region: PRK01294 96563006115 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 96563006116 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 96563006117 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 96563006118 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 96563006119 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 96563006120 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 96563006121 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 96563006122 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 96563006123 Walker A/P-loop; other site 96563006124 ATP binding site [chemical binding]; other site 96563006125 Q-loop/lid; other site 96563006126 ABC transporter signature motif; other site 96563006127 Walker B; other site 96563006128 D-loop; other site 96563006129 H-loop/switch region; other site 96563006130 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 96563006131 active site 96563006132 catalytic triad [active] 96563006133 oxyanion hole [active] 96563006134 switch loop; other site 96563006135 L,D-transpeptidase; Provisional; Region: PRK10260 96563006136 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 96563006137 Predicted acetyltransferase [General function prediction only]; Region: COG2388 96563006138 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 96563006139 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 96563006140 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 96563006141 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 96563006142 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 96563006143 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 96563006144 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563006145 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 96563006146 substrate binding site [chemical binding]; other site 96563006147 dimerization interface [polypeptide binding]; other site 96563006148 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 96563006149 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 96563006150 Active Sites [active] 96563006151 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 96563006152 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 96563006153 motif II; other site 96563006154 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 96563006155 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 96563006156 chorismate binding enzyme; Region: Chorismate_bind; cl10555 96563006157 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 96563006158 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 96563006159 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 96563006160 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 96563006161 Transcriptional regulators [Transcription]; Region: GntR; COG1802 96563006162 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 96563006163 DNA-binding site [nucleotide binding]; DNA binding site 96563006164 FCD domain; Region: FCD; pfam07729 96563006165 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 96563006166 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 96563006167 tetramer interface [polypeptide binding]; other site 96563006168 active site 96563006169 Mg2+/Mn2+ binding site [ion binding]; other site 96563006170 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 96563006171 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 96563006172 dimer interface [polypeptide binding]; other site 96563006173 active site 96563006174 citrylCoA binding site [chemical binding]; other site 96563006175 oxalacetate/citrate binding site [chemical binding]; other site 96563006176 coenzyme A binding site [chemical binding]; other site 96563006177 catalytic triad [active] 96563006178 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 96563006179 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 96563006180 substrate binding site [chemical binding]; other site 96563006181 ligand binding site [chemical binding]; other site 96563006182 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 96563006183 substrate binding site [chemical binding]; other site 96563006184 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 96563006185 PEP synthetase regulatory protein; Provisional; Region: PRK05339 96563006186 phosphoenolpyruvate synthase; Validated; Region: PRK06464 96563006187 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 96563006188 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 96563006189 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 96563006190 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 96563006191 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 96563006192 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 96563006193 Cl binding site [ion binding]; other site 96563006194 oligomer interface [polypeptide binding]; other site 96563006195 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 96563006196 Mechanosensitive ion channel; Region: MS_channel; pfam00924 96563006197 RNA polymerase sigma factor SigX; Reviewed; Region: PRK09640 96563006198 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 96563006199 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 96563006200 DNA binding residues [nucleotide binding] 96563006201 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 96563006202 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 96563006203 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 96563006204 ligand binding site [chemical binding]; other site 96563006205 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 96563006206 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 96563006207 substrate binding site [chemical binding]; other site 96563006208 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 96563006209 substrate binding site [chemical binding]; other site 96563006210 ligand binding site [chemical binding]; other site 96563006211 Predicted Fe-S protein [General function prediction only]; Region: COG3313 96563006212 universal stress protein UspE; Provisional; Region: PRK11175 96563006213 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 96563006214 Ligand Binding Site [chemical binding]; other site 96563006215 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 96563006216 Ligand Binding Site [chemical binding]; other site 96563006217 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 96563006218 active site 96563006219 dinuclear metal binding site [ion binding]; other site 96563006220 dimerization interface [polypeptide binding]; other site 96563006221 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 96563006222 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 96563006223 putative active site [active] 96563006224 putative metal binding site [ion binding]; other site 96563006225 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 96563006226 substrate binding site [chemical binding]; other site 96563006227 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 96563006228 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 96563006229 active site 96563006230 HIGH motif; other site 96563006231 nucleotide binding site [chemical binding]; other site 96563006232 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 96563006233 KMSKS motif; other site 96563006234 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 96563006235 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 96563006236 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 96563006237 active site 96563006238 HIGH motif; other site 96563006239 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 96563006240 KMSKS motif; other site 96563006241 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 96563006242 tRNA binding surface [nucleotide binding]; other site 96563006243 anticodon binding site; other site 96563006244 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 96563006245 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 96563006246 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 96563006247 homodimer interface [polypeptide binding]; other site 96563006248 NADP binding site [chemical binding]; other site 96563006249 substrate binding site [chemical binding]; other site 96563006250 Transcriptional regulators [Transcription]; Region: FadR; COG2186 96563006251 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 96563006252 DNA-binding site [nucleotide binding]; DNA binding site 96563006253 FCD domain; Region: FCD; pfam07729 96563006254 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 96563006255 trigger factor; Provisional; Region: tig; PRK01490 96563006256 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 96563006257 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 96563006258 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 96563006259 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 96563006260 oligomer interface [polypeptide binding]; other site 96563006261 active site residues [active] 96563006262 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 96563006263 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 96563006264 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 96563006265 Walker A motif; other site 96563006266 ATP binding site [chemical binding]; other site 96563006267 Walker B motif; other site 96563006268 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 96563006269 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 96563006270 Found in ATP-dependent protease La (LON); Region: LON; smart00464 96563006271 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 96563006272 Walker A motif; other site 96563006273 ATP binding site [chemical binding]; other site 96563006274 Walker B motif; other site 96563006275 arginine finger; other site 96563006276 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 96563006277 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 96563006278 IHF dimer interface [polypeptide binding]; other site 96563006279 IHF - DNA interface [nucleotide binding]; other site 96563006280 periplasmic folding chaperone; Provisional; Region: PRK10788 96563006281 SurA N-terminal domain; Region: SurA_N_3; pfam13624 96563006282 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 96563006283 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 96563006284 phosphate binding site [ion binding]; other site 96563006285 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 96563006286 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 96563006287 NAD(P) binding site [chemical binding]; other site 96563006288 catalytic residues [active] 96563006289 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 96563006290 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 96563006291 active site 96563006292 FMN binding site [chemical binding]; other site 96563006293 substrate binding site [chemical binding]; other site 96563006294 putative catalytic residue [active] 96563006295 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 96563006296 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 96563006297 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 96563006298 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 96563006299 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 96563006300 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 96563006301 FeS/SAM binding site; other site 96563006302 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 96563006303 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 96563006304 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 96563006305 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 96563006306 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 96563006307 putative active site [active] 96563006308 metal binding site [ion binding]; metal-binding site 96563006309 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 96563006310 PAS domain; Region: PAS_9; pfam13426 96563006311 putative active site [active] 96563006312 heme pocket [chemical binding]; other site 96563006313 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96563006314 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 96563006315 dimer interface [polypeptide binding]; other site 96563006316 phosphorylation site [posttranslational modification] 96563006317 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 96563006318 ATP binding site [chemical binding]; other site 96563006319 Mg2+ binding site [ion binding]; other site 96563006320 G-X-G motif; other site 96563006321 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96563006322 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563006323 active site 96563006324 phosphorylation site [posttranslational modification] 96563006325 intermolecular recognition site; other site 96563006326 dimerization interface [polypeptide binding]; other site 96563006327 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 96563006328 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 96563006329 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 96563006330 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 96563006331 response regulator; Provisional; Region: PRK09483 96563006332 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563006333 active site 96563006334 phosphorylation site [posttranslational modification] 96563006335 intermolecular recognition site; other site 96563006336 dimerization interface [polypeptide binding]; other site 96563006337 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 96563006338 DNA binding residues [nucleotide binding] 96563006339 dimerization interface [polypeptide binding]; other site 96563006340 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 96563006341 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 96563006342 GIY-YIG motif/motif A; other site 96563006343 active site 96563006344 catalytic site [active] 96563006345 putative DNA binding site [nucleotide binding]; other site 96563006346 metal binding site [ion binding]; metal-binding site 96563006347 UvrB/uvrC motif; Region: UVR; pfam02151 96563006348 Glutamate-cysteine ligase; Region: GshA; pfam08886 96563006349 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 96563006350 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 96563006351 DNA binding site [nucleotide binding] 96563006352 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 96563006353 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 96563006354 arsenical-resistance protein; Region: acr3; TIGR00832 96563006355 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 96563006356 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 96563006357 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 96563006358 dimerization interface [polypeptide binding]; other site 96563006359 putative DNA binding site [nucleotide binding]; other site 96563006360 putative Zn2+ binding site [ion binding]; other site 96563006361 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 96563006362 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 96563006363 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 96563006364 hypothetical protein; Provisional; Region: PRK02237 96563006365 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 96563006366 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 96563006367 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 96563006368 Major Facilitator Superfamily; Region: MFS_1; pfam07690 96563006369 RES domain; Region: RES; smart00953 96563006370 DEAD_2; Region: DEAD_2; pfam06733 96563006371 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 96563006372 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 96563006373 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 96563006374 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 96563006375 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 96563006376 FeS/SAM binding site; other site 96563006377 HemN C-terminal domain; Region: HemN_C; pfam06969 96563006378 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 96563006379 dimerization interface [polypeptide binding]; other site 96563006380 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96563006381 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563006382 dimer interface [polypeptide binding]; other site 96563006383 putative CheW interface [polypeptide binding]; other site 96563006384 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 96563006385 active site 96563006386 tetramer interface; other site 96563006387 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 96563006388 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 96563006389 active site 96563006390 metal binding site [ion binding]; metal-binding site 96563006391 glutathione reductase; Validated; Region: PRK06116 96563006392 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 96563006393 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 96563006394 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 96563006395 Protein of unknown function (DUF461); Region: DUF461; pfam04314 96563006396 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 96563006397 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 96563006398 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 96563006399 active site 96563006400 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 96563006401 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 96563006402 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563006403 Fusaric acid resistance protein family; Region: FUSC; pfam04632 96563006404 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 96563006405 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 96563006406 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 96563006407 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 96563006408 HlyD family secretion protein; Region: HlyD_3; pfam13437 96563006409 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 96563006410 transcriptional regulator; Provisional; Region: PRK10632 96563006411 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563006412 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 96563006413 putative effector binding pocket; other site 96563006414 dimerization interface [polypeptide binding]; other site 96563006415 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 96563006416 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 96563006417 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 96563006418 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 96563006419 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 96563006420 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 96563006421 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 96563006422 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 96563006423 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 96563006424 [2Fe-2S] cluster binding site [ion binding]; other site 96563006425 oxidoreductase; Provisional; Region: PRK06128 96563006426 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96563006427 NAD(P) binding site [chemical binding]; other site 96563006428 active site 96563006429 thiamine pyrophosphate protein; Provisional; Region: PRK08273 96563006430 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 96563006431 PYR/PP interface [polypeptide binding]; other site 96563006432 dimer interface [polypeptide binding]; other site 96563006433 tetramer interface [polypeptide binding]; other site 96563006434 TPP binding site [chemical binding]; other site 96563006435 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 96563006436 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 96563006437 TPP-binding site [chemical binding]; other site 96563006438 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 96563006439 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 96563006440 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 96563006441 active site 96563006442 DNA binding site [nucleotide binding] 96563006443 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 96563006444 DNA binding site [nucleotide binding] 96563006445 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 96563006446 nucleotide binding site [chemical binding]; other site 96563006447 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 96563006448 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 96563006449 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 96563006450 dinuclear metal binding motif [ion binding]; other site 96563006451 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 96563006452 Mechanosensitive ion channel; Region: MS_channel; pfam00924 96563006453 Competence-damaged protein; Region: CinA; pfam02464 96563006454 glycogen synthase; Provisional; Region: glgA; PRK00654 96563006455 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 96563006456 ADP-binding pocket [chemical binding]; other site 96563006457 homodimer interface [polypeptide binding]; other site 96563006458 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 96563006459 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 96563006460 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 96563006461 catalytic site [active] 96563006462 active site 96563006463 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 96563006464 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 96563006465 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 96563006466 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 96563006467 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 96563006468 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 96563006469 active site 96563006470 catalytic site [active] 96563006471 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 96563006472 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 96563006473 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 96563006474 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 96563006475 active site 96563006476 catalytic site [active] 96563006477 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 96563006478 Peptidase family M23; Region: Peptidase_M23; pfam01551 96563006479 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 96563006480 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 96563006481 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 96563006482 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 96563006483 putative active site [active] 96563006484 metal binding site [ion binding]; metal-binding site 96563006485 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563006486 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563006487 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 96563006488 putative effector binding pocket; other site 96563006489 dimerization interface [polypeptide binding]; other site 96563006490 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 96563006491 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 96563006492 NAD binding site [chemical binding]; other site 96563006493 catalytic Zn binding site [ion binding]; other site 96563006494 structural Zn binding site [ion binding]; other site 96563006495 Protein of unknown function DUF72; Region: DUF72; pfam01904 96563006496 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 96563006497 putative catalytic site [active] 96563006498 putative metal binding site [ion binding]; other site 96563006499 putative phosphate binding site [ion binding]; other site 96563006500 cardiolipin synthase 2; Provisional; Region: PRK11263 96563006501 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 96563006502 putative active site [active] 96563006503 catalytic site [active] 96563006504 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 96563006505 putative active site [active] 96563006506 catalytic site [active] 96563006507 Predicted integral membrane protein [Function unknown]; Region: COG0392 96563006508 glycogen branching enzyme; Provisional; Region: PRK05402 96563006509 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 96563006510 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 96563006511 active site 96563006512 catalytic site [active] 96563006513 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 96563006514 trehalose synthase; Region: treS_nterm; TIGR02456 96563006515 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 96563006516 active site 96563006517 catalytic site [active] 96563006518 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 96563006519 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 96563006520 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 96563006521 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 96563006522 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 96563006523 active site 96563006524 homodimer interface [polypeptide binding]; other site 96563006525 catalytic site [active] 96563006526 acceptor binding site [chemical binding]; other site 96563006527 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 96563006528 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 96563006529 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 96563006530 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 96563006531 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 96563006532 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 96563006533 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 96563006534 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 96563006535 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 96563006536 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 96563006537 molybdopterin cofactor binding site; other site 96563006538 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 96563006539 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 96563006540 nucleotide binding site [chemical binding]; other site 96563006541 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 96563006542 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 96563006543 putative DNA binding site [nucleotide binding]; other site 96563006544 putative homodimer interface [polypeptide binding]; other site 96563006545 short chain dehydrogenase; Provisional; Region: PRK06701 96563006546 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 96563006547 NAD binding site [chemical binding]; other site 96563006548 metal binding site [ion binding]; metal-binding site 96563006549 active site 96563006550 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 96563006551 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 96563006552 putative NAD(P) binding site [chemical binding]; other site 96563006553 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563006554 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563006555 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 96563006556 putative substrate binding pocket [chemical binding]; other site 96563006557 putative dimerization interface [polypeptide binding]; other site 96563006558 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 96563006559 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 96563006560 HlyD family secretion protein; Region: HlyD_3; pfam13437 96563006561 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 96563006562 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 96563006563 aminoglycoside resistance protein; Provisional; Region: PRK13746 96563006564 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 96563006565 active site 96563006566 NTP binding site [chemical binding]; other site 96563006567 metal binding triad [ion binding]; metal-binding site 96563006568 antibiotic binding site [chemical binding]; other site 96563006569 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 96563006570 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 96563006571 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 96563006572 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 96563006573 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 96563006574 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 96563006575 Protein export membrane protein; Region: SecD_SecF; cl14618 96563006576 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 96563006577 Protein export membrane protein; Region: SecD_SecF; cl14618 96563006578 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 96563006579 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 96563006580 E3 interaction surface; other site 96563006581 lipoyl attachment site [posttranslational modification]; other site 96563006582 HlyD family secretion protein; Region: HlyD_3; pfam13437 96563006583 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 96563006584 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 96563006585 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 96563006586 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 96563006587 dimer interface [polypeptide binding]; other site 96563006588 catalytic triad [active] 96563006589 peroxidatic and resolving cysteines [active] 96563006590 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 96563006591 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 96563006592 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 96563006593 Family of unknown function (DUF490); Region: DUF490; pfam04357 96563006594 Family of unknown function (DUF490); Region: DUF490; pfam04357 96563006595 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 96563006596 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 96563006597 Surface antigen; Region: Bac_surface_Ag; pfam01103 96563006598 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 96563006599 Coenzyme A binding pocket [chemical binding]; other site 96563006600 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 96563006601 putative catalytic site [active] 96563006602 putative phosphate binding site [ion binding]; other site 96563006603 active site 96563006604 metal binding site A [ion binding]; metal-binding site 96563006605 DNA binding site [nucleotide binding] 96563006606 putative AP binding site [nucleotide binding]; other site 96563006607 putative metal binding site B [ion binding]; other site 96563006608 PBP superfamily domain; Region: PBP_like_2; cl17296 96563006609 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 96563006610 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 96563006611 ligand binding site [chemical binding]; other site 96563006612 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 96563006613 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 96563006614 putative substrate binding site [chemical binding]; other site 96563006615 putative ATP binding site [chemical binding]; other site 96563006616 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 96563006617 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 96563006618 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563006619 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563006620 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 96563006621 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 96563006622 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563006623 dimer interface [polypeptide binding]; other site 96563006624 conserved gate region; other site 96563006625 putative PBP binding loops; other site 96563006626 ABC-ATPase subunit interface; other site 96563006627 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 96563006628 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563006629 dimer interface [polypeptide binding]; other site 96563006630 conserved gate region; other site 96563006631 putative PBP binding loops; other site 96563006632 ABC-ATPase subunit interface; other site 96563006633 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 96563006634 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 96563006635 Walker A/P-loop; other site 96563006636 ATP binding site [chemical binding]; other site 96563006637 Q-loop/lid; other site 96563006638 ABC transporter signature motif; other site 96563006639 Walker B; other site 96563006640 D-loop; other site 96563006641 H-loop/switch region; other site 96563006642 TOBE domain; Region: TOBE; pfam03459 96563006643 TOBE domain; Region: TOBE_2; pfam08402 96563006644 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 96563006645 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 96563006646 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 96563006647 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 96563006648 N- and C-terminal domain interface [polypeptide binding]; other site 96563006649 D-xylulose kinase; Region: XylB; TIGR01312 96563006650 active site 96563006651 MgATP binding site [chemical binding]; other site 96563006652 catalytic site [active] 96563006653 metal binding site [ion binding]; metal-binding site 96563006654 xylulose binding site [chemical binding]; other site 96563006655 putative homodimer interface [polypeptide binding]; other site 96563006656 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96563006657 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 96563006658 FAD binding site [chemical binding]; other site 96563006659 substrate binding site [chemical binding]; other site 96563006660 catalytic base [active] 96563006661 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 96563006662 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563006663 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 96563006664 substrate binding pocket [chemical binding]; other site 96563006665 dimerization interface [polypeptide binding]; other site 96563006666 Transcriptional regulators [Transcription]; Region: PurR; COG1609 96563006667 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 96563006668 DNA binding site [nucleotide binding] 96563006669 domain linker motif; other site 96563006670 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 96563006671 putative ligand binding site [chemical binding]; other site 96563006672 putative dimerization interface [polypeptide binding]; other site 96563006673 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 96563006674 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 96563006675 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 96563006676 DctM-like transporters; Region: DctM; pfam06808 96563006677 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 96563006678 AAA domain; Region: AAA_33; pfam13671 96563006679 ATP-binding site [chemical binding]; other site 96563006680 Gluconate-6-phosphate binding site [chemical binding]; other site 96563006681 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 96563006682 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 96563006683 Predicted ATPase [General function prediction only]; Region: COG1485 96563006684 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 96563006685 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563006686 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 96563006687 dimerization interface [polypeptide binding]; other site 96563006688 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 96563006689 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 96563006690 hydroxyglutarate oxidase; Provisional; Region: PRK11728 96563006691 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 96563006692 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 96563006693 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 96563006694 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 96563006695 N-terminal plug; other site 96563006696 ligand-binding site [chemical binding]; other site 96563006697 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 96563006698 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563006699 Walker A/P-loop; other site 96563006700 ATP binding site [chemical binding]; other site 96563006701 Q-loop/lid; other site 96563006702 ABC transporter signature motif; other site 96563006703 Walker B; other site 96563006704 D-loop; other site 96563006705 H-loop/switch region; other site 96563006706 ABC transporter; Region: ABC_tran_2; pfam12848 96563006707 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 96563006708 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 96563006709 Cache domain; Region: Cache_2; pfam08269 96563006710 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 96563006711 dimerization interface [polypeptide binding]; other site 96563006712 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96563006713 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563006714 dimer interface [polypeptide binding]; other site 96563006715 putative CheW interface [polypeptide binding]; other site 96563006716 Predicted membrane protein [Function unknown]; Region: COG2323 96563006717 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 96563006718 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 96563006719 active site 96563006720 DNA binding site [nucleotide binding] 96563006721 Int/Topo IB signature motif; other site 96563006722 catalytic residues [active] 96563006723 PAS fold; Region: PAS_4; pfam08448 96563006724 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 96563006725 putative active site [active] 96563006726 heme pocket [chemical binding]; other site 96563006727 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563006728 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563006729 metal binding site [ion binding]; metal-binding site 96563006730 active site 96563006731 I-site; other site 96563006732 Response regulator receiver domain; Region: Response_reg; pfam00072 96563006733 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563006734 active site 96563006735 phosphorylation site [posttranslational modification] 96563006736 intermolecular recognition site; other site 96563006737 dimerization interface [polypeptide binding]; other site 96563006738 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 96563006739 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 96563006740 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 96563006741 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 96563006742 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 96563006743 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 96563006744 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 96563006745 substrate binding pocket [chemical binding]; other site 96563006746 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 96563006747 B12 binding site [chemical binding]; other site 96563006748 cobalt ligand [ion binding]; other site 96563006749 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 96563006750 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 96563006751 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 96563006752 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 96563006753 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 96563006754 AAA domain; Region: AAA_28; pfam13521 96563006755 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 96563006756 EamA-like transporter family; Region: EamA; pfam00892 96563006757 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 96563006758 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 96563006759 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14464 96563006760 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 96563006761 FeS/SAM binding site; other site 96563006762 Leucine rich repeat; Region: LRR_8; pfam13855 96563006763 Leucine rich repeat; Region: LRR_8; pfam13855 96563006764 Leucine rich repeat; Region: LRR_8; pfam13855 96563006765 Protein tyrosine kinase; Region: Pkinase_Tyr; pfam07714 96563006766 Catalytic domain of Protein Kinases; Region: PKc; cd00180 96563006767 active site 96563006768 ATP binding site [chemical binding]; other site 96563006769 substrate binding site [chemical binding]; other site 96563006770 activation loop (A-loop); other site 96563006771 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 96563006772 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 96563006773 putative dimer interface [polypeptide binding]; other site 96563006774 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 96563006775 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 96563006776 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 96563006777 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 96563006778 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 96563006779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 96563006780 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 96563006781 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 96563006782 NADP binding site [chemical binding]; other site 96563006783 dimer interface [polypeptide binding]; other site 96563006784 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 96563006785 putative inner membrane peptidase; Provisional; Region: PRK11778 96563006786 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 96563006787 tandem repeat interface [polypeptide binding]; other site 96563006788 oligomer interface [polypeptide binding]; other site 96563006789 active site residues [active] 96563006790 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 96563006791 catalytic core [active] 96563006792 SCP-2 sterol transfer family; Region: SCP2; pfam02036 96563006793 Phosphotransferase enzyme family; Region: APH; pfam01636 96563006794 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 96563006795 putative active site [active] 96563006796 putative substrate binding site [chemical binding]; other site 96563006797 ATP binding site [chemical binding]; other site 96563006798 short chain dehydrogenase; Provisional; Region: PRK07035 96563006799 classical (c) SDRs; Region: SDR_c; cd05233 96563006800 NAD(P) binding site [chemical binding]; other site 96563006801 active site 96563006802 exoribonuclease R; Provisional; Region: PRK11642 96563006803 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 96563006804 hypothetical protein; Provisional; Region: PRK10621 96563006805 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 96563006806 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 96563006807 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 96563006808 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 96563006809 putative NADH binding site [chemical binding]; other site 96563006810 putative active site [active] 96563006811 nudix motif; other site 96563006812 putative metal binding site [ion binding]; other site 96563006813 enoyl-CoA hydratase; Provisional; Region: PRK06142 96563006814 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 96563006815 substrate binding site [chemical binding]; other site 96563006816 oxyanion hole (OAH) forming residues; other site 96563006817 trimer interface [polypeptide binding]; other site 96563006818 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 96563006819 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 96563006820 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 96563006821 homodimer interface [polypeptide binding]; other site 96563006822 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563006823 catalytic residue [active] 96563006824 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 96563006825 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 96563006826 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 96563006827 active site 96563006828 catalytic site [active] 96563006829 substrate binding site [chemical binding]; other site 96563006830 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 96563006831 RNA/DNA hybrid binding site [nucleotide binding]; other site 96563006832 active site 96563006833 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 96563006834 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 96563006835 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 96563006836 N-acetyl-D-glucosamine binding site [chemical binding]; other site 96563006837 catalytic residue [active] 96563006838 Immunoglobulin domain; Region: Ig; cl11960 96563006839 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 96563006840 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 96563006841 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 96563006842 HDOD domain; Region: HDOD; pfam08668 96563006843 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 96563006844 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 96563006845 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 96563006846 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 96563006847 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 96563006848 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563006849 dimer interface [polypeptide binding]; other site 96563006850 conserved gate region; other site 96563006851 ABC-ATPase subunit interface; other site 96563006852 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 96563006853 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563006854 dimer interface [polypeptide binding]; other site 96563006855 conserved gate region; other site 96563006856 putative PBP binding loops; other site 96563006857 ABC-ATPase subunit interface; other site 96563006858 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 96563006859 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 96563006860 Walker A/P-loop; other site 96563006861 ATP binding site [chemical binding]; other site 96563006862 Q-loop/lid; other site 96563006863 ABC transporter signature motif; other site 96563006864 Walker B; other site 96563006865 D-loop; other site 96563006866 H-loop/switch region; other site 96563006867 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 96563006868 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 96563006869 Walker A/P-loop; other site 96563006870 ATP binding site [chemical binding]; other site 96563006871 Q-loop/lid; other site 96563006872 ABC transporter signature motif; other site 96563006873 Walker B; other site 96563006874 D-loop; other site 96563006875 H-loop/switch region; other site 96563006876 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 96563006877 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 96563006878 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 96563006879 NAD binding site [chemical binding]; other site 96563006880 homotetramer interface [polypeptide binding]; other site 96563006881 homodimer interface [polypeptide binding]; other site 96563006882 substrate binding site [chemical binding]; other site 96563006883 active site 96563006884 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 96563006885 classical (c) SDRs; Region: SDR_c; cd05233 96563006886 NAD(P) binding site [chemical binding]; other site 96563006887 active site 96563006888 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 96563006889 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563006890 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563006891 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 96563006892 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 96563006893 dimer interface [polypeptide binding]; other site 96563006894 Trp docking motif [polypeptide binding]; other site 96563006895 active site 96563006896 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 96563006897 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 96563006898 putative ligand binding site [chemical binding]; other site 96563006899 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 96563006900 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 96563006901 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 96563006902 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 96563006903 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 96563006904 substrate binding pocket [chemical binding]; other site 96563006905 membrane-bound complex binding site; other site 96563006906 hinge residues; other site 96563006907 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 96563006908 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 96563006909 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 96563006910 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 96563006911 dimer interface [polypeptide binding]; other site 96563006912 Trp docking motif [polypeptide binding]; other site 96563006913 active site 96563006914 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 96563006915 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 96563006916 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 96563006917 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 96563006918 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 96563006919 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 96563006920 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 96563006921 PAS domain; Region: PAS_9; pfam13426 96563006922 putative active site [active] 96563006923 heme pocket [chemical binding]; other site 96563006924 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 96563006925 PAS domain; Region: PAS_9; pfam13426 96563006926 putative active site [active] 96563006927 heme pocket [chemical binding]; other site 96563006928 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96563006929 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563006930 dimer interface [polypeptide binding]; other site 96563006931 putative CheW interface [polypeptide binding]; other site 96563006932 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 96563006933 active site 96563006934 catalytic site [active] 96563006935 substrate binding site [chemical binding]; other site 96563006936 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 96563006937 Domain of unknown function (DUF2703); Region: DUF2703; pfam10865 96563006938 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 96563006939 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 96563006940 N-terminal plug; other site 96563006941 ligand-binding site [chemical binding]; other site 96563006942 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 96563006943 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563006944 active site 96563006945 phosphorylation site [posttranslational modification] 96563006946 intermolecular recognition site; other site 96563006947 dimerization interface [polypeptide binding]; other site 96563006948 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 96563006949 DNA binding residues [nucleotide binding] 96563006950 dimerization interface [polypeptide binding]; other site 96563006951 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 96563006952 dimerization interface [polypeptide binding]; other site 96563006953 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 96563006954 Histidine kinase; Region: HisKA_3; pfam07730 96563006955 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 96563006956 ATP binding site [chemical binding]; other site 96563006957 Mg2+ binding site [ion binding]; other site 96563006958 G-X-G motif; other site 96563006959 Cache domain; Region: Cache_1; pfam02743 96563006960 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 96563006961 dimerization interface [polypeptide binding]; other site 96563006962 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96563006963 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563006964 dimer interface [polypeptide binding]; other site 96563006965 putative CheW interface [polypeptide binding]; other site 96563006966 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 96563006967 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 96563006968 ligand binding site [chemical binding]; other site 96563006969 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 96563006970 Sel1-like repeats; Region: SEL1; smart00671 96563006971 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 96563006972 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 96563006973 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 96563006974 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 96563006975 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563006976 Walker A/P-loop; other site 96563006977 ATP binding site [chemical binding]; other site 96563006978 Q-loop/lid; other site 96563006979 ABC transporter signature motif; other site 96563006980 Walker B; other site 96563006981 D-loop; other site 96563006982 H-loop/switch region; other site 96563006983 alcohol ABC transporter, permease protein; Region: phenyl_ABC_PedC; TIGR03861 96563006984 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 96563006985 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 96563006986 active site residue [active] 96563006987 siroheme synthase; Provisional; Region: cysG; PRK10637 96563006988 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 96563006989 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 96563006990 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 96563006991 active site 96563006992 SAM binding site [chemical binding]; other site 96563006993 homodimer interface [polypeptide binding]; other site 96563006994 seryl-tRNA synthetase; Provisional; Region: PRK05431 96563006995 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 96563006996 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 96563006997 dimer interface [polypeptide binding]; other site 96563006998 active site 96563006999 motif 1; other site 96563007000 motif 2; other site 96563007001 motif 3; other site 96563007002 camphor resistance protein CrcB; Provisional; Region: PRK14234 96563007003 recombination factor protein RarA; Reviewed; Region: PRK13342 96563007004 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 96563007005 Walker A motif; other site 96563007006 ATP binding site [chemical binding]; other site 96563007007 Walker B motif; other site 96563007008 arginine finger; other site 96563007009 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 96563007010 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 96563007011 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 96563007012 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 96563007013 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 96563007014 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 96563007015 thioredoxin reductase; Provisional; Region: PRK10262 96563007016 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 96563007017 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 96563007018 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 96563007019 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 96563007020 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 96563007021 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 96563007022 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 96563007023 rRNA binding site [nucleotide binding]; other site 96563007024 predicted 30S ribosome binding site; other site 96563007025 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 96563007026 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 96563007027 Walker A motif; other site 96563007028 ATP binding site [chemical binding]; other site 96563007029 Walker B motif; other site 96563007030 arginine finger; other site 96563007031 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 96563007032 Walker A motif; other site 96563007033 ATP binding site [chemical binding]; other site 96563007034 Walker B motif; other site 96563007035 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 96563007036 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 96563007037 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 96563007038 DNA-binding site [nucleotide binding]; DNA binding site 96563007039 RNA-binding motif; other site 96563007040 isocitrate dehydrogenase; Validated; Region: PRK07362 96563007041 isocitrate dehydrogenase; Reviewed; Region: PRK07006 96563007042 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 96563007043 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 96563007044 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 96563007045 nudix motif; other site 96563007046 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 96563007047 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 96563007048 putative lysogenization regulator; Reviewed; Region: PRK00218 96563007049 adenylosuccinate lyase; Provisional; Region: PRK09285 96563007050 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 96563007051 tetramer interface [polypeptide binding]; other site 96563007052 active site 96563007053 Uncharacterized conserved protein [Function unknown]; Region: COG2850 96563007054 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 96563007055 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96563007056 Coenzyme A binding pocket [chemical binding]; other site 96563007057 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 96563007058 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 96563007059 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 96563007060 tetramer interface [polypeptide binding]; other site 96563007061 active site 96563007062 Mg2+/Mn2+ binding site [ion binding]; other site 96563007063 isocitrate lyase; Region: PLN02892 96563007064 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 96563007065 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 96563007066 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 96563007067 Predicted permease [General function prediction only]; Region: COG2056 96563007068 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 96563007069 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 96563007070 active site 96563007071 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 96563007072 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 96563007073 active site 96563007074 putative substrate binding pocket [chemical binding]; other site 96563007075 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 96563007076 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 96563007077 S-adenosylmethionine binding site [chemical binding]; other site 96563007078 phosphoglycolate phosphatase; Provisional; Region: PRK13222 96563007079 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 96563007080 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 96563007081 motif II; other site 96563007082 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 96563007083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96563007084 NAD(P) binding site [chemical binding]; other site 96563007085 active site 96563007086 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 96563007087 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 96563007088 RNA binding surface [nucleotide binding]; other site 96563007089 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 96563007090 probable active site [active] 96563007091 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 96563007092 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 96563007093 active site 96563007094 intersubunit interface [polypeptide binding]; other site 96563007095 catalytic residue [active] 96563007096 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 96563007097 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 96563007098 putative active site [active] 96563007099 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 96563007100 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 96563007101 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 96563007102 HemK family putative methylases; Region: hemK_fam; TIGR00536 96563007103 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 96563007104 S-adenosylmethionine binding site [chemical binding]; other site 96563007105 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 96563007106 Isochorismatase family; Region: Isochorismatase; pfam00857 96563007107 catalytic triad [active] 96563007108 conserved cis-peptide bond; other site 96563007109 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 96563007110 Smr domain; Region: Smr; pfam01713 96563007111 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 96563007112 homodecamer interface [polypeptide binding]; other site 96563007113 GTP cyclohydrolase I; Provisional; Region: PLN03044 96563007114 active site 96563007115 putative catalytic site residues [active] 96563007116 zinc binding site [ion binding]; other site 96563007117 GTP-CH-I/GFRP interaction surface; other site 96563007118 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 96563007119 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 96563007120 putative C-terminal domain interface [polypeptide binding]; other site 96563007121 putative GSH binding site (G-site) [chemical binding]; other site 96563007122 putative dimer interface [polypeptide binding]; other site 96563007123 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 96563007124 N-terminal domain interface [polypeptide binding]; other site 96563007125 dimer interface [polypeptide binding]; other site 96563007126 substrate binding pocket (H-site) [chemical binding]; other site 96563007127 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 96563007128 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 96563007129 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563007130 homodimer interface [polypeptide binding]; other site 96563007131 catalytic residue [active] 96563007132 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 96563007133 MarR family; Region: MarR_2; pfam12802 96563007134 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 96563007135 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 96563007136 RNA binding site [nucleotide binding]; other site 96563007137 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 96563007138 RNA binding site [nucleotide binding]; other site 96563007139 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 96563007140 RNA binding site [nucleotide binding]; other site 96563007141 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 96563007142 RNA binding site [nucleotide binding]; other site 96563007143 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 96563007144 RNA binding site [nucleotide binding]; other site 96563007145 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 96563007146 RNA binding site [nucleotide binding]; other site 96563007147 cytidylate kinase; Provisional; Region: cmk; PRK00023 96563007148 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 96563007149 CMP-binding site; other site 96563007150 The sites determining sugar specificity; other site 96563007151 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 96563007152 prephenate dehydrogenase; Validated; Region: PRK08507 96563007153 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 96563007154 hinge; other site 96563007155 active site 96563007156 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 96563007157 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 96563007158 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563007159 homodimer interface [polypeptide binding]; other site 96563007160 catalytic residue [active] 96563007161 chorismate mutase domain of proteobacterial P-protein, clade 2; Region: CM_P2; TIGR01807 96563007162 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 96563007163 Prephenate dehydratase; Region: PDT; pfam00800 96563007164 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 96563007165 putative L-Phe binding site [chemical binding]; other site 96563007166 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 96563007167 homodimer interface [polypeptide binding]; other site 96563007168 substrate-cofactor binding pocket; other site 96563007169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563007170 catalytic residue [active] 96563007171 DNA gyrase subunit A; Validated; Region: PRK05560 96563007172 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 96563007173 CAP-like domain; other site 96563007174 active site 96563007175 primary dimer interface [polypeptide binding]; other site 96563007176 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 96563007177 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 96563007178 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 96563007179 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 96563007180 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 96563007181 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 96563007182 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 96563007183 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 96563007184 Uncharacterized conserved protein [Function unknown]; Region: COG4544 96563007185 DNA Polymerase Y-family; Region: PolY_like; cd03468 96563007186 active site 96563007187 DNA binding site [nucleotide binding] 96563007188 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 96563007189 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 96563007190 putative active site [active] 96563007191 putative PHP Thumb interface [polypeptide binding]; other site 96563007192 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 96563007193 generic binding surface I; other site 96563007194 generic binding surface II; other site 96563007195 D-cysteine desulfhydrase; Validated; Region: PRK03910 96563007196 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 96563007197 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 96563007198 catalytic residue [active] 96563007199 cystine transporter subunit; Provisional; Region: PRK11260 96563007200 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 96563007201 substrate binding pocket [chemical binding]; other site 96563007202 membrane-bound complex binding site; other site 96563007203 hinge residues; other site 96563007204 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 96563007205 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563007206 dimer interface [polypeptide binding]; other site 96563007207 conserved gate region; other site 96563007208 putative PBP binding loops; other site 96563007209 ABC-ATPase subunit interface; other site 96563007210 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563007211 Walker A/P-loop; other site 96563007212 ATP binding site [chemical binding]; other site 96563007213 Q-loop/lid; other site 96563007214 Transposase; Region: HTH_Tnp_1; cl17663 96563007215 putative transposase OrfB; Reviewed; Region: PHA02517 96563007216 Homeodomain-like domain; Region: HTH_32; pfam13565 96563007217 Integrase core domain; Region: rve; pfam00665 96563007218 Integrase core domain; Region: rve_3; pfam13683 96563007219 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563007220 ABC transporter signature motif; other site 96563007221 Walker B; other site 96563007222 D-loop; other site 96563007223 H-loop/switch region; other site 96563007224 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 96563007225 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 96563007226 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 96563007227 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 96563007228 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 96563007229 TrkA-N domain; Region: TrkA_N; pfam02254 96563007230 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 96563007231 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 96563007232 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]; Region: RAD55; COG0467 96563007233 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 96563007234 Walker A motif; other site 96563007235 ATP binding site [chemical binding]; other site 96563007236 Walker B motif; other site 96563007237 KaiC; Region: KaiC; pfam06745 96563007238 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 96563007239 Walker A motif; other site 96563007240 ATP binding site [chemical binding]; other site 96563007241 Walker B motif; other site 96563007242 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 96563007243 active site 96563007244 Int/Topo IB signature motif; other site 96563007245 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 96563007246 phage/plasmid-like protein TIGR03299; Region: LGT_TIGR03299 96563007247 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 96563007248 oligomeric interface; other site 96563007249 putative active site [active] 96563007250 homodimer interface [polypeptide binding]; other site 96563007251 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 96563007252 putative phage-type endonuclease; Region: phage_rel_nuc; TIGR03033 96563007253 hypothetical protein; Reviewed; Region: PRK00024 96563007254 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 96563007255 MPN+ (JAMM) motif; other site 96563007256 Zinc-binding site [ion binding]; other site 96563007257 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 96563007258 Protein of unknown function (DUF499); Region: DUF499; pfam04465 96563007259 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 96563007260 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 96563007261 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 96563007262 DEAD-like helicases superfamily; Region: DEXDc; smart00487 96563007263 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 96563007264 ATP binding site [chemical binding]; other site 96563007265 putative Mg++ binding site [ion binding]; other site 96563007266 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 96563007267 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 96563007268 nucleotide binding region [chemical binding]; other site 96563007269 ATP-binding site [chemical binding]; other site 96563007270 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 96563007271 WYL domain; Region: WYL; pfam13280 96563007272 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 96563007273 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 96563007274 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 96563007275 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 96563007276 Walker A motif; other site 96563007277 ATP binding site [chemical binding]; other site 96563007278 Walker B motif; other site 96563007279 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563007280 Integrase core domain; Region: rve; pfam00665 96563007281 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563007282 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 96563007283 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 96563007284 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 96563007285 DNA binding residues [nucleotide binding] 96563007286 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 96563007287 IHF dimer interface [polypeptide binding]; other site 96563007288 IHF - DNA interface [nucleotide binding]; other site 96563007289 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 96563007290 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 96563007291 putative tRNA-binding site [nucleotide binding]; other site 96563007292 B3/4 domain; Region: B3_4; pfam03483 96563007293 tRNA synthetase B5 domain; Region: B5; smart00874 96563007294 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 96563007295 dimer interface [polypeptide binding]; other site 96563007296 motif 1; other site 96563007297 motif 3; other site 96563007298 motif 2; other site 96563007299 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 96563007300 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 96563007301 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 96563007302 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 96563007303 dimer interface [polypeptide binding]; other site 96563007304 motif 1; other site 96563007305 active site 96563007306 motif 2; other site 96563007307 motif 3; other site 96563007308 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 96563007309 23S rRNA binding site [nucleotide binding]; other site 96563007310 L21 binding site [polypeptide binding]; other site 96563007311 L13 binding site [polypeptide binding]; other site 96563007312 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 96563007313 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 96563007314 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 96563007315 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 96563007316 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 96563007317 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 96563007318 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 96563007319 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 96563007320 active site 96563007321 dimer interface [polypeptide binding]; other site 96563007322 motif 1; other site 96563007323 motif 2; other site 96563007324 motif 3; other site 96563007325 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 96563007326 anticodon binding site; other site 96563007327 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 96563007328 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 96563007329 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 96563007330 Acyltransferase family; Region: Acyl_transf_3; pfam01757 96563007331 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 96563007332 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 96563007333 GTP binding site; other site 96563007334 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 96563007335 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 96563007336 outer membrane porin, OprD family; Region: OprD; pfam03573 96563007337 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 96563007338 Predicted membrane protein [Function unknown]; Region: COG5393 96563007339 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 96563007340 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96563007341 Zn2+ binding site [ion binding]; other site 96563007342 Mg2+ binding site [ion binding]; other site 96563007343 hypothetical protein; Provisional; Region: PRK11702 96563007344 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 96563007345 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 96563007346 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 96563007347 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 96563007348 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 96563007349 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 96563007350 S-adenosylmethionine binding site [chemical binding]; other site 96563007351 Ribosome modulation factor; Region: RMF; pfam04957 96563007352 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 96563007353 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 96563007354 quinone interaction residues [chemical binding]; other site 96563007355 active site 96563007356 catalytic residues [active] 96563007357 FMN binding site [chemical binding]; other site 96563007358 substrate binding site [chemical binding]; other site 96563007359 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 96563007360 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 96563007361 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 96563007362 MoxR-like ATPases [General function prediction only]; Region: COG0714 96563007363 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 96563007364 Walker A motif; other site 96563007365 ATP binding site [chemical binding]; other site 96563007366 Walker B motif; other site 96563007367 arginine finger; other site 96563007368 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 96563007369 Protein of unknown function DUF58; Region: DUF58; pfam01882 96563007370 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 96563007371 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 96563007372 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 96563007373 metal ion-dependent adhesion site (MIDAS); other site 96563007374 von Willebrand factor type A domain; Region: VWA_2; pfam13519 96563007375 metal ion-dependent adhesion site (MIDAS); other site 96563007376 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 96563007377 TPR motif; other site 96563007378 binding surface 96563007379 TPR repeat; Region: TPR_11; pfam13414 96563007380 Oxygen tolerance; Region: BatD; pfam13584 96563007381 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 96563007382 NMT1-like family; Region: NMT1_2; pfam13379 96563007383 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 96563007384 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563007385 active site 96563007386 phosphorylation site [posttranslational modification] 96563007387 intermolecular recognition site; other site 96563007388 dimerization interface [polypeptide binding]; other site 96563007389 ANTAR domain; Region: ANTAR; pfam03861 96563007390 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 96563007391 active site 96563007392 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 96563007393 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 96563007394 putative substrate binding site [chemical binding]; other site 96563007395 putative ATP binding site [chemical binding]; other site 96563007396 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 96563007397 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 96563007398 putative substrate translocation pore; other site 96563007399 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 96563007400 active site 96563007401 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 96563007402 Catalytic domain of Protein Kinases; Region: PKc; cd00180 96563007403 active site 96563007404 ATP binding site [chemical binding]; other site 96563007405 substrate binding site [chemical binding]; other site 96563007406 activation loop (A-loop); other site 96563007407 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 96563007408 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 96563007409 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 96563007410 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 96563007411 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 96563007412 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 96563007413 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 96563007414 [2Fe-2S] cluster binding site [ion binding]; other site 96563007415 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 96563007416 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 96563007417 [4Fe-4S] binding site [ion binding]; other site 96563007418 molybdopterin cofactor binding site; other site 96563007419 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 96563007420 molybdopterin cofactor binding site; other site 96563007421 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 96563007422 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 96563007423 active site 96563007424 SAM binding site [chemical binding]; other site 96563007425 homodimer interface [polypeptide binding]; other site 96563007426 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 96563007427 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 96563007428 aminopeptidase N; Provisional; Region: pepN; PRK14015 96563007429 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 96563007430 active site 96563007431 Zn binding site [ion binding]; other site 96563007432 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 96563007433 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 96563007434 Rhomboid family; Region: Rhomboid; pfam01694 96563007435 Pseudomonas aeruginosa PA3087 and related proteins, metallophosphatase domain; Region: MPP_PA3087; cd07413 96563007436 active site 96563007437 metal binding site [ion binding]; metal-binding site 96563007438 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 96563007439 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 96563007440 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 96563007441 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 96563007442 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 96563007443 Chromate transporter; Region: Chromate_transp; pfam02417 96563007444 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 96563007445 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563007446 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563007447 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 96563007448 putative effector binding pocket; other site 96563007449 dimerization interface [polypeptide binding]; other site 96563007450 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 96563007451 spermidine synthase; Provisional; Region: PRK00811 96563007452 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 96563007453 S-adenosylmethionine binding site [chemical binding]; other site 96563007454 AlkA N-terminal domain; Region: AlkA_N; pfam06029 96563007455 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 96563007456 minor groove reading motif; other site 96563007457 helix-hairpin-helix signature motif; other site 96563007458 active site 96563007459 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 96563007460 catalytic core [active] 96563007461 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 96563007462 Cupin domain; Region: Cupin_2; cl17218 96563007463 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 96563007464 Major Facilitator Superfamily; Region: MFS_1; pfam07690 96563007465 putative substrate translocation pore; other site 96563007466 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 96563007467 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 96563007468 Tetramer interface [polypeptide binding]; other site 96563007469 active site 96563007470 FMN-binding site [chemical binding]; other site 96563007471 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 96563007472 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 96563007473 trimer interface; other site 96563007474 sugar binding site [chemical binding]; other site 96563007475 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 96563007476 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 96563007477 Walker A/P-loop; other site 96563007478 ATP binding site [chemical binding]; other site 96563007479 Q-loop/lid; other site 96563007480 ABC transporter signature motif; other site 96563007481 Walker B; other site 96563007482 D-loop; other site 96563007483 H-loop/switch region; other site 96563007484 TOBE domain; Region: TOBE; pfam03459 96563007485 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 96563007486 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563007487 dimer interface [polypeptide binding]; other site 96563007488 conserved gate region; other site 96563007489 putative PBP binding loops; other site 96563007490 ABC-ATPase subunit interface; other site 96563007491 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563007492 dimer interface [polypeptide binding]; other site 96563007493 conserved gate region; other site 96563007494 putative PBP binding loops; other site 96563007495 ABC-ATPase subunit interface; other site 96563007496 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 96563007497 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 96563007498 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 96563007499 dimerization interface [polypeptide binding]; other site 96563007500 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 96563007501 ATP binding site [chemical binding]; other site 96563007502 Mg2+ binding site [ion binding]; other site 96563007503 G-X-G motif; other site 96563007504 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 96563007505 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563007506 active site 96563007507 phosphorylation site [posttranslational modification] 96563007508 intermolecular recognition site; other site 96563007509 dimerization interface [polypeptide binding]; other site 96563007510 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 96563007511 DNA binding site [nucleotide binding] 96563007512 glucokinase, proteobacterial type; Region: glk; TIGR00749 96563007513 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 96563007514 nucleotide binding site [chemical binding]; other site 96563007515 phosphogluconate dehydratase; Validated; Region: PRK09054 96563007516 6-phosphogluconate dehydratase; Region: edd; TIGR01196 96563007517 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 96563007518 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 96563007519 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 96563007520 active site 96563007521 HIGH motif; other site 96563007522 dimer interface [polypeptide binding]; other site 96563007523 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 96563007524 active site 96563007525 KMSKS motif; other site 96563007526 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 96563007527 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 96563007528 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 96563007529 active site 96563007530 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 96563007531 YciI-like protein; Reviewed; Region: PRK11370 96563007532 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 96563007533 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563007534 active site 96563007535 phosphorylation site [posttranslational modification] 96563007536 intermolecular recognition site; other site 96563007537 dimerization interface [polypeptide binding]; other site 96563007538 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 96563007539 DNA binding site [nucleotide binding] 96563007540 synthase/transferase; Region: PLN02316 96563007541 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96563007542 HAMP domain; Region: HAMP; pfam00672 96563007543 dimerization interface [polypeptide binding]; other site 96563007544 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 96563007545 dimer interface [polypeptide binding]; other site 96563007546 phosphorylation site [posttranslational modification] 96563007547 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 96563007548 ATP binding site [chemical binding]; other site 96563007549 G-X-G motif; other site 96563007550 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 96563007551 putative FMN binding site [chemical binding]; other site 96563007552 Flagellin N-methylase; Region: FliB; cl00497 96563007553 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 96563007554 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 96563007555 Protein of unknown function (DUF808); Region: DUF808; pfam05661 96563007556 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 96563007557 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 96563007558 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563007559 Protein of unknown function (DUF962); Region: DUF962; cl01879 96563007560 MASE2 domain; Region: MASE2; pfam05230 96563007561 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 96563007562 cyclase homology domain; Region: CHD; cd07302 96563007563 nucleotidyl binding site; other site 96563007564 metal binding site [ion binding]; metal-binding site 96563007565 dimer interface [polypeptide binding]; other site 96563007566 Cupin domain; Region: Cupin_2; cl17218 96563007567 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 96563007568 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563007569 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563007570 EamA-like transporter family; Region: EamA; pfam00892 96563007571 Rdx family; Region: Rdx; cl01407 96563007572 hypothetical protein; Provisional; Region: PRK10279 96563007573 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 96563007574 active site 96563007575 nucleophile elbow; other site 96563007576 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 96563007577 Surface antigen; Region: Bac_surface_Ag; pfam01103 96563007578 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 96563007579 MarR family; Region: MarR_2; pfam12802 96563007580 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 96563007581 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 96563007582 ATP binding site [chemical binding]; other site 96563007583 putative Mg++ binding site [ion binding]; other site 96563007584 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 96563007585 nucleotide binding region [chemical binding]; other site 96563007586 ATP-binding site [chemical binding]; other site 96563007587 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 96563007588 HRDC domain; Region: HRDC; pfam00570 96563007589 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 96563007590 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 96563007591 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 96563007592 DTW domain; Region: DTW; cl01221 96563007593 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 96563007594 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 96563007595 putative C-terminal domain interface [polypeptide binding]; other site 96563007596 putative GSH binding site (G-site) [chemical binding]; other site 96563007597 putative dimer interface [polypeptide binding]; other site 96563007598 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 96563007599 putative N-terminal domain interface [polypeptide binding]; other site 96563007600 putative dimer interface [polypeptide binding]; other site 96563007601 putative substrate binding pocket (H-site) [chemical binding]; other site 96563007602 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 96563007603 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 96563007604 EamA-like transporter family; Region: EamA; pfam00892 96563007605 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 96563007606 EamA-like transporter family; Region: EamA; pfam00892 96563007607 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 96563007608 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 96563007609 dimer interface [polypeptide binding]; other site 96563007610 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563007611 catalytic residue [active] 96563007612 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 96563007613 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 96563007614 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 96563007615 Walker A motif; other site 96563007616 ATP binding site [chemical binding]; other site 96563007617 Walker B motif; other site 96563007618 arginine finger; other site 96563007619 Uncharacterized conserved protein [Function unknown]; Region: COG3791 96563007620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 96563007621 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 96563007622 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 96563007623 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 96563007624 putative active site [active] 96563007625 putative dimer interface [polypeptide binding]; other site 96563007626 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 96563007627 Ligand Binding Site [chemical binding]; other site 96563007628 ABC transporter ATPase component; Reviewed; Region: PRK11147 96563007629 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 96563007630 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 96563007631 ABC transporter; Region: ABC_tran_2; pfam12848 96563007632 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 96563007633 lytic murein transglycosylase; Provisional; Region: PRK11619 96563007634 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 96563007635 N-acetyl-D-glucosamine binding site [chemical binding]; other site 96563007636 catalytic residue [active] 96563007637 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 96563007638 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 96563007639 MOSC domain; Region: MOSC; pfam03473 96563007640 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 96563007641 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96563007642 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563007643 active site 96563007644 phosphorylation site [posttranslational modification] 96563007645 intermolecular recognition site; other site 96563007646 dimerization interface [polypeptide binding]; other site 96563007647 lipid kinase; Reviewed; Region: PRK13054 96563007648 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 96563007649 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 96563007650 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 96563007651 Low molecular weight phosphatase family; Region: LMWPc; cd00115 96563007652 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 96563007653 active site 96563007654 tyrosine kinase; Provisional; Region: PRK11519 96563007655 Chain length determinant protein; Region: Wzz; pfam02706 96563007656 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 96563007657 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 96563007658 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 96563007659 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 96563007660 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 96563007661 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 96563007662 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 96563007663 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 96563007664 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 96563007665 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 96563007666 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 96563007667 Probable Catalytic site; other site 96563007668 metal-binding site 96563007669 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 96563007670 polysaccharide export protein Wza; Provisional; Region: PRK15078 96563007671 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 96563007672 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 96563007673 Transposase; Region: DDE_Tnp_ISL3; pfam01610 96563007674 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 96563007675 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 96563007676 dimer interface [polypeptide binding]; other site 96563007677 active site 96563007678 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 96563007679 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 96563007680 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 96563007681 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 96563007682 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 96563007683 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 96563007684 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 96563007685 NAD(P) binding site [chemical binding]; other site 96563007686 homodimer interface [polypeptide binding]; other site 96563007687 substrate binding site [chemical binding]; other site 96563007688 active site 96563007689 Bacterial sugar transferase; Region: Bac_transf; pfam02397 96563007690 4Fe-4S binding domain; Region: Fer4; pfam00037 96563007691 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 96563007692 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 96563007693 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 96563007694 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 96563007695 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 96563007696 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 96563007697 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 96563007698 Beta-Casp domain; Region: Beta-Casp; smart01027 96563007699 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 96563007700 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 96563007701 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 96563007702 IHF dimer interface [polypeptide binding]; other site 96563007703 IHF - DNA interface [nucleotide binding]; other site 96563007704 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 96563007705 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 96563007706 ATP binding site [chemical binding]; other site 96563007707 Mg++ binding site [ion binding]; other site 96563007708 motif III; other site 96563007709 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 96563007710 nucleotide binding region [chemical binding]; other site 96563007711 ATP-binding site [chemical binding]; other site 96563007712 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 96563007713 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 96563007714 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96563007715 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563007716 dimer interface [polypeptide binding]; other site 96563007717 putative CheW interface [polypeptide binding]; other site 96563007718 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 96563007719 S-adenosylmethionine binding site [chemical binding]; other site 96563007720 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 96563007721 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 96563007722 transmembrane helices; other site 96563007723 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 96563007724 elongation factor P; Validated; Region: PRK00529 96563007725 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 96563007726 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 96563007727 RNA binding site [nucleotide binding]; other site 96563007728 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 96563007729 RNA binding site [nucleotide binding]; other site 96563007730 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 96563007731 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 96563007732 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 96563007733 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 96563007734 catalytic residues [active] 96563007735 catalytic nucleophile [active] 96563007736 Presynaptic Site I dimer interface [polypeptide binding]; other site 96563007737 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 96563007738 Synaptic Flat tetramer interface [polypeptide binding]; other site 96563007739 Synaptic Site I dimer interface [polypeptide binding]; other site 96563007740 DNA binding site [nucleotide binding] 96563007741 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 96563007742 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 96563007743 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 96563007744 Protein of unknown function (DUF524); Region: DUF524; pfam04411 96563007745 putative transposase OrfB; Reviewed; Region: PHA02517 96563007746 HTH-like domain; Region: HTH_21; pfam13276 96563007747 Integrase core domain; Region: rve; pfam00665 96563007748 Integrase core domain; Region: rve_3; pfam13683 96563007749 Transposase; Region: HTH_Tnp_1; cl17663 96563007750 KilA-N domain; Region: KilA-N; pfam04383 96563007751 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 96563007752 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 96563007753 Int/Topo IB signature motif; other site 96563007754 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 96563007755 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 96563007756 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 96563007757 Walker A motif; other site 96563007758 ATP binding site [chemical binding]; other site 96563007759 Walker B motif; other site 96563007760 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563007761 Integrase core domain; Region: rve; pfam00665 96563007762 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563007763 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 96563007764 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 96563007765 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 96563007766 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 96563007767 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 96563007768 ligand binding site [chemical binding]; other site 96563007769 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 96563007770 ZIP Zinc transporter; Region: Zip; pfam02535 96563007771 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 96563007772 HlyD family secretion protein; Region: HlyD_3; pfam13437 96563007773 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 96563007774 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 96563007775 FtsX-like permease family; Region: FtsX; pfam02687 96563007776 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 96563007777 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 96563007778 Walker A/P-loop; other site 96563007779 ATP binding site [chemical binding]; other site 96563007780 Q-loop/lid; other site 96563007781 ABC transporter signature motif; other site 96563007782 Walker B; other site 96563007783 D-loop; other site 96563007784 H-loop/switch region; other site 96563007785 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 96563007786 Putative phosphatase (DUF442); Region: DUF442; cl17385 96563007787 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 96563007788 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 96563007789 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 96563007790 high affinity sulphate transporter 1; Region: sulP; TIGR00815 96563007791 Sulfate transporter family; Region: Sulfate_transp; pfam00916 96563007792 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 96563007793 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 96563007794 active site residue [active] 96563007795 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 96563007796 Predicted transporter component [General function prediction only]; Region: COG2391 96563007797 Sulphur transport; Region: Sulf_transp; pfam04143 96563007798 Predicted transporter component [General function prediction only]; Region: COG2391 96563007799 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 96563007800 dimerization interface [polypeptide binding]; other site 96563007801 putative DNA binding site [nucleotide binding]; other site 96563007802 putative Zn2+ binding site [ion binding]; other site 96563007803 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 96563007804 putative homodimer interface [polypeptide binding]; other site 96563007805 putative homotetramer interface [polypeptide binding]; other site 96563007806 putative metal binding site [ion binding]; other site 96563007807 putative homodimer-homodimer interface [polypeptide binding]; other site 96563007808 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 96563007809 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 96563007810 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 96563007811 P-loop; other site 96563007812 Magnesium ion binding site [ion binding]; other site 96563007813 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 96563007814 Magnesium ion binding site [ion binding]; other site 96563007815 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 96563007816 transposase/IS protein; Provisional; Region: PRK09183 96563007817 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 96563007818 Walker A motif; other site 96563007819 ATP binding site [chemical binding]; other site 96563007820 Walker B motif; other site 96563007821 arginine finger; other site 96563007822 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563007823 Integrase core domain; Region: rve; pfam00665 96563007824 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 96563007825 active site 96563007826 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 96563007827 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 96563007828 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563007829 Integrase core domain; Region: rve; pfam00665 96563007830 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563007831 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 96563007832 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 96563007833 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 96563007834 Walker A motif; other site 96563007835 ATP binding site [chemical binding]; other site 96563007836 Walker B motif; other site 96563007837 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 96563007838 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 96563007839 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 96563007840 putative NAD(P) binding site [chemical binding]; other site 96563007841 dimer interface [polypeptide binding]; other site 96563007842 Uncharacterized conserved protein [Function unknown]; Region: COG1359 96563007843 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 96563007844 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 96563007845 putative NAD(P) binding site [chemical binding]; other site 96563007846 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 96563007847 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 96563007848 active site 96563007849 FMN binding site [chemical binding]; other site 96563007850 substrate binding site [chemical binding]; other site 96563007851 homotetramer interface [polypeptide binding]; other site 96563007852 catalytic residue [active] 96563007853 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 96563007854 putative DNA binding site [nucleotide binding]; other site 96563007855 putative Zn2+ binding site [ion binding]; other site 96563007856 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 96563007857 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 96563007858 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 96563007859 N-acetyl-D-glucosamine binding site [chemical binding]; other site 96563007860 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 96563007861 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 96563007862 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 96563007863 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 96563007864 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 96563007865 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 96563007866 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 96563007867 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 96563007868 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 96563007869 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 96563007870 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 96563007871 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 96563007872 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 96563007873 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 96563007874 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 96563007875 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 96563007876 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 96563007877 MPN+ (JAMM) motif; other site 96563007878 Zinc-binding site [ion binding]; other site 96563007879 Protein of unknown function (DUF1525); Region: DUF1525; pfam07511 96563007880 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 96563007881 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 96563007882 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 96563007883 PIN domain; Region: PIN_3; cl17397 96563007884 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 96563007885 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 96563007886 Putative helicase; Region: TraI_2; pfam07514 96563007887 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 96563007888 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 96563007889 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 96563007890 HlyD family secretion protein; Region: HlyD_3; pfam13437 96563007891 Outer membrane efflux protein; Region: OEP; pfam02321 96563007892 Outer membrane efflux protein; Region: OEP; pfam02321 96563007893 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 96563007894 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 96563007895 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 96563007896 Multicopper oxidase; Region: Cu-oxidase; pfam00394 96563007897 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 96563007898 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 96563007899 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 96563007900 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563007901 active site 96563007902 phosphorylation site [posttranslational modification] 96563007903 intermolecular recognition site; other site 96563007904 dimerization interface [polypeptide binding]; other site 96563007905 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 96563007906 DNA binding site [nucleotide binding] 96563007907 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 96563007908 HAMP domain; Region: HAMP; pfam00672 96563007909 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 96563007910 dimer interface [polypeptide binding]; other site 96563007911 phosphorylation site [posttranslational modification] 96563007912 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 96563007913 ATP binding site [chemical binding]; other site 96563007914 G-X-G motif; other site 96563007915 YHS domain; Region: YHS; pfam04945 96563007916 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 96563007917 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 96563007918 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 96563007919 motif II; other site 96563007920 Predicted metal-binding protein [General function prediction only]; Region: COG3019 96563007921 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 96563007922 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 96563007923 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 96563007924 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 96563007925 DsbD alpha interface [polypeptide binding]; other site 96563007926 catalytic residues [active] 96563007927 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 96563007928 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 96563007929 active site 96563007930 Int/Topo IB signature motif; other site 96563007931 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 96563007932 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 96563007933 C-terminal domain interface [polypeptide binding]; other site 96563007934 GSH binding site (G-site) [chemical binding]; other site 96563007935 dimer interface [polypeptide binding]; other site 96563007936 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 96563007937 N-terminal domain interface [polypeptide binding]; other site 96563007938 dimer interface [polypeptide binding]; other site 96563007939 substrate binding pocket (H-site) [chemical binding]; other site 96563007940 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 96563007941 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 96563007942 Walker A motif; other site 96563007943 ATP binding site [chemical binding]; other site 96563007944 Walker B motif; other site 96563007945 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 96563007946 catalytic residues [active] 96563007947 dimer interface [polypeptide binding]; other site 96563007948 methionine sulfoxide reductase B; Provisional; Region: PRK00222 96563007949 SelR domain; Region: SelR; pfam01641 96563007950 aminotransferase AlaT; Validated; Region: PRK09265 96563007951 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 96563007952 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563007953 homodimer interface [polypeptide binding]; other site 96563007954 catalytic residue [active] 96563007955 heat shock protein HtpX; Provisional; Region: PRK05457 96563007956 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 96563007957 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 96563007958 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 96563007959 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 96563007960 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563007961 active site 96563007962 phosphorylation site [posttranslational modification] 96563007963 intermolecular recognition site; other site 96563007964 dimerization interface [polypeptide binding]; other site 96563007965 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 96563007966 Walker A motif; other site 96563007967 ATP binding site [chemical binding]; other site 96563007968 Walker B motif; other site 96563007969 arginine finger; other site 96563007970 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96563007971 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 96563007972 dimer interface [polypeptide binding]; other site 96563007973 phosphorylation site [posttranslational modification] 96563007974 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 96563007975 ATP binding site [chemical binding]; other site 96563007976 Mg2+ binding site [ion binding]; other site 96563007977 G-X-G motif; other site 96563007978 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 96563007979 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 96563007980 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 96563007981 Walker A motif; other site 96563007982 ATP binding site [chemical binding]; other site 96563007983 Walker B motif; other site 96563007984 arginine finger; other site 96563007985 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96563007986 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 96563007987 TPR repeat; Region: TPR_11; pfam13414 96563007988 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 96563007989 binding surface 96563007990 TPR motif; other site 96563007991 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 96563007992 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 96563007993 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 96563007994 catalytic residues [active] 96563007995 central insert; other site 96563007996 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 96563007997 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 96563007998 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 96563007999 heme exporter protein CcmC; Region: ccmC; TIGR01191 96563008000 heme exporter protein CcmB; Region: ccmB; TIGR01190 96563008001 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 96563008002 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 96563008003 Walker A/P-loop; other site 96563008004 ATP binding site [chemical binding]; other site 96563008005 Q-loop/lid; other site 96563008006 ABC transporter signature motif; other site 96563008007 Walker B; other site 96563008008 D-loop; other site 96563008009 H-loop/switch region; other site 96563008010 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 96563008011 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 96563008012 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 96563008013 active site residue [active] 96563008014 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 96563008015 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 96563008016 putative CheA interaction surface; other site 96563008017 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 96563008018 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 96563008019 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 96563008020 Magnesium ion binding site [ion binding]; other site 96563008021 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 96563008022 Magnesium ion binding site [ion binding]; other site 96563008023 flagellar motor protein MotD; Reviewed; Region: PRK09038 96563008024 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 96563008025 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 96563008026 ligand binding site [chemical binding]; other site 96563008027 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 96563008028 flagellar motor protein; Reviewed; Region: motC; PRK09109 96563008029 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 96563008030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563008031 active site 96563008032 phosphorylation site [posttranslational modification] 96563008033 intermolecular recognition site; other site 96563008034 dimerization interface [polypeptide binding]; other site 96563008035 CheB methylesterase; Region: CheB_methylest; pfam01339 96563008036 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 96563008037 putative binding surface; other site 96563008038 active site 96563008039 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 96563008040 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 96563008041 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 96563008042 ATP binding site [chemical binding]; other site 96563008043 Mg2+ binding site [ion binding]; other site 96563008044 G-X-G motif; other site 96563008045 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 96563008046 Homeodomain-like domain; Region: HTH_23; pfam13384 96563008047 Winged helix-turn helix; Region: HTH_29; pfam13551 96563008048 Winged helix-turn helix; Region: HTH_33; pfam13592 96563008049 DDE superfamily endonuclease; Region: DDE_3; pfam13358 96563008050 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 96563008051 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 96563008052 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 96563008053 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563008054 active site 96563008055 phosphorylation site [posttranslational modification] 96563008056 intermolecular recognition site; other site 96563008057 dimerization interface [polypeptide binding]; other site 96563008058 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 96563008059 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 96563008060 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 96563008061 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 96563008062 DNA binding residues [nucleotide binding] 96563008063 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 96563008064 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 96563008065 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 96563008066 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 96563008067 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 96563008068 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 96563008069 FHIPEP family; Region: FHIPEP; pfam00771 96563008070 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 96563008071 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 96563008072 E-class dimer interface [polypeptide binding]; other site 96563008073 P-class dimer interface [polypeptide binding]; other site 96563008074 active site 96563008075 Cu2+ binding site [ion binding]; other site 96563008076 Zn2+ binding site [ion binding]; other site 96563008077 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 96563008078 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 96563008079 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 96563008080 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 96563008081 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 96563008082 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 96563008083 flagellar motor switch protein; Validated; Region: fliN; PRK05698 96563008084 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 96563008085 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 96563008086 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 96563008087 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 96563008088 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 96563008089 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 96563008090 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 96563008091 putative binding surface; other site 96563008092 active site 96563008093 Response regulator receiver domain; Region: Response_reg; pfam00072 96563008094 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563008095 active site 96563008096 phosphorylation site [posttranslational modification] 96563008097 intermolecular recognition site; other site 96563008098 dimerization interface [polypeptide binding]; other site 96563008099 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 96563008100 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 96563008101 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 96563008102 ATP binding site [chemical binding]; other site 96563008103 Mg2+ binding site [ion binding]; other site 96563008104 G-X-G motif; other site 96563008105 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 96563008106 anti sigma factor interaction site; other site 96563008107 regulatory phosphorylation site [posttranslational modification]; other site 96563008108 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 96563008109 Flagellar FliJ protein; Region: FliJ; pfam02050 96563008110 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 96563008111 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 96563008112 Walker A motif/ATP binding site; other site 96563008113 Walker B motif; other site 96563008114 flagellar assembly protein H; Validated; Region: fliH; PRK05687 96563008115 Flagellar assembly protein FliH; Region: FliH; pfam02108 96563008116 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 96563008117 MgtE intracellular N domain; Region: MgtE_N; smart00924 96563008118 FliG C-terminal domain; Region: FliG_C; pfam01706 96563008119 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 96563008120 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 96563008121 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 96563008122 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 96563008123 benzoate transporter; Region: benE; TIGR00843 96563008124 Benzoate membrane transport protein; Region: BenE; pfam03594 96563008125 short chain dehydrogenase; Provisional; Region: PRK06172 96563008126 classical (c) SDRs; Region: SDR_c; cd05233 96563008127 NAD(P) binding site [chemical binding]; other site 96563008128 active site 96563008129 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 96563008130 Prostaglandin dehydrogenases; Region: PGDH; cd05288 96563008131 NAD(P) binding site [chemical binding]; other site 96563008132 substrate binding site [chemical binding]; other site 96563008133 dimer interface [polypeptide binding]; other site 96563008134 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 96563008135 active site 96563008136 dimer interface [polypeptide binding]; other site 96563008137 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 96563008138 CHASE4 domain; Region: CHASE4; pfam05228 96563008139 PAS domain S-box; Region: sensory_box; TIGR00229 96563008140 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 96563008141 putative active site [active] 96563008142 heme pocket [chemical binding]; other site 96563008143 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563008144 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563008145 metal binding site [ion binding]; metal-binding site 96563008146 active site 96563008147 I-site; other site 96563008148 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 96563008149 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 96563008150 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 96563008151 DNA-binding site [nucleotide binding]; DNA binding site 96563008152 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 96563008153 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563008154 homodimer interface [polypeptide binding]; other site 96563008155 catalytic residue [active] 96563008156 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 96563008157 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 96563008158 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 96563008159 ligand binding site [chemical binding]; other site 96563008160 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 96563008161 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 96563008162 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 96563008163 substrate binding pocket [chemical binding]; other site 96563008164 membrane-bound complex binding site; other site 96563008165 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 96563008166 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 96563008167 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 96563008168 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 96563008169 Ligand binding site [chemical binding]; other site 96563008170 Electron transfer flavoprotein domain; Region: ETF; pfam01012 96563008171 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 96563008172 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 96563008173 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 96563008174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 96563008175 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 96563008176 Radical SAM superfamily; Region: Radical_SAM; pfam04055 96563008177 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 96563008178 FeS/SAM binding site; other site 96563008179 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96563008180 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96563008181 WHG domain; Region: WHG; pfam13305 96563008182 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 96563008183 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 96563008184 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 96563008185 catalytic residue [active] 96563008186 aromatic amino acid transporter; Provisional; Region: PRK10238 96563008187 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 96563008188 active site 96563008189 PilZ domain; Region: PilZ; cl01260 96563008190 DNA polymerase III subunit delta'; Validated; Region: PRK05707 96563008191 thymidylate kinase; Validated; Region: tmk; PRK00698 96563008192 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 96563008193 TMP-binding site; other site 96563008194 ATP-binding site [chemical binding]; other site 96563008195 YceG-like family; Region: YceG; pfam02618 96563008196 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 96563008197 dimerization interface [polypeptide binding]; other site 96563008198 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 96563008199 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 96563008200 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563008201 catalytic residue [active] 96563008202 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 96563008203 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 96563008204 dimer interface [polypeptide binding]; other site 96563008205 active site 96563008206 acyl carrier protein; Provisional; Region: acpP; PRK00982 96563008207 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 96563008208 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 96563008209 NAD(P) binding site [chemical binding]; other site 96563008210 homotetramer interface [polypeptide binding]; other site 96563008211 homodimer interface [polypeptide binding]; other site 96563008212 active site 96563008213 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 96563008214 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 96563008215 putative phosphate acyltransferase; Provisional; Region: PRK05331 96563008216 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 96563008217 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 96563008218 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 96563008219 active site 96563008220 dimer interface [polypeptide binding]; other site 96563008221 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 96563008222 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 96563008223 tandem repeat interface [polypeptide binding]; other site 96563008224 oligomer interface [polypeptide binding]; other site 96563008225 active site residues [active] 96563008226 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 96563008227 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 96563008228 motif II; other site 96563008229 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 96563008230 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 96563008231 RNA binding surface [nucleotide binding]; other site 96563008232 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 96563008233 active site 96563008234 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 96563008235 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 96563008236 homodimer interface [polypeptide binding]; other site 96563008237 oligonucleotide binding site [chemical binding]; other site 96563008238 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 96563008239 FAD binding domain; Region: FAD_binding_4; pfam01565 96563008240 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 96563008241 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 96563008242 Low molecular weight phosphatase family; Region: LMWPc; cd00115 96563008243 active site 96563008244 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 96563008245 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 96563008246 Ligand binding site; other site 96563008247 oligomer interface; other site 96563008248 Uncharacterized conserved protein [Function unknown]; Region: COG2835 96563008249 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 96563008250 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 96563008251 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 96563008252 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 96563008253 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 96563008254 ComEC family competence protein; Provisional; Region: PRK11539 96563008255 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 96563008256 Competence protein; Region: Competence; pfam03772 96563008257 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 96563008258 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 96563008259 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 96563008260 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 96563008261 FtsX-like permease family; Region: FtsX; pfam02687 96563008262 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 96563008263 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 96563008264 Walker A/P-loop; other site 96563008265 ATP binding site [chemical binding]; other site 96563008266 Q-loop/lid; other site 96563008267 ABC transporter signature motif; other site 96563008268 Walker B; other site 96563008269 D-loop; other site 96563008270 H-loop/switch region; other site 96563008271 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 96563008272 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 96563008273 FtsX-like permease family; Region: FtsX; pfam02687 96563008274 PilZ domain; Region: PilZ; pfam07238 96563008275 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 96563008276 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 96563008277 active site 96563008278 catalytic site [active] 96563008279 metal binding site [ion binding]; metal-binding site 96563008280 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 96563008281 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 96563008282 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 96563008283 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 96563008284 Protein of unknown function (DUF539); Region: DUF539; cl01129 96563008285 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 96563008286 ApbE family; Region: ApbE; pfam02424 96563008287 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 96563008288 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 96563008289 catalytic loop [active] 96563008290 iron binding site [ion binding]; other site 96563008291 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 96563008292 FAD binding pocket [chemical binding]; other site 96563008293 FAD binding motif [chemical binding]; other site 96563008294 phosphate binding motif [ion binding]; other site 96563008295 beta-alpha-beta structure motif; other site 96563008296 NAD binding pocket [chemical binding]; other site 96563008297 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 96563008298 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 96563008299 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 96563008300 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 96563008301 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 96563008302 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 96563008303 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 96563008304 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 96563008305 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 96563008306 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 96563008307 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 96563008308 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 96563008309 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 96563008310 ATP binding site [chemical binding]; other site 96563008311 putative Mg++ binding site [ion binding]; other site 96563008312 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 96563008313 nucleotide binding region [chemical binding]; other site 96563008314 ATP-binding site [chemical binding]; other site 96563008315 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 96563008316 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 96563008317 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 96563008318 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 96563008319 ATP binding site [chemical binding]; other site 96563008320 putative Mg++ binding site [ion binding]; other site 96563008321 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 96563008322 nucleotide binding region [chemical binding]; other site 96563008323 ATP-binding site [chemical binding]; other site 96563008324 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 96563008325 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 96563008326 ATP-dependent DNA ligase; Validated; Region: PRK09247 96563008327 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 96563008328 active site 96563008329 DNA binding site [nucleotide binding] 96563008330 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 96563008331 DNA binding site [nucleotide binding] 96563008332 DEAD/DEAH box helicase; Region: DEAD; pfam00270 96563008333 putative Mg++ binding site [ion binding]; other site 96563008334 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 96563008335 nucleotide binding region [chemical binding]; other site 96563008336 ATP-binding site [chemical binding]; other site 96563008337 DEAD/H associated; Region: DEAD_assoc; pfam08494 96563008338 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 96563008339 putative active site [active] 96563008340 putative metal binding site [ion binding]; other site 96563008341 Erythromycin esterase; Region: Erythro_esteras; pfam05139 96563008342 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 96563008343 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 96563008344 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 96563008345 homodimer interface [polypeptide binding]; other site 96563008346 metal binding site [ion binding]; metal-binding site 96563008347 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 96563008348 homodimer interface [polypeptide binding]; other site 96563008349 active site 96563008350 putative chemical substrate binding site [chemical binding]; other site 96563008351 metal binding site [ion binding]; metal-binding site 96563008352 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 96563008353 TRAM domain; Region: TRAM; pfam01938 96563008354 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 96563008355 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 96563008356 S-adenosylmethionine binding site [chemical binding]; other site 96563008357 cysteine synthase B; Region: cysM; TIGR01138 96563008358 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 96563008359 dimer interface [polypeptide binding]; other site 96563008360 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563008361 catalytic residue [active] 96563008362 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 96563008363 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563008364 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 96563008365 putative dimerization interface [polypeptide binding]; other site 96563008366 Predicted membrane protein [Function unknown]; Region: COG2860 96563008367 UPF0126 domain; Region: UPF0126; pfam03458 96563008368 UPF0126 domain; Region: UPF0126; pfam03458 96563008369 Uncharacterized conserved protein [Function unknown]; Region: COG4121 96563008370 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 96563008371 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 96563008372 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 96563008373 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 96563008374 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563008375 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563008376 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 96563008377 dimerization interface [polypeptide binding]; other site 96563008378 helicase 45; Provisional; Region: PTZ00424 96563008379 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 96563008380 ATP binding site [chemical binding]; other site 96563008381 Mg++ binding site [ion binding]; other site 96563008382 motif III; other site 96563008383 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 96563008384 nucleotide binding region [chemical binding]; other site 96563008385 ATP-binding site [chemical binding]; other site 96563008386 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 96563008387 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563008388 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563008389 LysR substrate binding domain; Region: LysR_substrate; pfam03466 96563008390 dimerization interface [polypeptide binding]; other site 96563008391 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 96563008392 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 96563008393 substrate binding site [chemical binding]; other site 96563008394 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 96563008395 dinuclear metal binding motif [ion binding]; other site 96563008396 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 96563008397 Protein of unknown function, DUF482; Region: DUF482; pfam04339 96563008398 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 96563008399 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 96563008400 eyelet of channel; other site 96563008401 trimer interface [polypeptide binding]; other site 96563008402 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 96563008403 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 96563008404 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 96563008405 putative ATP binding site [chemical binding]; other site 96563008406 putative substrate interface [chemical binding]; other site 96563008407 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 96563008408 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 96563008409 metal binding site [ion binding]; metal-binding site 96563008410 dimer interface [polypeptide binding]; other site 96563008411 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 96563008412 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 96563008413 S-adenosylmethionine binding site [chemical binding]; other site 96563008414 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 96563008415 DNA-binding site [nucleotide binding]; DNA binding site 96563008416 RNA-binding motif; other site 96563008417 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 96563008418 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 96563008419 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 96563008420 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 96563008421 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 96563008422 Walker A/P-loop; other site 96563008423 ATP binding site [chemical binding]; other site 96563008424 Q-loop/lid; other site 96563008425 ABC transporter signature motif; other site 96563008426 Walker B; other site 96563008427 D-loop; other site 96563008428 H-loop/switch region; other site 96563008429 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96563008430 Coenzyme A binding pocket [chemical binding]; other site 96563008431 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 96563008432 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 96563008433 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 96563008434 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 96563008435 S-adenosylmethionine binding site [chemical binding]; other site 96563008436 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 96563008437 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 96563008438 putative acyl-acceptor binding pocket; other site 96563008439 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 96563008440 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96563008441 Coenzyme A binding pocket [chemical binding]; other site 96563008442 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 96563008443 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 96563008444 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 96563008445 dimerization domain [polypeptide binding]; other site 96563008446 dimer interface [polypeptide binding]; other site 96563008447 catalytic residues [active] 96563008448 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 96563008449 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 96563008450 catalytic residues [active] 96563008451 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 96563008452 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 96563008453 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 96563008454 DsbD alpha interface [polypeptide binding]; other site 96563008455 catalytic residues [active] 96563008456 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 96563008457 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563008458 active site 96563008459 phosphorylation site [posttranslational modification] 96563008460 intermolecular recognition site; other site 96563008461 dimerization interface [polypeptide binding]; other site 96563008462 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 96563008463 DNA binding site [nucleotide binding] 96563008464 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 96563008465 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 96563008466 dimer interface [polypeptide binding]; other site 96563008467 phosphorylation site [posttranslational modification] 96563008468 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 96563008469 ATP binding site [chemical binding]; other site 96563008470 Mg2+ binding site [ion binding]; other site 96563008471 G-X-G motif; other site 96563008472 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 96563008473 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 96563008474 dimerization interface [polypeptide binding]; other site 96563008475 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 96563008476 dimer interface [polypeptide binding]; other site 96563008477 phosphorylation site [posttranslational modification] 96563008478 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 96563008479 ATP binding site [chemical binding]; other site 96563008480 G-X-G motif; other site 96563008481 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 96563008482 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563008483 active site 96563008484 phosphorylation site [posttranslational modification] 96563008485 intermolecular recognition site; other site 96563008486 dimerization interface [polypeptide binding]; other site 96563008487 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 96563008488 DNA binding site [nucleotide binding] 96563008489 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 96563008490 metal-binding site [ion binding] 96563008491 Predicted metal-binding protein [General function prediction only]; Region: COG3019 96563008492 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 96563008493 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 96563008494 Multicopper oxidase; Region: Cu-oxidase; pfam00394 96563008495 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 96563008496 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 96563008497 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 96563008498 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 96563008499 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 96563008500 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96563008501 Coenzyme A binding pocket [chemical binding]; other site 96563008502 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 96563008503 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 96563008504 Pirin-related protein [General function prediction only]; Region: COG1741 96563008505 Pirin; Region: Pirin; pfam02678 96563008506 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 96563008507 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 96563008508 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 96563008509 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 96563008510 Ligand binding site; other site 96563008511 DXD motif; other site 96563008512 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 96563008513 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 96563008514 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 96563008515 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 96563008516 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 96563008517 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 96563008518 LrgB-like family; Region: LrgB; pfam04172 96563008519 LrgA family; Region: LrgA; pfam03788 96563008520 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 96563008521 4Fe-4S binding domain; Region: Fer4_5; pfam12801 96563008522 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 96563008523 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 96563008524 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 96563008525 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 96563008526 DNA-binding site [nucleotide binding]; DNA binding site 96563008527 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 96563008528 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563008529 homodimer interface [polypeptide binding]; other site 96563008530 catalytic residue [active] 96563008531 PAS domain S-box; Region: sensory_box; TIGR00229 96563008532 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 96563008533 putative active site [active] 96563008534 heme pocket [chemical binding]; other site 96563008535 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 96563008536 GAF domain; Region: GAF; pfam01590 96563008537 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563008538 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563008539 metal binding site [ion binding]; metal-binding site 96563008540 active site 96563008541 I-site; other site 96563008542 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 96563008543 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 96563008544 putative C-terminal domain interface [polypeptide binding]; other site 96563008545 putative GSH binding site (G-site) [chemical binding]; other site 96563008546 putative dimer interface [polypeptide binding]; other site 96563008547 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 96563008548 N-terminal domain interface [polypeptide binding]; other site 96563008549 dimer interface [polypeptide binding]; other site 96563008550 substrate binding pocket (H-site) [chemical binding]; other site 96563008551 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96563008552 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96563008553 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 96563008554 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 96563008555 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 96563008556 HlyD family secretion protein; Region: HlyD_3; pfam13437 96563008557 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96563008558 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96563008559 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 96563008560 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 96563008561 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 96563008562 Protein of unknown function DUF72; Region: DUF72; cl00777 96563008563 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 96563008564 Glycoprotease family; Region: Peptidase_M22; pfam00814 96563008565 adenylate kinase; Reviewed; Region: adk; PRK00279 96563008566 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 96563008567 AMP-binding site [chemical binding]; other site 96563008568 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 96563008569 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 96563008570 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 96563008571 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 96563008572 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 96563008573 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 96563008574 ligand binding site [chemical binding]; other site 96563008575 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 96563008576 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 96563008577 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 96563008578 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 96563008579 dimer interface [polypeptide binding]; other site 96563008580 putative anticodon binding site; other site 96563008581 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 96563008582 motif 1; other site 96563008583 active site 96563008584 motif 2; other site 96563008585 motif 3; other site 96563008586 peptide chain release factor 2; Validated; Region: prfB; PRK00578 96563008587 This domain is found in peptide chain release factors; Region: PCRF; smart00937 96563008588 RF-1 domain; Region: RF-1; pfam00472 96563008589 Protein of unknown function (DUF533); Region: DUF533; pfam04391 96563008590 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 96563008591 putative metal binding site [ion binding]; other site 96563008592 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 96563008593 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 96563008594 active site 96563008595 FMN binding site [chemical binding]; other site 96563008596 substrate binding site [chemical binding]; other site 96563008597 homotetramer interface [polypeptide binding]; other site 96563008598 catalytic residue [active] 96563008599 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 96563008600 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 96563008601 putative [Fe4-S4] binding site [ion binding]; other site 96563008602 putative molybdopterin cofactor binding site [chemical binding]; other site 96563008603 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 96563008604 putative molybdopterin cofactor binding site; other site 96563008605 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 96563008606 DHH family; Region: DHH; pfam01368 96563008607 DHHA1 domain; Region: DHHA1; pfam02272 96563008608 MarR family; Region: MarR_2; cl17246 96563008609 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 96563008610 putative active site [active] 96563008611 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 96563008612 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 96563008613 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 96563008614 hypothetical protein; Provisional; Region: PRK05463 96563008615 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 96563008616 YaeQ protein; Region: YaeQ; pfam07152 96563008617 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563008618 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563008619 metal binding site [ion binding]; metal-binding site 96563008620 active site 96563008621 I-site; other site 96563008622 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 96563008623 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 96563008624 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 96563008625 heme binding site [chemical binding]; other site 96563008626 ferroxidase pore; other site 96563008627 ferroxidase diiron center [ion binding]; other site 96563008628 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 96563008629 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 96563008630 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 96563008631 recombination associated protein; Reviewed; Region: rdgC; PRK00321 96563008632 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 96563008633 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 96563008634 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 96563008635 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 96563008636 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 96563008637 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 96563008638 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 96563008639 Na binding site [ion binding]; other site 96563008640 PAS domain; Region: PAS; smart00091 96563008641 PAS fold; Region: PAS_7; pfam12860 96563008642 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96563008643 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 96563008644 dimer interface [polypeptide binding]; other site 96563008645 phosphorylation site [posttranslational modification] 96563008646 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 96563008647 ATP binding site [chemical binding]; other site 96563008648 Mg2+ binding site [ion binding]; other site 96563008649 G-X-G motif; other site 96563008650 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96563008651 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563008652 active site 96563008653 phosphorylation site [posttranslational modification] 96563008654 intermolecular recognition site; other site 96563008655 dimerization interface [polypeptide binding]; other site 96563008656 Predicted membrane protein [Function unknown]; Region: COG3174 96563008657 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 96563008658 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 96563008659 RmuC family; Region: RmuC; pfam02646 96563008660 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 96563008661 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 96563008662 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 96563008663 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 96563008664 DNA polymerase II; Reviewed; Region: PRK05762 96563008665 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 96563008666 active site 96563008667 catalytic site [active] 96563008668 substrate binding site [chemical binding]; other site 96563008669 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 96563008670 active site 96563008671 metal-binding site 96563008672 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 96563008673 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 96563008674 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 96563008675 TIGR02687 family protein; Region: TIGR02687 96563008676 PglZ domain; Region: PglZ; pfam08665 96563008677 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 96563008678 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 96563008679 active site 96563008680 B12 binding domain; Region: B12-binding; pfam02310 96563008681 B12 binding site [chemical binding]; other site 96563008682 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 96563008683 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 96563008684 FeS/SAM binding site; other site 96563008685 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 96563008686 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 96563008687 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 96563008688 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 96563008689 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 96563008690 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 96563008691 DNA-binding site [nucleotide binding]; DNA binding site 96563008692 RNA-binding motif; other site 96563008693 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 96563008694 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 96563008695 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 96563008696 putative active site [active] 96563008697 putative NTP binding site [chemical binding]; other site 96563008698 putative nucleic acid binding site [nucleotide binding]; other site 96563008699 Methyltransferase domain; Region: Methyltransf_26; pfam13659 96563008700 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 96563008701 Fic/DOC family; Region: Fic; pfam02661 96563008702 Fic family protein [Function unknown]; Region: COG3177 96563008703 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 96563008704 transposase/IS protein; Provisional; Region: PRK09183 96563008705 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 96563008706 Walker A motif; other site 96563008707 ATP binding site [chemical binding]; other site 96563008708 Walker B motif; other site 96563008709 arginine finger; other site 96563008710 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563008711 Integrase core domain; Region: rve; pfam00665 96563008712 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 96563008713 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 96563008714 active site 96563008715 DNA binding site [nucleotide binding] 96563008716 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 96563008717 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 96563008718 Catalytic site [active] 96563008719 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 96563008720 Transposase domain (DUF772); Region: DUF772; pfam05598 96563008721 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 96563008722 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 96563008723 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 96563008724 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 96563008725 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 96563008726 putative active site [active] 96563008727 catalytic triad [active] 96563008728 putative dimer interface [polypeptide binding]; other site 96563008729 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 96563008730 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 96563008731 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 96563008732 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 96563008733 DNA binding residues [nucleotide binding] 96563008734 dimer interface [polypeptide binding]; other site 96563008735 putative metal binding site [ion binding]; other site 96563008736 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 96563008737 DNA binding site [nucleotide binding] 96563008738 active site 96563008739 Int/Topo IB signature motif; other site 96563008740 Homeodomain-like domain; Region: HTH_32; pfam13565 96563008741 Integrase core domain; Region: rve; pfam00665 96563008742 Integrase core domain; Region: rve_3; pfam13683 96563008743 AAA domain; Region: AAA_25; pfam13481 96563008744 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 96563008745 Walker A motif; other site 96563008746 ATP binding site [chemical binding]; other site 96563008747 Walker B motif; other site 96563008748 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 96563008749 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 96563008750 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 96563008751 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 96563008752 active site 96563008753 DNA binding site [nucleotide binding] 96563008754 Int/Topo IB signature motif; other site 96563008755 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 96563008756 ATP binding site [chemical binding]; other site 96563008757 active site 96563008758 substrate binding site [chemical binding]; other site 96563008759 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 96563008760 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 96563008761 dihydrodipicolinate synthase; Region: dapA; TIGR00674 96563008762 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 96563008763 dimer interface [polypeptide binding]; other site 96563008764 active site 96563008765 catalytic residue [active] 96563008766 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 96563008767 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 96563008768 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 96563008769 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 96563008770 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 96563008771 catalytic triad [active] 96563008772 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 96563008773 Domain of unknown function DUF20; Region: UPF0118; pfam01594 96563008774 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 96563008775 CPxP motif; other site 96563008776 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 96563008777 Peptidase family M48; Region: Peptidase_M48; cl12018 96563008778 quinolinate synthetase; Provisional; Region: PRK09375 96563008779 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 96563008780 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 96563008781 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 96563008782 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 96563008783 Ligand Binding Site [chemical binding]; other site 96563008784 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 96563008785 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 96563008786 FeS/SAM binding site; other site 96563008787 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 96563008788 Tetratricopeptide repeat; Region: TPR_6; pfam13174 96563008789 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 96563008790 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 96563008791 ligand binding site [chemical binding]; other site 96563008792 translocation protein TolB; Provisional; Region: tolB; PRK00178 96563008793 TolB amino-terminal domain; Region: TolB_N; pfam04052 96563008794 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 96563008795 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 96563008796 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 96563008797 TolA protein; Region: tolA_full; TIGR02794 96563008798 TolA protein; Region: tolA_full; TIGR02794 96563008799 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 96563008800 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 96563008801 TolR protein; Region: tolR; TIGR02801 96563008802 TolQ protein; Region: tolQ; TIGR02796 96563008803 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 96563008804 active site 96563008805 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 96563008806 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 96563008807 Walker A motif; other site 96563008808 ATP binding site [chemical binding]; other site 96563008809 Walker B motif; other site 96563008810 arginine finger; other site 96563008811 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 96563008812 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 96563008813 RuvA N terminal domain; Region: RuvA_N; pfam01330 96563008814 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 96563008815 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 96563008816 active site 96563008817 putative DNA-binding cleft [nucleotide binding]; other site 96563008818 dimer interface [polypeptide binding]; other site 96563008819 hypothetical protein; Validated; Region: PRK00110 96563008820 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 96563008821 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 96563008822 dimer interface [polypeptide binding]; other site 96563008823 anticodon binding site; other site 96563008824 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 96563008825 homodimer interface [polypeptide binding]; other site 96563008826 motif 1; other site 96563008827 active site 96563008828 motif 2; other site 96563008829 GAD domain; Region: GAD; pfam02938 96563008830 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 96563008831 active site 96563008832 motif 3; other site 96563008833 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 96563008834 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 96563008835 dimerization interface [polypeptide binding]; other site 96563008836 DPS ferroxidase diiron center [ion binding]; other site 96563008837 ion pore; other site 96563008838 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 96563008839 DNA-binding site [nucleotide binding]; DNA binding site 96563008840 RNA-binding motif; other site 96563008841 hypothetical protein; Provisional; Region: PRK00295 96563008842 HIT domain; Region: HIT; pfam01230 96563008843 nucleotide binding site/active site [active] 96563008844 HIT family signature motif; other site 96563008845 catalytic residue [active] 96563008846 outer membrane porin, OprD family; Region: OprD; pfam03573 96563008847 prolyl-tRNA synthetase; Provisional; Region: PRK09194 96563008848 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 96563008849 dimer interface [polypeptide binding]; other site 96563008850 motif 1; other site 96563008851 active site 96563008852 motif 2; other site 96563008853 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 96563008854 putative deacylase active site [active] 96563008855 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 96563008856 active site 96563008857 motif 3; other site 96563008858 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 96563008859 anticodon binding site; other site 96563008860 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 96563008861 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 96563008862 N-acetyl-D-glucosamine binding site [chemical binding]; other site 96563008863 catalytic residue [active] 96563008864 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 96563008865 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 96563008866 catalytic residues [active] 96563008867 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 96563008868 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 96563008869 ArsC family; Region: ArsC; pfam03960 96563008870 catalytic residues [active] 96563008871 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 96563008872 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 96563008873 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 96563008874 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 96563008875 DNA replication initiation factor; Validated; Region: PRK05642 96563008876 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 96563008877 Domain of unknown function DUF20; Region: UPF0118; pfam01594 96563008878 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3249 96563008879 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 96563008880 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 96563008881 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 96563008882 dimerization interface [polypeptide binding]; other site 96563008883 putative ATP binding site [chemical binding]; other site 96563008884 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 96563008885 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 96563008886 active site 96563008887 substrate binding site [chemical binding]; other site 96563008888 cosubstrate binding site; other site 96563008889 catalytic site [active] 96563008890 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 96563008891 Predicted membrane protein [Function unknown]; Region: COG3650 96563008892 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 96563008893 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 96563008894 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563008895 homodimer interface [polypeptide binding]; other site 96563008896 catalytic residue [active] 96563008897 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 96563008898 catalytic residues [active] 96563008899 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 96563008900 ArsC family; Region: ArsC; pfam03960 96563008901 putative catalytic residues [active] 96563008902 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 96563008903 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 96563008904 putative trimer interface [polypeptide binding]; other site 96563008905 putative CoA binding site [chemical binding]; other site 96563008906 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 96563008907 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 96563008908 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 96563008909 catalytic residue [active] 96563008910 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 96563008911 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 96563008912 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 96563008913 dimer interface [polypeptide binding]; other site 96563008914 active site 96563008915 CoA binding pocket [chemical binding]; other site 96563008916 Cytochrome c [Energy production and conversion]; Region: COG3258 96563008917 Cytochrome c; Region: Cytochrom_C; pfam00034 96563008918 Cytochrome c; Region: Cytochrom_C; cl11414 96563008919 Cytochrome c; Region: Cytochrom_C; cl11414 96563008920 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 96563008921 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 96563008922 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 96563008923 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 96563008924 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 96563008925 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 96563008926 putative deacylase active site [active] 96563008927 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 96563008928 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 96563008929 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 96563008930 THF binding site; other site 96563008931 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 96563008932 substrate binding site [chemical binding]; other site 96563008933 THF binding site; other site 96563008934 zinc-binding site [ion binding]; other site 96563008935 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 96563008936 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 96563008937 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563008938 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 96563008939 putative dimerization interface [polypeptide binding]; other site 96563008940 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 96563008941 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96563008942 NAD(P) binding site [chemical binding]; other site 96563008943 active site 96563008944 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 96563008945 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 96563008946 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 96563008947 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 96563008948 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 96563008949 DNA binding residues [nucleotide binding] 96563008950 dimerization interface [polypeptide binding]; other site 96563008951 curli assembly protein CsgE; Provisional; Region: PRK10386 96563008952 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 96563008953 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 96563008954 Curlin associated repeat; Region: Curlin_rpt; pfam07012 96563008955 Curlin associated repeat; Region: Curlin_rpt; pfam07012 96563008956 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 96563008957 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 96563008958 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 96563008959 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 96563008960 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96563008961 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 96563008962 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563008963 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563008964 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 96563008965 dimerization interface [polypeptide binding]; other site 96563008966 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 96563008967 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 96563008968 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 96563008969 S-adenosylmethionine binding site [chemical binding]; other site 96563008970 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 96563008971 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 96563008972 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 96563008973 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 96563008974 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 96563008975 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 96563008976 putative NAD(P) binding site [chemical binding]; other site 96563008977 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 96563008978 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 96563008979 Walker A motif; other site 96563008980 ATP binding site [chemical binding]; other site 96563008981 Walker B motif; other site 96563008982 arginine finger; other site 96563008983 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96563008984 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 96563008985 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 96563008986 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 96563008987 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 96563008988 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 96563008989 tetramer interface [polypeptide binding]; other site 96563008990 TPP-binding site [chemical binding]; other site 96563008991 heterodimer interface [polypeptide binding]; other site 96563008992 phosphorylation loop region [posttranslational modification] 96563008993 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 96563008994 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 96563008995 putative NAD(P) binding site [chemical binding]; other site 96563008996 catalytic Zn binding site [ion binding]; other site 96563008997 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 96563008998 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 96563008999 alpha subunit interface [polypeptide binding]; other site 96563009000 TPP binding site [chemical binding]; other site 96563009001 heterodimer interface [polypeptide binding]; other site 96563009002 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 96563009003 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 96563009004 E3 interaction surface; other site 96563009005 lipoyl attachment site [posttranslational modification]; other site 96563009006 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 96563009007 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 96563009008 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 96563009009 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 96563009010 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 96563009011 Trp docking motif [polypeptide binding]; other site 96563009012 cytochrome domain interface [polypeptide binding]; other site 96563009013 active site 96563009014 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 96563009015 TLC ATP/ADP transporter; Region: TLC; cl03940 96563009016 short chain dehydrogenase; Provisional; Region: PRK06197 96563009017 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 96563009018 putative NAD(P) binding site [chemical binding]; other site 96563009019 active site 96563009020 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563009021 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563009022 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 96563009023 putative effector binding pocket; other site 96563009024 putative dimerization interface [polypeptide binding]; other site 96563009025 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 96563009026 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 96563009027 putative C-terminal domain interface [polypeptide binding]; other site 96563009028 putative GSH binding site (G-site) [chemical binding]; other site 96563009029 putative dimer interface [polypeptide binding]; other site 96563009030 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 96563009031 putative N-terminal domain interface [polypeptide binding]; other site 96563009032 putative dimer interface [polypeptide binding]; other site 96563009033 putative substrate binding pocket (H-site) [chemical binding]; other site 96563009034 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 96563009035 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 96563009036 active site 96563009037 metal binding site [ion binding]; metal-binding site 96563009038 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563009039 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563009040 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 96563009041 putative effector binding pocket; other site 96563009042 putative dimerization interface [polypeptide binding]; other site 96563009043 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 96563009044 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 96563009045 Sulfate transporter family; Region: Sulfate_transp; pfam00916 96563009046 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 96563009047 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 96563009048 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 96563009049 Acid Phosphatase; Region: Acid_PPase; cl17256 96563009050 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 96563009051 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 96563009052 putative substrate binding site [chemical binding]; other site 96563009053 active site 96563009054 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 96563009055 PAS domain S-box; Region: sensory_box; TIGR00229 96563009056 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 96563009057 putative active site [active] 96563009058 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 96563009059 dimer interface [polypeptide binding]; other site 96563009060 phosphorylation site [posttranslational modification] 96563009061 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 96563009062 ATP binding site [chemical binding]; other site 96563009063 Mg2+ binding site [ion binding]; other site 96563009064 G-X-G motif; other site 96563009065 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96563009066 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563009067 active site 96563009068 phosphorylation site [posttranslational modification] 96563009069 intermolecular recognition site; other site 96563009070 dimerization interface [polypeptide binding]; other site 96563009071 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 96563009072 C factor cell-cell signaling protein; Provisional; Region: PRK09009 96563009073 NADP binding site [chemical binding]; other site 96563009074 homodimer interface [polypeptide binding]; other site 96563009075 active site 96563009076 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 96563009077 ABC1 family; Region: ABC1; cl17513 96563009078 circadian clock protein KaiC; Reviewed; Region: PRK09302 96563009079 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 96563009080 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 96563009081 Walker A motif; other site 96563009082 Walker A motif; other site 96563009083 ATP binding site [chemical binding]; other site 96563009084 Walker B motif; other site 96563009085 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 96563009086 Walker A motif; other site 96563009087 ATP binding site [chemical binding]; other site 96563009088 Walker B motif; other site 96563009089 KTSC domain; Region: KTSC; pfam13619 96563009090 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 96563009091 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 96563009092 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563009093 Walker A/P-loop; other site 96563009094 ATP binding site [chemical binding]; other site 96563009095 Q-loop/lid; other site 96563009096 ABC transporter signature motif; other site 96563009097 Walker B; other site 96563009098 D-loop; other site 96563009099 H-loop/switch region; other site 96563009100 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 96563009101 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 96563009102 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 96563009103 UDP-galactopyranose mutase; Region: GLF; pfam03275 96563009104 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 96563009105 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96563009106 putative homodimer interface [polypeptide binding]; other site 96563009107 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 96563009108 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 96563009109 NAD binding site [chemical binding]; other site 96563009110 homodimer interface [polypeptide binding]; other site 96563009111 active site 96563009112 substrate binding site [chemical binding]; other site 96563009113 Protein of unknown function (DUF3060); Region: DUF3060; pfam11259 96563009114 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 96563009115 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563009116 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 96563009117 dimerization interface [polypeptide binding]; other site 96563009118 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 96563009119 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 96563009120 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563009121 catalytic residue [active] 96563009122 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 96563009123 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 96563009124 substrate binding site [chemical binding]; other site 96563009125 active site 96563009126 catalytic residues [active] 96563009127 heterodimer interface [polypeptide binding]; other site 96563009128 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 96563009129 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 96563009130 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 96563009131 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 96563009132 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 96563009133 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 96563009134 NMT1/THI5 like; Region: NMT1; pfam09084 96563009135 substrate binding pocket [chemical binding]; other site 96563009136 membrane-bound complex binding site; other site 96563009137 hinge residues; other site 96563009138 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 96563009139 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 96563009140 Walker A/P-loop; other site 96563009141 ATP binding site [chemical binding]; other site 96563009142 Q-loop/lid; other site 96563009143 ABC transporter signature motif; other site 96563009144 Walker B; other site 96563009145 D-loop; other site 96563009146 H-loop/switch region; other site 96563009147 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 96563009148 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563009149 putative PBP binding loops; other site 96563009150 dimer interface [polypeptide binding]; other site 96563009151 ABC-ATPase subunit interface; other site 96563009152 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 96563009153 nucleoside/Zn binding site; other site 96563009154 dimer interface [polypeptide binding]; other site 96563009155 catalytic motif [active] 96563009156 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 96563009157 classical (c) SDRs; Region: SDR_c; cd05233 96563009158 NAD(P) binding site [chemical binding]; other site 96563009159 active site 96563009160 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 96563009161 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 96563009162 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 96563009163 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563009164 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 96563009165 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 96563009166 Walker A/P-loop; other site 96563009167 ATP binding site [chemical binding]; other site 96563009168 Q-loop/lid; other site 96563009169 ABC transporter signature motif; other site 96563009170 Walker B; other site 96563009171 D-loop; other site 96563009172 H-loop/switch region; other site 96563009173 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 96563009174 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 96563009175 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 96563009176 TM-ABC transporter signature motif; other site 96563009177 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 96563009178 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 96563009179 TM-ABC transporter signature motif; other site 96563009180 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 96563009181 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 96563009182 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 96563009183 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 96563009184 DNA topoisomerase III; Provisional; Region: PRK07726 96563009185 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 96563009186 active site 96563009187 putative interdomain interaction site [polypeptide binding]; other site 96563009188 putative metal-binding site [ion binding]; other site 96563009189 putative nucleotide binding site [chemical binding]; other site 96563009190 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 96563009191 domain I; other site 96563009192 DNA binding groove [nucleotide binding] 96563009193 phosphate binding site [ion binding]; other site 96563009194 domain II; other site 96563009195 domain III; other site 96563009196 nucleotide binding site [chemical binding]; other site 96563009197 catalytic site [active] 96563009198 domain IV; other site 96563009199 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 96563009200 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 96563009201 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 96563009202 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 96563009203 transmembrane helices; other site 96563009204 TrkA-C domain; Region: TrkA_C; pfam02080 96563009205 TrkA-C domain; Region: TrkA_C; pfam02080 96563009206 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 96563009207 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 96563009208 Nitrate and nitrite sensing; Region: NIT; pfam08376 96563009209 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 96563009210 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 96563009211 dimerization interface [polypeptide binding]; other site 96563009212 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563009213 dimer interface [polypeptide binding]; other site 96563009214 putative CheW interface [polypeptide binding]; other site 96563009215 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 96563009216 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 96563009217 putative substrate translocation pore; other site 96563009218 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 96563009219 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 96563009220 nucleophilic elbow; other site 96563009221 catalytic triad; other site 96563009222 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 96563009223 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 96563009224 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 96563009225 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 96563009226 dimerization interface [polypeptide binding]; other site 96563009227 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96563009228 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563009229 dimer interface [polypeptide binding]; other site 96563009230 putative CheW interface [polypeptide binding]; other site 96563009231 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 96563009232 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 96563009233 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 96563009234 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563009235 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563009236 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 96563009237 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 96563009238 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 96563009239 dimerization interface [polypeptide binding]; other site 96563009240 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563009241 dimer interface [polypeptide binding]; other site 96563009242 putative CheW interface [polypeptide binding]; other site 96563009243 Protein of unknown function (DUF445); Region: DUF445; pfam04286 96563009244 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563009245 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 96563009246 Walker A/P-loop; other site 96563009247 ATP binding site [chemical binding]; other site 96563009248 Q-loop/lid; other site 96563009249 ABC transporter signature motif; other site 96563009250 Walker B; other site 96563009251 D-loop; other site 96563009252 H-loop/switch region; other site 96563009253 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 96563009254 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563009255 dimer interface [polypeptide binding]; other site 96563009256 conserved gate region; other site 96563009257 putative PBP binding loops; other site 96563009258 ABC-ATPase subunit interface; other site 96563009259 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 96563009260 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 96563009261 membrane-bound complex binding site; other site 96563009262 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 96563009263 HIT family signature motif; other site 96563009264 catalytic residue [active] 96563009265 glutamate carboxypeptidase; Reviewed; Region: PRK06133 96563009266 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 96563009267 metal binding site [ion binding]; metal-binding site 96563009268 dimer interface [polypeptide binding]; other site 96563009269 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 96563009270 MOSC domain; Region: MOSC; pfam03473 96563009271 Predicted periplasmic protein [Function unknown]; Region: COG3904 96563009272 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 96563009273 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 96563009274 dimer interface [polypeptide binding]; other site 96563009275 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 96563009276 Predicted membrane protein [Function unknown]; Region: COG3503 96563009277 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 96563009278 Citrate transporter; Region: CitMHS; pfam03600 96563009279 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 96563009280 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 96563009281 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 96563009282 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 96563009283 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 96563009284 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 96563009285 hypothetical protein; Provisional; Region: PRK11171 96563009286 Cupin domain; Region: Cupin_2; pfam07883 96563009287 Cupin domain; Region: Cupin_2; pfam07883 96563009288 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 96563009289 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 96563009290 S-adenosylmethionine binding site [chemical binding]; other site 96563009291 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 96563009292 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 96563009293 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 96563009294 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 96563009295 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 96563009296 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 96563009297 Protein phosphatase 2C; Region: PP2C; pfam00481 96563009298 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 96563009299 active site 96563009300 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 96563009301 Catalytic domain of Protein Kinases; Region: PKc; cd00180 96563009302 active site 96563009303 ATP binding site [chemical binding]; other site 96563009304 substrate binding site [chemical binding]; other site 96563009305 activation loop (A-loop); other site 96563009306 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 96563009307 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 96563009308 phosphopeptide binding site; other site 96563009309 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 96563009310 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 96563009311 phosphopeptide binding site; other site 96563009312 Predicted permeases [General function prediction only]; Region: RarD; COG2962 96563009313 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 96563009314 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 96563009315 ATP binding site [chemical binding]; other site 96563009316 putative Mg++ binding site [ion binding]; other site 96563009317 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 96563009318 nucleotide binding region [chemical binding]; other site 96563009319 ATP-binding site [chemical binding]; other site 96563009320 Helicase associated domain (HA2); Region: HA2; pfam04408 96563009321 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 96563009322 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 96563009323 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 96563009324 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 96563009325 PA/protease or protease-like domain interface [polypeptide binding]; other site 96563009326 M28 Zn-peptidase Streptomyces griseus Aminopeptidase and similar proteins; Region: M28_SGAP_like; cd03876 96563009327 Peptidase family M28; Region: Peptidase_M28; pfam04389 96563009328 active site 96563009329 metal binding site [ion binding]; metal-binding site 96563009330 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 96563009331 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 96563009332 dimerization interface [polypeptide binding]; other site 96563009333 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96563009334 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563009335 dimer interface [polypeptide binding]; other site 96563009336 putative CheW interface [polypeptide binding]; other site 96563009337 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 96563009338 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 96563009339 acyl-activating enzyme (AAE) consensus motif; other site 96563009340 putative AMP binding site [chemical binding]; other site 96563009341 putative active site [active] 96563009342 putative CoA binding site [chemical binding]; other site 96563009343 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 96563009344 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 96563009345 acyl-activating enzyme (AAE) consensus motif; other site 96563009346 putative AMP binding site [chemical binding]; other site 96563009347 putative active site [active] 96563009348 putative CoA binding site [chemical binding]; other site 96563009349 (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 96563009350 dimer interaction site [polypeptide binding]; other site 96563009351 substrate-binding tunnel; other site 96563009352 active site 96563009353 catalytic site [active] 96563009354 substrate binding site [chemical binding]; other site 96563009355 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 96563009356 carbohydrate binding site [chemical binding]; other site 96563009357 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 96563009358 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 96563009359 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 96563009360 Ca binding site [ion binding]; other site 96563009361 active site 96563009362 catalytic site [active] 96563009363 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 96563009364 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 96563009365 ATP-dependent helicase HepA; Validated; Region: PRK04914 96563009366 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 96563009367 ATP binding site [chemical binding]; other site 96563009368 putative Mg++ binding site [ion binding]; other site 96563009369 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 96563009370 nucleotide binding region [chemical binding]; other site 96563009371 ATP-binding site [chemical binding]; other site 96563009372 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 96563009373 putative chaperone; Provisional; Region: PRK11678 96563009374 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 96563009375 nucleotide binding site [chemical binding]; other site 96563009376 putative NEF/HSP70 interaction site [polypeptide binding]; other site 96563009377 SBD interface [polypeptide binding]; other site 96563009378 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 96563009379 Transposase; Region: DDE_Tnp_ISL3; pfam01610 96563009380 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 96563009381 putative substrate translocation pore; other site 96563009382 Major Facilitator Superfamily; Region: MFS_1; pfam07690 96563009383 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 96563009384 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 96563009385 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 96563009386 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 96563009387 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 96563009388 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 96563009389 substrate binding pocket [chemical binding]; other site 96563009390 membrane-bound complex binding site; other site 96563009391 hinge residues; other site 96563009392 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 96563009393 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563009394 Walker A/P-loop; other site 96563009395 ATP binding site [chemical binding]; other site 96563009396 Q-loop/lid; other site 96563009397 ABC transporter signature motif; other site 96563009398 Walker B; other site 96563009399 D-loop; other site 96563009400 H-loop/switch region; other site 96563009401 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 96563009402 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563009403 dimer interface [polypeptide binding]; other site 96563009404 conserved gate region; other site 96563009405 putative PBP binding loops; other site 96563009406 ABC-ATPase subunit interface; other site 96563009407 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 96563009408 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 96563009409 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 96563009410 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 96563009411 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 96563009412 dimerization interface [polypeptide binding]; other site 96563009413 ligand binding site [chemical binding]; other site 96563009414 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 96563009415 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 96563009416 TM-ABC transporter signature motif; other site 96563009417 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 96563009418 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 96563009419 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 96563009420 TM-ABC transporter signature motif; other site 96563009421 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 96563009422 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 96563009423 Walker A/P-loop; other site 96563009424 ATP binding site [chemical binding]; other site 96563009425 Q-loop/lid; other site 96563009426 ABC transporter signature motif; other site 96563009427 Walker B; other site 96563009428 D-loop; other site 96563009429 H-loop/switch region; other site 96563009430 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 96563009431 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 96563009432 Walker A/P-loop; other site 96563009433 ATP binding site [chemical binding]; other site 96563009434 Q-loop/lid; other site 96563009435 ABC transporter signature motif; other site 96563009436 Walker B; other site 96563009437 D-loop; other site 96563009438 H-loop/switch region; other site 96563009439 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 96563009440 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 96563009441 META domain; Region: META; pfam03724 96563009442 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 96563009443 active site 96563009444 DNA polymerase IV; Validated; Region: PRK02406 96563009445 DNA binding site [nucleotide binding] 96563009446 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 96563009447 active site 96563009448 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 96563009449 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 96563009450 HIGH motif; other site 96563009451 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 96563009452 active site 96563009453 KMSKS motif; other site 96563009454 excinuclease ABC subunit B; Provisional; Region: PRK05298 96563009455 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 96563009456 ATP binding site [chemical binding]; other site 96563009457 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 96563009458 nucleotide binding region [chemical binding]; other site 96563009459 ATP-binding site [chemical binding]; other site 96563009460 Ultra-violet resistance protein B; Region: UvrB; pfam12344 96563009461 UvrB/uvrC motif; Region: UVR; pfam02151 96563009462 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 96563009463 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 96563009464 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563009465 homodimer interface [polypeptide binding]; other site 96563009466 catalytic residue [active] 96563009467 VanZ like family; Region: VanZ; cl01971 96563009468 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 96563009469 putative GSH binding site [chemical binding]; other site 96563009470 catalytic residues [active] 96563009471 ornithine carbamoyltransferase; Provisional; Region: PRK00779 96563009472 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 96563009473 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 96563009474 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 96563009475 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 96563009476 Walker A/P-loop; other site 96563009477 ATP binding site [chemical binding]; other site 96563009478 Q-loop/lid; other site 96563009479 ABC transporter signature motif; other site 96563009480 Walker B; other site 96563009481 D-loop; other site 96563009482 H-loop/switch region; other site 96563009483 TOBE domain; Region: TOBE_2; pfam08402 96563009484 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 96563009485 nucleoside/Zn binding site; other site 96563009486 dimer interface [polypeptide binding]; other site 96563009487 catalytic motif [active] 96563009488 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 96563009489 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 96563009490 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 96563009491 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 96563009492 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563009493 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 96563009494 dimerization interface [polypeptide binding]; other site 96563009495 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 96563009496 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 96563009497 substrate binding pocket [chemical binding]; other site 96563009498 membrane-bound complex binding site; other site 96563009499 hinge residues; other site 96563009500 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563009501 dimer interface [polypeptide binding]; other site 96563009502 conserved gate region; other site 96563009503 putative PBP binding loops; other site 96563009504 ABC-ATPase subunit interface; other site 96563009505 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 96563009506 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563009507 dimer interface [polypeptide binding]; other site 96563009508 conserved gate region; other site 96563009509 putative PBP binding loops; other site 96563009510 ABC-ATPase subunit interface; other site 96563009511 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 96563009512 argininosuccinate lyase; Provisional; Region: PRK00855 96563009513 active sites [active] 96563009514 tetramer interface [polypeptide binding]; other site 96563009515 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 96563009516 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 96563009517 Walker A/P-loop; other site 96563009518 ATP binding site [chemical binding]; other site 96563009519 Q-loop/lid; other site 96563009520 ABC transporter signature motif; other site 96563009521 Walker B; other site 96563009522 D-loop; other site 96563009523 H-loop/switch region; other site 96563009524 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 96563009525 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563009526 Walker A/P-loop; other site 96563009527 ATP binding site [chemical binding]; other site 96563009528 Q-loop/lid; other site 96563009529 ABC transporter signature motif; other site 96563009530 Walker B; other site 96563009531 D-loop; other site 96563009532 H-loop/switch region; other site 96563009533 GMP synthase; Reviewed; Region: guaA; PRK00074 96563009534 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 96563009535 AMP/PPi binding site [chemical binding]; other site 96563009536 candidate oxyanion hole; other site 96563009537 catalytic triad [active] 96563009538 potential glutamine specificity residues [chemical binding]; other site 96563009539 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 96563009540 ATP Binding subdomain [chemical binding]; other site 96563009541 Ligand Binding sites [chemical binding]; other site 96563009542 Dimerization subdomain; other site 96563009543 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 96563009544 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 96563009545 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 96563009546 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 96563009547 active site 96563009548 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 96563009549 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 96563009550 generic binding surface II; other site 96563009551 generic binding surface I; other site 96563009552 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 96563009553 Peptidase family M23; Region: Peptidase_M23; pfam01551 96563009554 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 96563009555 Isochorismatase family; Region: Isochorismatase; pfam00857 96563009556 catalytic triad [active] 96563009557 dimer interface [polypeptide binding]; other site 96563009558 conserved cis-peptide bond; other site 96563009559 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 96563009560 Mechanosensitive ion channel; Region: MS_channel; pfam00924 96563009561 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 96563009562 N-terminal plug; other site 96563009563 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 96563009564 ligand-binding site [chemical binding]; other site 96563009565 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 96563009566 2-isopropylmalate synthase; Validated; Region: PRK03739 96563009567 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 96563009568 active site 96563009569 catalytic residues [active] 96563009570 metal binding site [ion binding]; metal-binding site 96563009571 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 96563009572 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 96563009573 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 96563009574 putative NAD(P) binding site [chemical binding]; other site 96563009575 putative substrate binding site [chemical binding]; other site 96563009576 catalytic Zn binding site [ion binding]; other site 96563009577 structural Zn binding site [ion binding]; other site 96563009578 dimer interface [polypeptide binding]; other site 96563009579 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 96563009580 EamA-like transporter family; Region: EamA; pfam00892 96563009581 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 96563009582 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 96563009583 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 96563009584 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 96563009585 S-adenosylmethionine binding site [chemical binding]; other site 96563009586 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 96563009587 C-N hydrolase family amidase; Provisional; Region: PRK10438 96563009588 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 96563009589 putative active site [active] 96563009590 catalytic triad [active] 96563009591 dimer interface [polypeptide binding]; other site 96563009592 multimer interface [polypeptide binding]; other site 96563009593 methionine aminotransferase; Validated; Region: PRK09082 96563009594 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 96563009595 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563009596 homodimer interface [polypeptide binding]; other site 96563009597 catalytic residue [active] 96563009598 serine acetyltransferase; Provisional; Region: cysE; PRK11132 96563009599 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 96563009600 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 96563009601 trimer interface [polypeptide binding]; other site 96563009602 active site 96563009603 substrate binding site [chemical binding]; other site 96563009604 CoA binding site [chemical binding]; other site 96563009605 GTP-binding protein Der; Reviewed; Region: PRK00093 96563009606 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 96563009607 G1 box; other site 96563009608 GTP/Mg2+ binding site [chemical binding]; other site 96563009609 Switch I region; other site 96563009610 G2 box; other site 96563009611 Switch II region; other site 96563009612 G3 box; other site 96563009613 G4 box; other site 96563009614 G5 box; other site 96563009615 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 96563009616 G1 box; other site 96563009617 GTP/Mg2+ binding site [chemical binding]; other site 96563009618 Switch I region; other site 96563009619 G2 box; other site 96563009620 G3 box; other site 96563009621 Switch II region; other site 96563009622 G4 box; other site 96563009623 G5 box; other site 96563009624 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 96563009625 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 96563009626 Trp docking motif [polypeptide binding]; other site 96563009627 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 96563009628 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 96563009629 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 96563009630 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 96563009631 dimer interface [polypeptide binding]; other site 96563009632 motif 1; other site 96563009633 active site 96563009634 motif 2; other site 96563009635 motif 3; other site 96563009636 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 96563009637 anticodon binding site; other site 96563009638 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 96563009639 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 96563009640 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 96563009641 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 96563009642 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 96563009643 non-specific DNA binding site [nucleotide binding]; other site 96563009644 salt bridge; other site 96563009645 sequence-specific DNA binding site [nucleotide binding]; other site 96563009646 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 96563009647 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 96563009648 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 96563009649 binding surface 96563009650 TPR motif; other site 96563009651 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 96563009652 binding surface 96563009653 TPR motif; other site 96563009654 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 96563009655 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 96563009656 FeS/SAM binding site; other site 96563009657 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 96563009658 active site 96563009659 multimer interface [polypeptide binding]; other site 96563009660 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 96563009661 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 96563009662 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 96563009663 catalytic loop [active] 96563009664 iron binding site [ion binding]; other site 96563009665 Fe-S protein assembly chaperone HscA; Region: HscA; TIGR01991 96563009666 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 96563009667 putative NEF/HSP70 interaction site [polypeptide binding]; other site 96563009668 nucleotide binding site [chemical binding]; other site 96563009669 SBD interface [polypeptide binding]; other site 96563009670 co-chaperone HscB; Provisional; Region: hscB; PRK00294 96563009671 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 96563009672 HSP70 interaction site [polypeptide binding]; other site 96563009673 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 96563009674 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 96563009675 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 96563009676 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 96563009677 trimerization site [polypeptide binding]; other site 96563009678 active site 96563009679 cysteine desulfurase; Provisional; Region: PRK14012 96563009680 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 96563009681 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 96563009682 catalytic residue [active] 96563009683 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 96563009684 Rrf2 family protein; Region: rrf2_super; TIGR00738 96563009685 serine O-acetyltransferase; Region: cysE; TIGR01172 96563009686 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 96563009687 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 96563009688 trimer interface [polypeptide binding]; other site 96563009689 active site 96563009690 substrate binding site [chemical binding]; other site 96563009691 CoA binding site [chemical binding]; other site 96563009692 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 96563009693 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 96563009694 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 96563009695 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 96563009696 active site 96563009697 dimerization interface [polypeptide binding]; other site 96563009698 hypothetical protein; Provisional; Region: PRK11280 96563009699 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 96563009700 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 96563009701 Protein export membrane protein; Region: SecD_SecF; pfam02355 96563009702 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 96563009703 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 96563009704 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 96563009705 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 96563009706 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 96563009707 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 96563009708 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 96563009709 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 96563009710 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 96563009711 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 96563009712 DNA-binding site [nucleotide binding]; DNA binding site 96563009713 RNA-binding motif; other site 96563009714 RDD family; Region: RDD; pfam06271 96563009715 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 96563009716 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 96563009717 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 96563009718 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 96563009719 multifunctional aminopeptidase A; Provisional; Region: PRK00913 96563009720 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 96563009721 interface (dimer of trimers) [polypeptide binding]; other site 96563009722 Substrate-binding/catalytic site; other site 96563009723 Zn-binding sites [ion binding]; other site 96563009724 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 96563009725 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 96563009726 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 96563009727 HIGH motif; other site 96563009728 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 96563009729 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 96563009730 active site 96563009731 KMSKS motif; other site 96563009732 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 96563009733 tRNA binding surface [nucleotide binding]; other site 96563009734 anticodon binding site; other site 96563009735 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 96563009736 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 96563009737 NHAD transporter family protein; Provisional; Region: PLN00137 96563009738 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 96563009739 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 96563009740 TrkA-C domain; Region: TrkA_C; pfam02080 96563009741 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 96563009742 TrkA-C domain; Region: TrkA_C; pfam02080 96563009743 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 96563009744 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 96563009745 putative substrate translocation pore; other site 96563009746 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 96563009747 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 96563009748 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 96563009749 S-adenosylmethionine binding site [chemical binding]; other site 96563009750 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 96563009751 putative substrate translocation pore; other site 96563009752 Major Facilitator Superfamily; Region: MFS_1; pfam07690 96563009753 nucleoid-associated protein NdpA; Validated; Region: PRK00378 96563009754 Nucleoid-associated protein [General function prediction only]; Region: COG3081 96563009755 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 96563009756 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 96563009757 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 96563009758 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 96563009759 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 96563009760 C-terminal domain interface [polypeptide binding]; other site 96563009761 GSH binding site (G-site) [chemical binding]; other site 96563009762 dimer interface [polypeptide binding]; other site 96563009763 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 96563009764 N-terminal domain interface [polypeptide binding]; other site 96563009765 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 96563009766 GIY-YIG motif/motif A; other site 96563009767 putative active site [active] 96563009768 putative metal binding site [ion binding]; other site 96563009769 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 96563009770 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 96563009771 substrate binding pocket [chemical binding]; other site 96563009772 membrane-bound complex binding site; other site 96563009773 hinge residues; other site 96563009774 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 96563009775 N-acetyl-D-glucosamine binding site [chemical binding]; other site 96563009776 catalytic residue [active] 96563009777 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 96563009778 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 96563009779 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 96563009780 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 96563009781 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 96563009782 motif II; other site 96563009783 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 96563009784 short chain dehydrogenase; Provisional; Region: PRK06123 96563009785 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 96563009786 NADP binding site [chemical binding]; other site 96563009787 homodimer interface [polypeptide binding]; other site 96563009788 active site 96563009789 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 96563009790 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 96563009791 active site 96563009792 putative substrate binding pocket [chemical binding]; other site 96563009793 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 96563009794 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 96563009795 putative ligand binding site [chemical binding]; other site 96563009796 oxidase reductase; Provisional; Region: PTZ00273 96563009797 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 96563009798 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 96563009799 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 96563009800 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 96563009801 catalytic loop [active] 96563009802 iron binding site [ion binding]; other site 96563009803 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 96563009804 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 96563009805 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 96563009806 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 96563009807 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 96563009808 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 96563009809 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 96563009810 XdhC Rossmann domain; Region: XdhC_C; pfam13478 96563009811 guanine deaminase; Provisional; Region: PRK09228 96563009812 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 96563009813 active site 96563009814 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 96563009815 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 96563009816 metal binding site [ion binding]; metal-binding site 96563009817 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 96563009818 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 96563009819 ABC-ATPase subunit interface; other site 96563009820 dimer interface [polypeptide binding]; other site 96563009821 putative PBP binding regions; other site 96563009822 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 96563009823 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563009824 Walker A/P-loop; other site 96563009825 ATP binding site [chemical binding]; other site 96563009826 Q-loop/lid; other site 96563009827 ABC transporter signature motif; other site 96563009828 Walker B; other site 96563009829 D-loop; other site 96563009830 H-loop/switch region; other site 96563009831 Transcriptional regulators [Transcription]; Region: GntR; COG1802 96563009832 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 96563009833 DNA-binding site [nucleotide binding]; DNA binding site 96563009834 FCD domain; Region: FCD; pfam07729 96563009835 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 96563009836 Sulfate transporter family; Region: Sulfate_transp; pfam00916 96563009837 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 96563009838 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 96563009839 active site 96563009840 homotetramer interface [polypeptide binding]; other site 96563009841 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 96563009842 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 96563009843 active site 96563009844 catalytic site [active] 96563009845 tetramer interface [polypeptide binding]; other site 96563009846 OHCU decarboxylase; Region: UHCUDC; TIGR03164 96563009847 allantoicase; Provisional; Region: PRK13257 96563009848 Allantoicase repeat; Region: Allantoicase; pfam03561 96563009849 Allantoicase repeat; Region: Allantoicase; pfam03561 96563009850 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 96563009851 ureidoglycolate hydrolase; Provisional; Region: PRK03606 96563009852 Predicted membrane protein [Function unknown]; Region: COG3748 96563009853 Protein of unknown function (DUF989); Region: DUF989; pfam06181 96563009854 Cytochrome c; Region: Cytochrom_C; pfam00034 96563009855 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 96563009856 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 96563009857 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 96563009858 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 96563009859 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 96563009860 motif II; other site 96563009861 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 96563009862 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 96563009863 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 96563009864 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96563009865 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 96563009866 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 96563009867 Major Facilitator Superfamily; Region: MFS_1; pfam07690 96563009868 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 96563009869 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 96563009870 HlyD family secretion protein; Region: HlyD_3; pfam13437 96563009871 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 96563009872 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 96563009873 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 96563009874 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 96563009875 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 96563009876 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 96563009877 putative catalytic site [active] 96563009878 putative phosphate binding site [ion binding]; other site 96563009879 active site 96563009880 metal binding site A [ion binding]; metal-binding site 96563009881 DNA binding site [nucleotide binding] 96563009882 putative AP binding site [nucleotide binding]; other site 96563009883 putative metal binding site B [ion binding]; other site 96563009884 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 96563009885 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 96563009886 dimer interface [polypeptide binding]; other site 96563009887 phosphorylation site [posttranslational modification] 96563009888 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 96563009889 ATP binding site [chemical binding]; other site 96563009890 G-X-G motif; other site 96563009891 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 96563009892 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563009893 active site 96563009894 phosphorylation site [posttranslational modification] 96563009895 intermolecular recognition site; other site 96563009896 dimerization interface [polypeptide binding]; other site 96563009897 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 96563009898 DNA binding site [nucleotide binding] 96563009899 Domain of unknown function (DUF336); Region: DUF336; pfam03928 96563009900 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 96563009901 active site 96563009902 homotetramer interface [polypeptide binding]; other site 96563009903 transcriptional activator TtdR; Provisional; Region: PRK09801 96563009904 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563009905 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 96563009906 putative effector binding pocket; other site 96563009907 dimerization interface [polypeptide binding]; other site 96563009908 glyoxylate carboligase; Provisional; Region: PRK11269 96563009909 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 96563009910 PYR/PP interface [polypeptide binding]; other site 96563009911 dimer interface [polypeptide binding]; other site 96563009912 TPP binding site [chemical binding]; other site 96563009913 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 96563009914 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 96563009915 TPP-binding site [chemical binding]; other site 96563009916 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 96563009917 tartronate semialdehyde reductase; Provisional; Region: PRK15059 96563009918 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 96563009919 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 96563009920 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 96563009921 MOFRL family; Region: MOFRL; pfam05161 96563009922 pyruvate kinase; Provisional; Region: PRK06247 96563009923 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 96563009924 domain interfaces; other site 96563009925 active site 96563009926 Urea transporter; Region: UT; cl01829 96563009927 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 96563009928 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 96563009929 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 96563009930 heme-binding site [chemical binding]; other site 96563009931 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 96563009932 FAD binding pocket [chemical binding]; other site 96563009933 FAD binding motif [chemical binding]; other site 96563009934 phosphate binding motif [ion binding]; other site 96563009935 beta-alpha-beta structure motif; other site 96563009936 NAD binding pocket [chemical binding]; other site 96563009937 Heme binding pocket [chemical binding]; other site 96563009938 General stress protein [General function prediction only]; Region: GsiB; COG3729 96563009939 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 96563009940 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 96563009941 active site 96563009942 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563009943 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563009944 metal binding site [ion binding]; metal-binding site 96563009945 active site 96563009946 I-site; other site 96563009947 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 96563009948 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 96563009949 active site 96563009950 catalytic triad [active] 96563009951 oxyanion hole [active] 96563009952 Autotransporter beta-domain; Region: Autotransporter; smart00869 96563009953 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 96563009954 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 96563009955 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 96563009956 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563009957 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 96563009958 dimerization interface [polypeptide binding]; other site 96563009959 Lysine efflux permease [General function prediction only]; Region: COG1279 96563009960 superoxide dismutase; Provisional; Region: PRK10543 96563009961 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 96563009962 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 96563009963 biofilm formation regulator HmsP; Provisional; Region: PRK11829 96563009964 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563009965 metal binding site [ion binding]; metal-binding site 96563009966 active site 96563009967 I-site; other site 96563009968 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 96563009969 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 96563009970 S-adenosylmethionine binding site [chemical binding]; other site 96563009971 E3 Ubiquitin ligase; Region: GIDE; pfam12483 96563009972 LemA family; Region: LemA; cl00742 96563009973 Imelysin; Region: Peptidase_M75; cl09159 96563009974 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 96563009975 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 96563009976 Imelysin; Region: Peptidase_M75; cl09159 96563009977 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 96563009978 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 96563009979 dimerization interface [polypeptide binding]; other site 96563009980 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96563009981 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563009982 dimer interface [polypeptide binding]; other site 96563009983 putative CheW interface [polypeptide binding]; other site 96563009984 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 96563009985 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 96563009986 HlyD family secretion protein; Region: HlyD_3; pfam13437 96563009987 multidrug efflux protein; Reviewed; Region: PRK09579 96563009988 Protein export membrane protein; Region: SecD_SecF; cl14618 96563009989 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 96563009990 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 96563009991 ring oligomerisation interface [polypeptide binding]; other site 96563009992 ATP/Mg binding site [chemical binding]; other site 96563009993 stacking interactions; other site 96563009994 hinge regions; other site 96563009995 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 96563009996 oligomerisation interface [polypeptide binding]; other site 96563009997 mobile loop; other site 96563009998 roof hairpin; other site 96563009999 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 96563010000 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 96563010001 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 96563010002 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 96563010003 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 96563010004 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96563010005 NAD(P) binding site [chemical binding]; other site 96563010006 active site 96563010007 Protein of unknown function, DUF481; Region: DUF481; pfam04338 96563010008 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 96563010009 DNA binding site [nucleotide binding] 96563010010 active site 96563010011 muropeptide transporter; Validated; Region: ampG; cl17669 96563010012 muropeptide transporter; Validated; Region: ampG; cl17669 96563010013 mechanosensitive channel MscS; Provisional; Region: PRK10334 96563010014 Mechanosensitive ion channel; Region: MS_channel; pfam00924 96563010015 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 96563010016 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 96563010017 Response regulator receiver domain; Region: Response_reg; pfam00072 96563010018 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563010019 active site 96563010020 phosphorylation site [posttranslational modification] 96563010021 intermolecular recognition site; other site 96563010022 dimerization interface [polypeptide binding]; other site 96563010023 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563010024 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563010025 metal binding site [ion binding]; metal-binding site 96563010026 active site 96563010027 I-site; other site 96563010028 2-dehydropantoate 2-reductase; Provisional; Region: PRK05708 96563010029 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 96563010030 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 96563010031 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 96563010032 dimerization interface [polypeptide binding]; other site 96563010033 PAS domain; Region: PAS; smart00091 96563010034 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 96563010035 putative active site [active] 96563010036 heme pocket [chemical binding]; other site 96563010037 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 96563010038 dimer interface [polypeptide binding]; other site 96563010039 phosphorylation site [posttranslational modification] 96563010040 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 96563010041 ATP binding site [chemical binding]; other site 96563010042 Mg2+ binding site [ion binding]; other site 96563010043 G-X-G motif; other site 96563010044 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 96563010045 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 96563010046 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 96563010047 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 96563010048 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 96563010049 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 96563010050 catalytic residue [active] 96563010051 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 96563010052 catalytic residues [active] 96563010053 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 96563010054 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 96563010055 peroxiredoxin; Region: AhpC; TIGR03137 96563010056 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 96563010057 dimer interface [polypeptide binding]; other site 96563010058 decamer (pentamer of dimers) interface [polypeptide binding]; other site 96563010059 catalytic triad [active] 96563010060 peroxidatic and resolving cysteines [active] 96563010061 hypothetical protein; Provisional; Region: PRK08999 96563010062 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 96563010063 active site 96563010064 8-oxo-dGMP binding site [chemical binding]; other site 96563010065 nudix motif; other site 96563010066 metal binding site [ion binding]; metal-binding site 96563010067 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 96563010068 thiamine phosphate binding site [chemical binding]; other site 96563010069 active site 96563010070 pyrophosphate binding site [ion binding]; other site 96563010071 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 96563010072 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 96563010073 putative C-terminal domain interface [polypeptide binding]; other site 96563010074 putative GSH binding site (G-site) [chemical binding]; other site 96563010075 putative dimer interface [polypeptide binding]; other site 96563010076 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 96563010077 putative N-terminal domain interface [polypeptide binding]; other site 96563010078 putative dimer interface [polypeptide binding]; other site 96563010079 putative substrate binding pocket (H-site) [chemical binding]; other site 96563010080 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 96563010081 heterotetramer interface [polypeptide binding]; other site 96563010082 active site pocket [active] 96563010083 cleavage site 96563010084 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13103 96563010085 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 96563010086 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 96563010087 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 96563010088 nucleotide binding region [chemical binding]; other site 96563010089 ATP-binding site [chemical binding]; other site 96563010090 SEC-C motif; Region: SEC-C; pfam02810 96563010091 Protein of unknown function (DUF721); Region: DUF721; cl02324 96563010092 YebG protein; Region: YebG; pfam07130 96563010093 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 96563010094 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 96563010095 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 96563010096 DNA binding residues [nucleotide binding] 96563010097 dimerization interface [polypeptide binding]; other site 96563010098 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 96563010099 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 96563010100 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 96563010101 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 96563010102 active site 96563010103 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 96563010104 active site 96563010105 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 96563010106 Flagellin N-methylase; Region: FliB; pfam03692 96563010107 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 96563010108 glutamate racemase; Provisional; Region: PRK00865 96563010109 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 96563010110 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 96563010111 ATP binding site [chemical binding]; other site 96563010112 substrate interface [chemical binding]; other site 96563010113 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 96563010114 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 96563010115 peptide chain release factor 1; Validated; Region: prfA; PRK00591 96563010116 This domain is found in peptide chain release factors; Region: PCRF; smart00937 96563010117 RF-1 domain; Region: RF-1; pfam00472 96563010118 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 96563010119 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 96563010120 tRNA; other site 96563010121 putative tRNA binding site [nucleotide binding]; other site 96563010122 putative NADP binding site [chemical binding]; other site 96563010123 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 96563010124 Domain of unknown function (DUF3841); Region: DUF3841; pfam12952 96563010125 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 96563010126 TPR motif; other site 96563010127 binding surface 96563010128 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 96563010129 binding surface 96563010130 TPR motif; other site 96563010131 TPR repeat; Region: TPR_11; pfam13414 96563010132 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 96563010133 binding surface 96563010134 TPR motif; other site 96563010135 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 96563010136 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 96563010137 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 96563010138 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 96563010139 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 96563010140 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 96563010141 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 96563010142 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 96563010143 active site 96563010144 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 96563010145 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 96563010146 5S rRNA interface [nucleotide binding]; other site 96563010147 CTC domain interface [polypeptide binding]; other site 96563010148 L16 interface [polypeptide binding]; other site 96563010149 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 96563010150 putative active site [active] 96563010151 GTP-binding protein YchF; Reviewed; Region: PRK09601 96563010152 YchF GTPase; Region: YchF; cd01900 96563010153 G1 box; other site 96563010154 GTP/Mg2+ binding site [chemical binding]; other site 96563010155 Switch I region; other site 96563010156 G2 box; other site 96563010157 Switch II region; other site 96563010158 G3 box; other site 96563010159 G4 box; other site 96563010160 G5 box; other site 96563010161 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 96563010162 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 96563010163 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 96563010164 TM-ABC transporter signature motif; other site 96563010165 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 96563010166 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 96563010167 TM-ABC transporter signature motif; other site 96563010168 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 96563010169 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 96563010170 putative ligand binding site [chemical binding]; other site 96563010171 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 96563010172 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 96563010173 Walker A/P-loop; other site 96563010174 ATP binding site [chemical binding]; other site 96563010175 Q-loop/lid; other site 96563010176 ABC transporter signature motif; other site 96563010177 Walker B; other site 96563010178 D-loop; other site 96563010179 H-loop/switch region; other site 96563010180 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 96563010181 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 96563010182 Walker A/P-loop; other site 96563010183 ATP binding site [chemical binding]; other site 96563010184 Q-loop/lid; other site 96563010185 ABC transporter signature motif; other site 96563010186 Walker B; other site 96563010187 D-loop; other site 96563010188 H-loop/switch region; other site 96563010189 outer membrane porin, OprD family; Region: OprD; pfam03573 96563010190 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 96563010191 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 96563010192 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 96563010193 AMP-binding domain protein; Validated; Region: PRK08315 96563010194 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96563010195 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 96563010196 acyl-activating enzyme (AAE) consensus motif; other site 96563010197 putative AMP binding site [chemical binding]; other site 96563010198 putative active site [active] 96563010199 putative CoA binding site [chemical binding]; other site 96563010200 UV-endonuclease UvdE; Region: UvdE; cl10036 96563010201 isovaleryl-CoA dehydrogenase; Region: PLN02519 96563010202 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 96563010203 substrate binding site [chemical binding]; other site 96563010204 FAD binding site [chemical binding]; other site 96563010205 catalytic base [active] 96563010206 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 96563010207 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 96563010208 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 96563010209 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 96563010210 substrate binding site [chemical binding]; other site 96563010211 oxyanion hole (OAH) forming residues; other site 96563010212 trimer interface [polypeptide binding]; other site 96563010213 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 96563010214 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 96563010215 ATP-grasp domain; Region: ATP-grasp_4; cl17255 96563010216 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 96563010217 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 96563010218 carboxyltransferase (CT) interaction site; other site 96563010219 biotinylation site [posttranslational modification]; other site 96563010220 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 96563010221 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 96563010222 active site 96563010223 catalytic residues [active] 96563010224 metal binding site [ion binding]; metal-binding site 96563010225 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 96563010226 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 96563010227 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 96563010228 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 96563010229 dimer interface [polypeptide binding]; other site 96563010230 active site 96563010231 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 96563010232 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 96563010233 DNA binding residues [nucleotide binding] 96563010234 putative dimer interface [polypeptide binding]; other site 96563010235 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 96563010236 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 96563010237 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 96563010238 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 96563010239 DctM-like transporters; Region: DctM; pfam06808 96563010240 PAS fold; Region: PAS_4; pfam08448 96563010241 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 96563010242 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 96563010243 Walker A motif; other site 96563010244 ATP binding site [chemical binding]; other site 96563010245 Walker B motif; other site 96563010246 arginine finger; other site 96563010247 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96563010248 DoxX; Region: DoxX; pfam07681 96563010249 Tannase and feruloyl esterase; Region: Tannase; pfam07519 96563010250 outer membrane porin, OprD family; Region: OprD; pfam03573 96563010251 Transposase domain (DUF772); Region: DUF772; pfam05598 96563010252 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 96563010253 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 96563010254 Transposase; Region: HTH_Tnp_1; cl17663 96563010255 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 96563010256 IS2 transposase TnpB; Reviewed; Region: PRK09409 96563010257 HTH-like domain; Region: HTH_21; pfam13276 96563010258 Integrase core domain; Region: rve; pfam00665 96563010259 Integrase core domain; Region: rve_3; pfam13683 96563010260 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 96563010261 transposase/IS protein; Provisional; Region: PRK09183 96563010262 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 96563010263 Walker A motif; other site 96563010264 ATP binding site [chemical binding]; other site 96563010265 Walker B motif; other site 96563010266 arginine finger; other site 96563010267 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563010268 Integrase core domain; Region: rve; pfam00665 96563010269 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 96563010270 active site 96563010271 DNA binding site [nucleotide binding] 96563010272 Int/Topo IB signature motif; other site 96563010273 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 96563010274 EamA-like transporter family; Region: EamA; pfam00892 96563010275 EamA-like transporter family; Region: EamA; pfam00892 96563010276 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 96563010277 active site clefts [active] 96563010278 zinc binding site [ion binding]; other site 96563010279 dimer interface [polypeptide binding]; other site 96563010280 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 96563010281 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 96563010282 active site 96563010283 homotetramer interface [polypeptide binding]; other site 96563010284 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 96563010285 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 96563010286 active site 96563010287 motif I; other site 96563010288 motif II; other site 96563010289 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 96563010290 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96563010291 Coenzyme A binding pocket [chemical binding]; other site 96563010292 2-isopropylmalate synthase; Validated; Region: PRK00915 96563010293 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 96563010294 active site 96563010295 catalytic residues [active] 96563010296 metal binding site [ion binding]; metal-binding site 96563010297 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 96563010298 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 96563010299 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 96563010300 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 96563010301 dimer interface [polypeptide binding]; other site 96563010302 active site 96563010303 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 96563010304 catalytic residues [active] 96563010305 substrate binding site [chemical binding]; other site 96563010306 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 96563010307 mce related protein; Region: MCE; pfam02470 96563010308 mce related protein; Region: MCE; pfam02470 96563010309 mce related protein; Region: MCE; pfam02470 96563010310 mce related protein; Region: MCE; pfam02470 96563010311 mce related protein; Region: MCE; pfam02470 96563010312 mce related protein; Region: MCE; pfam02470 96563010313 Paraquat-inducible protein A; Region: PqiA; pfam04403 96563010314 Paraquat-inducible protein A; Region: PqiA; pfam04403 96563010315 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 96563010316 TMAO/DMSO reductase; Reviewed; Region: PRK05363 96563010317 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 96563010318 Moco binding site; other site 96563010319 metal coordination site [ion binding]; other site 96563010320 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 96563010321 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 96563010322 ketol-acid reductoisomerase; Provisional; Region: PRK05479 96563010323 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 96563010324 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 96563010325 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 96563010326 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 96563010327 putative valine binding site [chemical binding]; other site 96563010328 dimer interface [polypeptide binding]; other site 96563010329 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 96563010330 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 96563010331 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 96563010332 PYR/PP interface [polypeptide binding]; other site 96563010333 dimer interface [polypeptide binding]; other site 96563010334 TPP binding site [chemical binding]; other site 96563010335 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 96563010336 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 96563010337 TPP-binding site [chemical binding]; other site 96563010338 dimer interface [polypeptide binding]; other site 96563010339 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 96563010340 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 96563010341 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 96563010342 TPR motif; other site 96563010343 binding surface 96563010344 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 96563010345 Transglycosylase; Region: Transgly; pfam00912 96563010346 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 96563010347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 96563010348 Predicted kinase [General function prediction only]; Region: COG0645 96563010349 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 96563010350 active site 96563010351 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 96563010352 S-adenosylmethionine binding site [chemical binding]; other site 96563010353 TfoX C-terminal domain; Region: TfoX_C; pfam04994 96563010354 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 96563010355 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 96563010356 ligand binding site [chemical binding]; other site 96563010357 flexible hinge region; other site 96563010358 Protein of unknown function, DUF399; Region: DUF399; cl01139 96563010359 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 96563010360 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 96563010361 Walker A/P-loop; other site 96563010362 ATP binding site [chemical binding]; other site 96563010363 Q-loop/lid; other site 96563010364 ABC transporter signature motif; other site 96563010365 Walker B; other site 96563010366 D-loop; other site 96563010367 H-loop/switch region; other site 96563010368 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 96563010369 ABC-ATPase subunit interface; other site 96563010370 dimer interface [polypeptide binding]; other site 96563010371 putative PBP binding regions; other site 96563010372 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 96563010373 iron-sulfur cluster [ion binding]; other site 96563010374 [2Fe-2S] cluster binding site [ion binding]; other site 96563010375 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 96563010376 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 96563010377 Family description; Region: DsbD_2; pfam13386 96563010378 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 96563010379 DsbD alpha interface [polypeptide binding]; other site 96563010380 catalytic residues [active] 96563010381 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 96563010382 Dehydroquinase class II; Region: DHquinase_II; pfam01220 96563010383 active site 96563010384 trimer interface [polypeptide binding]; other site 96563010385 dimer interface [polypeptide binding]; other site 96563010386 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 96563010387 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 96563010388 carboxyltransferase (CT) interaction site; other site 96563010389 biotinylation site [posttranslational modification]; other site 96563010390 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 96563010391 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 96563010392 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 96563010393 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 96563010394 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 96563010395 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 96563010396 S-adenosylmethionine binding site [chemical binding]; other site 96563010397 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 96563010398 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 96563010399 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 96563010400 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 96563010401 FMN binding site [chemical binding]; other site 96563010402 active site 96563010403 catalytic residues [active] 96563010404 substrate binding site [chemical binding]; other site 96563010405 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 96563010406 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 96563010407 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 96563010408 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 96563010409 purine monophosphate binding site [chemical binding]; other site 96563010410 dimer interface [polypeptide binding]; other site 96563010411 putative catalytic residues [active] 96563010412 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 96563010413 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 96563010414 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 96563010415 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 96563010416 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 96563010417 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 96563010418 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 96563010419 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 96563010420 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 96563010421 dimer interface [polypeptide binding]; other site 96563010422 phosphorylation site [posttranslational modification] 96563010423 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 96563010424 ATP binding site [chemical binding]; other site 96563010425 Mg2+ binding site [ion binding]; other site 96563010426 G-X-G motif; other site 96563010427 Response regulator receiver domain; Region: Response_reg; pfam00072 96563010428 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563010429 active site 96563010430 phosphorylation site [posttranslational modification] 96563010431 intermolecular recognition site; other site 96563010432 dimerization interface [polypeptide binding]; other site 96563010433 Response regulator receiver domain; Region: Response_reg; pfam00072 96563010434 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563010435 active site 96563010436 phosphorylation site [posttranslational modification] 96563010437 intermolecular recognition site; other site 96563010438 dimerization interface [polypeptide binding]; other site 96563010439 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 96563010440 Cytochrome P450; Region: p450; cl12078 96563010441 Predicted integral membrane protein [Function unknown]; Region: COG0392 96563010442 Predicted permeases [General function prediction only]; Region: COG0679 96563010443 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 96563010444 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 96563010445 NADP binding site [chemical binding]; other site 96563010446 active site 96563010447 putative substrate binding site [chemical binding]; other site 96563010448 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 96563010449 hypothetical protein; Provisional; Region: PRK08960 96563010450 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 96563010451 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563010452 homodimer interface [polypeptide binding]; other site 96563010453 catalytic residue [active] 96563010454 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 96563010455 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 96563010456 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 96563010457 active site 96563010458 nucleotide binding site [chemical binding]; other site 96563010459 HIGH motif; other site 96563010460 KMSKS motif; other site 96563010461 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 96563010462 Na binding site [ion binding]; other site 96563010463 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 96563010464 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 96563010465 dimer interface [polypeptide binding]; other site 96563010466 phosphorylation site [posttranslational modification] 96563010467 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 96563010468 ATP binding site [chemical binding]; other site 96563010469 Mg2+ binding site [ion binding]; other site 96563010470 G-X-G motif; other site 96563010471 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 96563010472 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563010473 active site 96563010474 phosphorylation site [posttranslational modification] 96563010475 intermolecular recognition site; other site 96563010476 dimerization interface [polypeptide binding]; other site 96563010477 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 96563010478 Walker A motif; other site 96563010479 ATP binding site [chemical binding]; other site 96563010480 Walker B motif; other site 96563010481 arginine finger; other site 96563010482 poly(A) polymerase; Region: pcnB; TIGR01942 96563010483 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 96563010484 active site 96563010485 NTP binding site [chemical binding]; other site 96563010486 metal binding triad [ion binding]; metal-binding site 96563010487 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 96563010488 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 96563010489 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 96563010490 catalytic center binding site [active] 96563010491 ATP binding site [chemical binding]; other site 96563010492 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 96563010493 oligomerization interface [polypeptide binding]; other site 96563010494 active site 96563010495 metal binding site [ion binding]; metal-binding site 96563010496 pantoate--beta-alanine ligase; Region: panC; TIGR00018 96563010497 Pantoate-beta-alanine ligase; Region: PanC; cd00560 96563010498 active site 96563010499 ATP-binding site [chemical binding]; other site 96563010500 pantoate-binding site; other site 96563010501 HXXH motif; other site 96563010502 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 96563010503 tetramerization interface [polypeptide binding]; other site 96563010504 active site 96563010505 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 96563010506 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 96563010507 active site 96563010508 dimer interface [polypeptide binding]; other site 96563010509 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 96563010510 dimer interface [polypeptide binding]; other site 96563010511 active site 96563010512 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 96563010513 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 96563010514 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 96563010515 putative RNA binding site [nucleotide binding]; other site 96563010516 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 96563010517 S-adenosylmethionine binding site [chemical binding]; other site 96563010518 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 96563010519 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 96563010520 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 96563010521 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 96563010522 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 96563010523 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 96563010524 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 96563010525 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 96563010526 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 96563010527 RNase E interface [polypeptide binding]; other site 96563010528 trimer interface [polypeptide binding]; other site 96563010529 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 96563010530 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 96563010531 RNase E interface [polypeptide binding]; other site 96563010532 trimer interface [polypeptide binding]; other site 96563010533 active site 96563010534 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 96563010535 putative nucleic acid binding region [nucleotide binding]; other site 96563010536 G-X-X-G motif; other site 96563010537 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 96563010538 RNA binding site [nucleotide binding]; other site 96563010539 domain interface; other site 96563010540 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 96563010541 16S/18S rRNA binding site [nucleotide binding]; other site 96563010542 S13e-L30e interaction site [polypeptide binding]; other site 96563010543 25S rRNA binding site [nucleotide binding]; other site 96563010544 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 96563010545 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 96563010546 RNA binding site [nucleotide binding]; other site 96563010547 active site 96563010548 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 96563010549 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 96563010550 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 96563010551 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 96563010552 translation initiation factor IF-2; Region: IF-2; TIGR00487 96563010553 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 96563010554 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 96563010555 G1 box; other site 96563010556 putative GEF interaction site [polypeptide binding]; other site 96563010557 GTP/Mg2+ binding site [chemical binding]; other site 96563010558 Switch I region; other site 96563010559 G2 box; other site 96563010560 G3 box; other site 96563010561 Switch II region; other site 96563010562 G4 box; other site 96563010563 G5 box; other site 96563010564 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 96563010565 Translation-initiation factor 2; Region: IF-2; pfam11987 96563010566 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 96563010567 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 96563010568 NusA N-terminal domain; Region: NusA_N; pfam08529 96563010569 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 96563010570 RNA binding site [nucleotide binding]; other site 96563010571 homodimer interface [polypeptide binding]; other site 96563010572 NusA-like KH domain; Region: KH_5; pfam13184 96563010573 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 96563010574 G-X-X-G motif; other site 96563010575 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 96563010576 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 96563010577 ribosome maturation protein RimP; Reviewed; Region: PRK00092 96563010578 Sm and related proteins; Region: Sm_like; cl00259 96563010579 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 96563010580 putative oligomer interface [polypeptide binding]; other site 96563010581 putative RNA binding site [nucleotide binding]; other site 96563010582 Preprotein translocase SecG subunit; Region: SecG; pfam03840 96563010583 triosephosphate isomerase; Provisional; Region: PRK14567 96563010584 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 96563010585 dimer interface [polypeptide binding]; other site 96563010586 substrate binding site [chemical binding]; other site 96563010587 catalytic triad [active] 96563010588 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 96563010589 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 96563010590 active site 96563010591 substrate binding site [chemical binding]; other site 96563010592 metal binding site [ion binding]; metal-binding site 96563010593 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 96563010594 dihydropteroate synthase; Region: DHPS; TIGR01496 96563010595 substrate binding pocket [chemical binding]; other site 96563010596 dimer interface [polypeptide binding]; other site 96563010597 inhibitor binding site; inhibition site 96563010598 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 96563010599 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 96563010600 Walker A motif; other site 96563010601 ATP binding site [chemical binding]; other site 96563010602 Walker B motif; other site 96563010603 arginine finger; other site 96563010604 Peptidase family M41; Region: Peptidase_M41; pfam01434 96563010605 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 96563010606 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 96563010607 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 96563010608 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 96563010609 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 96563010610 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 96563010611 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 96563010612 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 96563010613 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 96563010614 ATP-grasp domain; Region: ATP-grasp_4; cl17255 96563010615 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 96563010616 IMP binding site; other site 96563010617 dimer interface [polypeptide binding]; other site 96563010618 interdomain contacts; other site 96563010619 partial ornithine binding site; other site 96563010620 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 96563010621 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 96563010622 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 96563010623 catalytic site [active] 96563010624 subunit interface [polypeptide binding]; other site 96563010625 dihydrodipicolinate reductase; Provisional; Region: PRK00048 96563010626 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 96563010627 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 96563010628 chaperone protein DnaJ; Provisional; Region: PRK10767 96563010629 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 96563010630 HSP70 interaction site [polypeptide binding]; other site 96563010631 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 96563010632 substrate binding site [polypeptide binding]; other site 96563010633 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 96563010634 Zn binding sites [ion binding]; other site 96563010635 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 96563010636 dimer interface [polypeptide binding]; other site 96563010637 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 96563010638 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 96563010639 nucleotide binding site [chemical binding]; other site 96563010640 NEF interaction site [polypeptide binding]; other site 96563010641 SBD interface [polypeptide binding]; other site 96563010642 GrpE; Region: GrpE; pfam01025 96563010643 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 96563010644 dimer interface [polypeptide binding]; other site 96563010645 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 96563010646 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 96563010647 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 96563010648 Walker A/P-loop; other site 96563010649 ATP binding site [chemical binding]; other site 96563010650 Q-loop/lid; other site 96563010651 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 96563010652 ABC transporter signature motif; other site 96563010653 Walker B; other site 96563010654 D-loop; other site 96563010655 H-loop/switch region; other site 96563010656 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 96563010657 metal binding site 2 [ion binding]; metal-binding site 96563010658 putative DNA binding helix; other site 96563010659 metal binding site 1 [ion binding]; metal-binding site 96563010660 dimer interface [polypeptide binding]; other site 96563010661 structural Zn2+ binding site [ion binding]; other site 96563010662 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 96563010663 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 96563010664 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 96563010665 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 96563010666 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 96563010667 putative coenzyme Q binding site [chemical binding]; other site 96563010668 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 96563010669 SmpB-tmRNA interface; other site 96563010670 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 96563010671 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 96563010672 DNA-binding site [nucleotide binding]; DNA binding site 96563010673 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 96563010674 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 96563010675 L-lactate permease; Region: Lactate_perm; cl00701 96563010676 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 96563010677 Cysteine-rich domain; Region: CCG; pfam02754 96563010678 Cysteine-rich domain; Region: CCG; pfam02754 96563010679 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 96563010680 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 96563010681 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 96563010682 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 96563010683 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 96563010684 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 96563010685 FAD binding domain; Region: FAD_binding_4; pfam01565 96563010686 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 96563010687 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 96563010688 Cysteine-rich domain; Region: CCG; pfam02754 96563010689 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 96563010690 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 96563010691 active site 96563010692 DNA binding site [nucleotide binding] 96563010693 Int/Topo IB signature motif; other site 96563010694 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 96563010695 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 96563010696 active site 96563010697 DNA binding site [nucleotide binding] 96563010698 Int/Topo IB signature motif; other site 96563010699 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563010700 Integrase core domain; Region: rve; pfam00665 96563010701 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563010702 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 96563010703 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 96563010704 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 96563010705 Walker A motif; other site 96563010706 ATP binding site [chemical binding]; other site 96563010707 Walker B motif; other site 96563010708 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 96563010709 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 96563010710 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 96563010711 ATP binding site [chemical binding]; other site 96563010712 putative Mg++ binding site [ion binding]; other site 96563010713 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 96563010714 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 96563010715 Part of AAA domain; Region: AAA_19; pfam13245 96563010716 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 96563010717 AAA domain; Region: AAA_12; pfam13087 96563010718 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 96563010719 putative active site [active] 96563010720 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 96563010721 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 96563010722 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 96563010723 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 96563010724 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 96563010725 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 96563010726 HsdM N-terminal domain; Region: HsdM_N; pfam12161 96563010727 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 96563010728 Methyltransferase domain; Region: Methyltransf_26; pfam13659 96563010729 Peptidase M15; Region: Peptidase_M15_3; cl01194 96563010730 Predicted transcriptional regulator [Transcription]; Region: COG2378 96563010731 WYL domain; Region: WYL; pfam13280 96563010732 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 96563010733 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 96563010734 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 96563010735 Walker A motif; other site 96563010736 ATP binding site [chemical binding]; other site 96563010737 Walker B motif; other site 96563010738 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563010739 Integrase core domain; Region: rve; pfam00665 96563010740 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563010741 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 96563010742 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 96563010743 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 96563010744 Walker A motif; other site 96563010745 ATP binding site [chemical binding]; other site 96563010746 Walker B motif; other site 96563010747 arginine finger; other site 96563010748 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 96563010749 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 96563010750 Walker A motif; other site 96563010751 ATP binding site [chemical binding]; other site 96563010752 Walker B motif; other site 96563010753 arginine finger; other site 96563010754 Predicted transcriptional regulator [Transcription]; Region: COG2378 96563010755 WYL domain; Region: WYL; pfam13280 96563010756 WYL domain; Region: WYL; pfam13280 96563010757 ATPase family associated with various cellular activities (AAA); Region: AAA; pfam00004 96563010758 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 96563010759 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 96563010760 ligand binding site [chemical binding]; other site 96563010761 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563010762 Integrase core domain; Region: rve; pfam00665 96563010763 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563010764 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 96563010765 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 96563010766 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 96563010767 Walker A motif; other site 96563010768 ATP binding site [chemical binding]; other site 96563010769 Walker B motif; other site 96563010770 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 96563010771 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 96563010772 AAA domain; Region: AAA_30; pfam13604 96563010773 Family description; Region: UvrD_C_2; pfam13538 96563010774 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 96563010775 Family description; Region: UvrD_C_2; pfam13538 96563010776 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 96563010777 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 96563010778 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 96563010779 Sel1-like repeats; Region: SEL1; smart00671 96563010780 Transposase domain (DUF772); Region: DUF772; pfam05598 96563010781 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 96563010782 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 96563010783 WYL domain; Region: WYL; pfam13280 96563010784 Fic family protein [Function unknown]; Region: COG3177 96563010785 Fic/DOC family; Region: Fic; pfam02661 96563010786 integrase; Provisional; Region: PRK09692 96563010787 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 96563010788 active site 96563010789 Int/Topo IB signature motif; other site 96563010790 Predicted transcriptional regulator [Transcription]; Region: COG2378 96563010791 WYL domain; Region: WYL; pfam13280 96563010792 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 96563010793 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 96563010794 transposase/IS protein; Provisional; Region: PRK09183 96563010795 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 96563010796 Walker A motif; other site 96563010797 ATP binding site [chemical binding]; other site 96563010798 Walker B motif; other site 96563010799 arginine finger; other site 96563010800 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563010801 Integrase core domain; Region: rve; pfam00665 96563010802 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96563010803 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563010804 active site 96563010805 phosphorylation site [posttranslational modification] 96563010806 intermolecular recognition site; other site 96563010807 dimerization interface [polypeptide binding]; other site 96563010808 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 96563010809 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 96563010810 Walker A/P-loop; other site 96563010811 ATP binding site [chemical binding]; other site 96563010812 Q-loop/lid; other site 96563010813 ABC transporter signature motif; other site 96563010814 Walker B; other site 96563010815 D-loop; other site 96563010816 H-loop/switch region; other site 96563010817 TOBE domain; Region: TOBE_2; pfam08402 96563010818 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 96563010819 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 96563010820 active site 96563010821 catalytic site [active] 96563010822 maltose O-acetyltransferase; Provisional; Region: PRK10092 96563010823 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 96563010824 active site 96563010825 substrate binding site [chemical binding]; other site 96563010826 trimer interface [polypeptide binding]; other site 96563010827 CoA binding site [chemical binding]; other site 96563010828 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 96563010829 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 96563010830 C-terminal domain interface [polypeptide binding]; other site 96563010831 GSH binding site (G-site) [chemical binding]; other site 96563010832 dimer interface [polypeptide binding]; other site 96563010833 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 96563010834 N-terminal domain interface [polypeptide binding]; other site 96563010835 dimer interface [polypeptide binding]; other site 96563010836 substrate binding pocket (H-site) [chemical binding]; other site 96563010837 transcriptional regulator MalT; Provisional; Region: PRK04841 96563010838 AAA ATPase domain; Region: AAA_16; pfam13191 96563010839 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 96563010840 DNA binding residues [nucleotide binding] 96563010841 dimerization interface [polypeptide binding]; other site 96563010842 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 96563010843 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563010844 dimer interface [polypeptide binding]; other site 96563010845 conserved gate region; other site 96563010846 putative PBP binding loops; other site 96563010847 ABC-ATPase subunit interface; other site 96563010848 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563010849 dimer interface [polypeptide binding]; other site 96563010850 conserved gate region; other site 96563010851 putative PBP binding loops; other site 96563010852 ABC-ATPase subunit interface; other site 96563010853 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 96563010854 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 96563010855 alpha-amylase; Reviewed; Region: malS; PRK09505 96563010856 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 96563010857 active site 96563010858 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 96563010859 active site 96563010860 catalytic site [active] 96563010861 catalytic site [active] 96563010862 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 96563010863 active site 96563010864 substrate binding site [chemical binding]; other site 96563010865 ATP binding site [chemical binding]; other site 96563010866 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 96563010867 active site 96563010868 Ca binding site [ion binding]; other site 96563010869 catalytic site [active] 96563010870 Domain of unknown function (DUF1921); Region: DUF1921; pfam09081 96563010871 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 96563010872 starch-binding site 2 [chemical binding]; other site 96563010873 starch-binding site 1 [chemical binding]; other site 96563010874 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 96563010875 trimer interface; other site 96563010876 sugar binding site [chemical binding]; other site 96563010877 Maltose operon periplasmic protein precursor (MalM); Region: MalM; pfam07148 96563010878 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 96563010879 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 96563010880 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 96563010881 active site 96563010882 catalytic tetrad [active] 96563010883 betaine aldehyde dehydrogenase; Region: PLN02467 96563010884 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 96563010885 tetrameric interface [polypeptide binding]; other site 96563010886 activator binding site; other site 96563010887 NADP binding site [chemical binding]; other site 96563010888 substrate binding site [chemical binding]; other site 96563010889 catalytic residues [active] 96563010890 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 96563010891 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 96563010892 active site 96563010893 intersubunit interface [polypeptide binding]; other site 96563010894 catalytic residue [active] 96563010895 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 96563010896 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 96563010897 putative active site [active] 96563010898 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 96563010899 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 96563010900 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 96563010901 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 96563010902 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 96563010903 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 96563010904 putative active site [active] 96563010905 glucokinase; Provisional; Region: glk; PRK00292 96563010906 glucokinase, proteobacterial type; Region: glk; TIGR00749 96563010907 phosphogluconate dehydratase; Validated; Region: PRK09054 96563010908 6-phosphogluconate dehydratase; Region: edd; TIGR01196 96563010909 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 96563010910 Major Facilitator Superfamily; Region: MFS_1; pfam07690 96563010911 putative substrate translocation pore; other site 96563010912 Fe2+ transport protein; Region: Iron_transport; pfam10634 96563010913 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 96563010914 Iron permease FTR1 family; Region: FTR1; cl00475 96563010915 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 96563010916 4Fe-4S binding domain; Region: Fer4_5; pfam12801 96563010917 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 96563010918 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 96563010919 FeS/SAM binding site; other site 96563010920 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 96563010921 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 96563010922 ATP cone domain; Region: ATP-cone; pfam03477 96563010923 Class III ribonucleotide reductase; Region: RNR_III; cd01675 96563010924 effector binding site; other site 96563010925 active site 96563010926 Zn binding site [ion binding]; other site 96563010927 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 96563010928 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 96563010929 ligand binding site [chemical binding]; other site 96563010930 flexible hinge region; other site 96563010931 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 96563010932 putative switch regulator; other site 96563010933 non-specific DNA interactions [nucleotide binding]; other site 96563010934 DNA binding site [nucleotide binding] 96563010935 sequence specific DNA binding site [nucleotide binding]; other site 96563010936 putative cAMP binding site [chemical binding]; other site 96563010937 DGC domain; Region: DGC; pfam08859 96563010938 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 96563010939 putative protease; Provisional; Region: PRK15447 96563010940 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 96563010941 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 96563010942 Peptidase family U32; Region: Peptidase_U32; pfam01136 96563010943 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 96563010944 GAF domain; Region: GAF; pfam01590 96563010945 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 96563010946 Walker A motif; other site 96563010947 ATP binding site [chemical binding]; other site 96563010948 Walker B motif; other site 96563010949 arginine finger; other site 96563010950 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 96563010951 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 96563010952 Hemerythrin-like domain; Region: Hr-like; cd12108 96563010953 Fe binding site [ion binding]; other site 96563010954 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 96563010955 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 96563010956 ligand binding site [chemical binding]; other site 96563010957 flexible hinge region; other site 96563010958 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 96563010959 putative protein serine/threonine phosphatase; Provisional; Region: PRK14559 96563010960 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 96563010961 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 96563010962 metal ion-dependent adhesion site (MIDAS); other site 96563010963 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 96563010964 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 96563010965 Low-spin heme binding site [chemical binding]; other site 96563010966 D-pathway; other site 96563010967 K-pathway; other site 96563010968 Binuclear center (active site) [active] 96563010969 Putative proton exit pathway; other site 96563010970 Putative water exit pathway; other site 96563010971 Cytochrome c; Region: Cytochrom_C; pfam00034 96563010972 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 96563010973 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 96563010974 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 96563010975 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 96563010976 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 96563010977 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 96563010978 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 96563010979 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 96563010980 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 96563010981 Cytochrome c; Region: Cytochrom_C; cl11414 96563010982 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 96563010983 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 96563010984 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 96563010985 MoxR-like ATPases [General function prediction only]; Region: COG0714 96563010986 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 96563010987 Walker A motif; other site 96563010988 ATP binding site [chemical binding]; other site 96563010989 Walker B motif; other site 96563010990 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 96563010991 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 96563010992 Subunit I/III interface [polypeptide binding]; other site 96563010993 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 96563010994 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 96563010995 FeS/SAM binding site; other site 96563010996 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 96563010997 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 96563010998 active site 96563010999 SAM binding site [chemical binding]; other site 96563011000 homodimer interface [polypeptide binding]; other site 96563011001 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 96563011002 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 96563011003 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 96563011004 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 96563011005 structural tetrad; other site 96563011006 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563011007 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563011008 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 96563011009 dimerization interface [polypeptide binding]; other site 96563011010 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 96563011011 HPP family; Region: HPP; pfam04982 96563011012 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 96563011013 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 96563011014 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 96563011015 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 96563011016 Putative water exit pathway; other site 96563011017 Binuclear center (active site) [active] 96563011018 Putative proton exit pathway; other site 96563011019 Low-spin heme binding site [chemical binding]; other site 96563011020 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563011021 dimer interface [polypeptide binding]; other site 96563011022 putative CheW interface [polypeptide binding]; other site 96563011023 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 96563011024 short chain dehydrogenase; Provisional; Region: PRK06500 96563011025 classical (c) SDRs; Region: SDR_c; cd05233 96563011026 NAD(P) binding site [chemical binding]; other site 96563011027 active site 96563011028 NnrS protein; Region: NnrS; pfam05940 96563011029 twin arginine translocase protein A; Provisional; Region: tatA; PRK04598 96563011030 NosL; Region: NosL; pfam05573 96563011031 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 96563011032 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 96563011033 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 96563011034 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563011035 Walker A/P-loop; other site 96563011036 ATP binding site [chemical binding]; other site 96563011037 Q-loop/lid; other site 96563011038 ABC transporter signature motif; other site 96563011039 Walker B; other site 96563011040 D-loop; other site 96563011041 H-loop/switch region; other site 96563011042 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 96563011043 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 96563011044 nitrous-oxide reductase; Validated; Region: PRK02888 96563011045 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 96563011046 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 96563011047 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 96563011048 4Fe-4S binding domain; Region: Fer4_5; pfam12801 96563011049 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96563011050 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96563011051 active site 96563011052 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 96563011053 Protein of unknown function, DUF488; Region: DUF488; cl01246 96563011054 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 96563011055 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 96563011056 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 96563011057 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 96563011058 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 96563011059 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 96563011060 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 96563011061 CheB methylesterase; Region: CheB_methylest; pfam01339 96563011062 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 96563011063 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 96563011064 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 96563011065 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 96563011066 PAS domain; Region: PAS_9; pfam13426 96563011067 putative active site [active] 96563011068 heme pocket [chemical binding]; other site 96563011069 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 96563011070 PAS domain; Region: PAS_10; pfam13596 96563011071 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 96563011072 putative active site [active] 96563011073 heme pocket [chemical binding]; other site 96563011074 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 96563011075 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 96563011076 putative active site [active] 96563011077 heme pocket [chemical binding]; other site 96563011078 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 96563011079 dimer interface [polypeptide binding]; other site 96563011080 phosphorylation site [posttranslational modification] 96563011081 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 96563011082 ATP binding site [chemical binding]; other site 96563011083 Mg2+ binding site [ion binding]; other site 96563011084 G-X-G motif; other site 96563011085 Response regulator receiver domain; Region: Response_reg; pfam00072 96563011086 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563011087 active site 96563011088 phosphorylation site [posttranslational modification] 96563011089 intermolecular recognition site; other site 96563011090 dimerization interface [polypeptide binding]; other site 96563011091 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 96563011092 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 96563011093 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 96563011094 putative active site [active] 96563011095 heme pocket [chemical binding]; other site 96563011096 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 96563011097 Walker A motif; other site 96563011098 ATP binding site [chemical binding]; other site 96563011099 Walker B motif; other site 96563011100 arginine finger; other site 96563011101 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 96563011102 cofactor binding site; other site 96563011103 metal binding site [ion binding]; metal-binding site 96563011104 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 96563011105 aromatic arch; other site 96563011106 DCoH dimer interaction site [polypeptide binding]; other site 96563011107 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 96563011108 DCoH tetramer interaction site [polypeptide binding]; other site 96563011109 substrate binding site [chemical binding]; other site 96563011110 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 96563011111 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 96563011112 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563011113 homodimer interface [polypeptide binding]; other site 96563011114 catalytic residue [active] 96563011115 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 96563011116 cyanate hydratase; Validated; Region: PRK02866 96563011117 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 96563011118 oligomer interface [polypeptide binding]; other site 96563011119 active site 96563011120 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 96563011121 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 96563011122 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 96563011123 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 96563011124 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 96563011125 tetramer interface [polypeptide binding]; other site 96563011126 heme binding pocket [chemical binding]; other site 96563011127 cytosine permease; Provisional; Region: codB; PRK11017 96563011128 Na binding site [ion binding]; other site 96563011129 cytosine deaminase; Provisional; Region: PRK09230 96563011130 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 96563011131 active site 96563011132 Cytochrome c; Region: Cytochrom_C; cl11414 96563011133 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 96563011134 Cytochrome c553 [Energy production and conversion]; Region: COG2863 96563011135 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 96563011136 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 96563011137 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 96563011138 PhnA protein; Region: PhnA; pfam03831 96563011139 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 96563011140 DNA-binding site [nucleotide binding]; DNA binding site 96563011141 RNA-binding motif; other site 96563011142 Predicted membrane protein [Function unknown]; Region: COG3326 96563011143 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 96563011144 putative metal binding site [ion binding]; other site 96563011145 Uncharacterized conserved protein [Function unknown]; Region: COG1432 96563011146 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 96563011147 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 96563011148 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 96563011149 substrate binding pocket [chemical binding]; other site 96563011150 membrane-bound complex binding site; other site 96563011151 hinge residues; other site 96563011152 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563011153 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563011154 metal binding site [ion binding]; metal-binding site 96563011155 active site 96563011156 I-site; other site 96563011157 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 96563011158 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 96563011159 TM-ABC transporter signature motif; other site 96563011160 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 96563011161 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 96563011162 TM-ABC transporter signature motif; other site 96563011163 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 96563011164 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 96563011165 Walker A/P-loop; other site 96563011166 ATP binding site [chemical binding]; other site 96563011167 Q-loop/lid; other site 96563011168 ABC transporter signature motif; other site 96563011169 Walker B; other site 96563011170 D-loop; other site 96563011171 H-loop/switch region; other site 96563011172 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 96563011173 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 96563011174 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 96563011175 putative ligand binding site [chemical binding]; other site 96563011176 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 96563011177 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 96563011178 active site 96563011179 metal binding site [ion binding]; metal-binding site 96563011180 oxidase reductase; Provisional; Region: PTZ00273 96563011181 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 96563011182 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 96563011183 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 96563011184 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 96563011185 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 96563011186 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 96563011187 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 96563011188 putative metal binding site [ion binding]; other site 96563011189 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 96563011190 Uncharacterized conserved protein [Function unknown]; Region: COG2128 96563011191 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 96563011192 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 96563011193 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 96563011194 conserved cys residue [active] 96563011195 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563011196 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563011197 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 96563011198 Major Facilitator Superfamily; Region: MFS_1; pfam07690 96563011199 putative substrate translocation pore; other site 96563011200 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 96563011201 active site 96563011202 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 96563011203 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96563011204 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 96563011205 pyrimidine utilization protein A; Region: RutA; TIGR03612 96563011206 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 96563011207 active site 96563011208 dimer interface [polypeptide binding]; other site 96563011209 non-prolyl cis peptide bond; other site 96563011210 insertion regions; other site 96563011211 Isochorismatase family; Region: Isochorismatase; pfam00857 96563011212 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 96563011213 catalytic triad [active] 96563011214 conserved cis-peptide bond; other site 96563011215 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 96563011216 homotrimer interaction site [polypeptide binding]; other site 96563011217 putative active site [active] 96563011218 pyrimidine utilization protein D; Region: RutD; TIGR03611 96563011219 Serine hydrolase (FSH1); Region: FSH1; pfam03959 96563011220 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 96563011221 putative FMN binding site [chemical binding]; other site 96563011222 pyrimidine utilization flavin reductase protein F; Region: RutF; TIGR03615 96563011223 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 96563011224 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 96563011225 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 96563011226 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 96563011227 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 96563011228 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 96563011229 dimerization interface [polypeptide binding]; other site 96563011230 Uncharacterized conserved protein [Function unknown]; Region: COG1739 96563011231 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 96563011232 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 96563011233 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 96563011234 active site 96563011235 purine riboside binding site [chemical binding]; other site 96563011236 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 96563011237 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 96563011238 putative substrate translocation pore; other site 96563011239 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 96563011240 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96563011241 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 96563011242 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 96563011243 metal-binding site [ion binding] 96563011244 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 96563011245 metal-binding site [ion binding] 96563011246 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 96563011247 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 96563011248 metal-binding site [ion binding] 96563011249 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 96563011250 Soluble P-type ATPase [General function prediction only]; Region: COG4087 96563011251 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 96563011252 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 96563011253 DNA binding residues [nucleotide binding] 96563011254 dimer interface [polypeptide binding]; other site 96563011255 copper binding site [ion binding]; other site 96563011256 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 96563011257 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 96563011258 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 96563011259 dimerization interface [polypeptide binding]; other site 96563011260 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563011261 dimer interface [polypeptide binding]; other site 96563011262 putative CheW interface [polypeptide binding]; other site 96563011263 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 96563011264 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 96563011265 heme binding site [chemical binding]; other site 96563011266 ferroxidase pore; other site 96563011267 ferroxidase diiron center [ion binding]; other site 96563011268 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 96563011269 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 96563011270 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 96563011271 putative membrane fusion protein; Region: TIGR02828 96563011272 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 96563011273 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 96563011274 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 96563011275 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 96563011276 ATP binding site [chemical binding]; other site 96563011277 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 96563011278 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 96563011279 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563011280 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 96563011281 DNA binding site [nucleotide binding] 96563011282 active site 96563011283 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 96563011284 active site 96563011285 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 96563011286 dimerization interface [polypeptide binding]; other site 96563011287 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96563011288 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563011289 dimer interface [polypeptide binding]; other site 96563011290 putative CheW interface [polypeptide binding]; other site 96563011291 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 96563011292 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 96563011293 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 96563011294 amidase catalytic site [active] 96563011295 Zn binding residues [ion binding]; other site 96563011296 substrate binding site [chemical binding]; other site 96563011297 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 96563011298 Active_site [active] 96563011299 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 96563011300 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 96563011301 conserved cys residue [active] 96563011302 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563011303 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96563011304 Predicted ATPase [General function prediction only]; Region: COG1485 96563011305 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 96563011306 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 96563011307 active site 96563011308 HIGH motif; other site 96563011309 dimer interface [polypeptide binding]; other site 96563011310 KMSKS motif; other site 96563011311 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 96563011312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 96563011313 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 96563011314 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 96563011315 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 96563011316 dimerization interface [polypeptide binding]; other site 96563011317 active site 96563011318 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 96563011319 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 96563011320 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 96563011321 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 96563011322 Clp amino terminal domain; Region: Clp_N; pfam02861 96563011323 Clp amino terminal domain; Region: Clp_N; pfam02861 96563011324 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 96563011325 Walker A motif; other site 96563011326 ATP binding site [chemical binding]; other site 96563011327 Walker B motif; other site 96563011328 arginine finger; other site 96563011329 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 96563011330 Walker A motif; other site 96563011331 ATP binding site [chemical binding]; other site 96563011332 Walker B motif; other site 96563011333 arginine finger; other site 96563011334 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 96563011335 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 96563011336 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 96563011337 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 96563011338 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 96563011339 RNA binding surface [nucleotide binding]; other site 96563011340 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 96563011341 active site 96563011342 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 96563011343 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96563011344 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 96563011345 dimer interface [polypeptide binding]; other site 96563011346 phosphorylation site [posttranslational modification] 96563011347 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 96563011348 ATP binding site [chemical binding]; other site 96563011349 Mg2+ binding site [ion binding]; other site 96563011350 G-X-G motif; other site 96563011351 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 96563011352 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563011353 active site 96563011354 phosphorylation site [posttranslational modification] 96563011355 intermolecular recognition site; other site 96563011356 dimerization interface [polypeptide binding]; other site 96563011357 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 96563011358 Walker A motif; other site 96563011359 ATP binding site [chemical binding]; other site 96563011360 Walker B motif; other site 96563011361 arginine finger; other site 96563011362 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96563011363 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 96563011364 Response regulator receiver domain; Region: Response_reg; pfam00072 96563011365 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563011366 active site 96563011367 phosphorylation site [posttranslational modification] 96563011368 intermolecular recognition site; other site 96563011369 dimerization interface [polypeptide binding]; other site 96563011370 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563011371 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563011372 metal binding site [ion binding]; metal-binding site 96563011373 active site 96563011374 I-site; other site 96563011375 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 96563011376 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96563011377 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563011378 dimer interface [polypeptide binding]; other site 96563011379 putative CheW interface [polypeptide binding]; other site 96563011380 hypothetical protein; Provisional; Region: PRK01254 96563011381 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 96563011382 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 96563011383 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 96563011384 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 96563011385 Coiled-coil receptor-binding R-domain of colicin E2; Region: E2R135; pfam11570 96563011386 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563011387 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563011388 metal binding site [ion binding]; metal-binding site 96563011389 active site 96563011390 I-site; other site 96563011391 alanine racemase; Reviewed; Region: alr; PRK00053 96563011392 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 96563011393 active site 96563011394 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 96563011395 substrate binding site [chemical binding]; other site 96563011396 catalytic residues [active] 96563011397 dimer interface [polypeptide binding]; other site 96563011398 replicative DNA helicase; Provisional; Region: PRK05748 96563011399 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 96563011400 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 96563011401 Walker A motif; other site 96563011402 ATP binding site [chemical binding]; other site 96563011403 Walker B motif; other site 96563011404 DNA binding loops [nucleotide binding] 96563011405 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 96563011406 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 96563011407 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 96563011408 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 96563011409 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 96563011410 PAS fold; Region: PAS_4; pfam08448 96563011411 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 96563011412 putative active site [active] 96563011413 heme pocket [chemical binding]; other site 96563011414 PAS fold; Region: PAS; pfam00989 96563011415 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 96563011416 dimer interface [polypeptide binding]; other site 96563011417 phosphorylation site [posttranslational modification] 96563011418 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 96563011419 ATP binding site [chemical binding]; other site 96563011420 Mg2+ binding site [ion binding]; other site 96563011421 G-X-G motif; other site 96563011422 Response regulator receiver domain; Region: Response_reg; pfam00072 96563011423 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563011424 active site 96563011425 phosphorylation site [posttranslational modification] 96563011426 intermolecular recognition site; other site 96563011427 dimerization interface [polypeptide binding]; other site 96563011428 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 96563011429 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 96563011430 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 96563011431 ribonuclease R; Region: RNase_R; TIGR02063 96563011432 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 96563011433 RNB domain; Region: RNB; pfam00773 96563011434 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 96563011435 RNA binding site [nucleotide binding]; other site 96563011436 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 96563011437 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 96563011438 GDP-binding site [chemical binding]; other site 96563011439 ACT binding site; other site 96563011440 IMP binding site; other site 96563011441 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 96563011442 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 96563011443 dimer interface [polypeptide binding]; other site 96563011444 motif 1; other site 96563011445 active site 96563011446 motif 2; other site 96563011447 motif 3; other site 96563011448 FtsH protease regulator HflC; Provisional; Region: PRK11029 96563011449 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 96563011450 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 96563011451 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 96563011452 HflK protein; Region: hflK; TIGR01933 96563011453 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 96563011454 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 96563011455 HflX GTPase family; Region: HflX; cd01878 96563011456 G1 box; other site 96563011457 GTP/Mg2+ binding site [chemical binding]; other site 96563011458 Switch I region; other site 96563011459 G2 box; other site 96563011460 G3 box; other site 96563011461 Switch II region; other site 96563011462 G4 box; other site 96563011463 G5 box; other site 96563011464 bacterial Hfq-like; Region: Hfq; cd01716 96563011465 hexamer interface [polypeptide binding]; other site 96563011466 Sm1 motif; other site 96563011467 RNA binding site [nucleotide binding]; other site 96563011468 Sm2 motif; other site 96563011469 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 96563011470 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 96563011471 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 96563011472 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 96563011473 ATP binding site [chemical binding]; other site 96563011474 Mg2+ binding site [ion binding]; other site 96563011475 G-X-G motif; other site 96563011476 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 96563011477 ATP binding site [chemical binding]; other site 96563011478 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 96563011479 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 96563011480 AMIN domain; Region: AMIN; pfam11741 96563011481 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 96563011482 active site 96563011483 metal binding site [ion binding]; metal-binding site 96563011484 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 96563011485 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 96563011486 putative carbohydrate kinase; Provisional; Region: PRK10565 96563011487 Uncharacterized conserved protein [Function unknown]; Region: COG0062 96563011488 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 96563011489 putative substrate binding site [chemical binding]; other site 96563011490 putative ATP binding site [chemical binding]; other site 96563011491 epoxyqueuosine reductase; Region: TIGR00276 96563011492 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 96563011493 FtsH Extracellular; Region: FtsH_ext; pfam06480 96563011494 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 96563011495 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 96563011496 Walker A motif; other site 96563011497 ATP binding site [chemical binding]; other site 96563011498 Walker B motif; other site 96563011499 arginine finger; other site 96563011500 Peptidase family M41; Region: Peptidase_M41; pfam01434 96563011501 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 96563011502 aromatic acid decarboxylase; Validated; Region: PRK05920 96563011503 Flavoprotein; Region: Flavoprotein; pfam02441 96563011504 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 96563011505 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 96563011506 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 96563011507 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 96563011508 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 96563011509 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 96563011510 NAD(P) binding site [chemical binding]; other site 96563011511 catalytic residues [active] 96563011512 ethanolamine permease; Region: 2A0305; TIGR00908 96563011513 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 96563011514 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 96563011515 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 96563011516 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 96563011517 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 96563011518 putative active site [active] 96563011519 putative metal binding site [ion binding]; other site 96563011520 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 96563011521 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 96563011522 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 96563011523 homotrimer interaction site [polypeptide binding]; other site 96563011524 putative active site [active] 96563011525 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 96563011526 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 96563011527 dimer interface [polypeptide binding]; other site 96563011528 substrate binding site [chemical binding]; other site 96563011529 metal binding sites [ion binding]; metal-binding site 96563011530 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563011531 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563011532 metal binding site [ion binding]; metal-binding site 96563011533 active site 96563011534 I-site; other site 96563011535 PAS fold; Region: PAS_4; pfam08448 96563011536 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 96563011537 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 96563011538 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 96563011539 dimerization interface [polypeptide binding]; other site 96563011540 PAS domain S-box; Region: sensory_box; TIGR00229 96563011541 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 96563011542 putative active site [active] 96563011543 heme pocket [chemical binding]; other site 96563011544 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563011545 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563011546 active site 96563011547 I-site; other site 96563011548 metal binding site [ion binding]; metal-binding site 96563011549 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 96563011550 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 96563011551 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 96563011552 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 96563011553 DNA binding residues [nucleotide binding] 96563011554 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 96563011555 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563011556 catalytic residue [active] 96563011557 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 96563011558 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 96563011559 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 96563011560 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 96563011561 IucA / IucC family; Region: IucA_IucC; pfam04183 96563011562 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 96563011563 siderophore ferric iron reductase, AHA_1954 family; Region: sidero_Fe_reduc; TIGR03950 96563011564 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 96563011565 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 96563011566 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 96563011567 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 96563011568 substrate binding pocket [chemical binding]; other site 96563011569 chain length determination region; other site 96563011570 substrate-Mg2+ binding site; other site 96563011571 catalytic residues [active] 96563011572 aspartate-rich region 1; other site 96563011573 active site lid residues [active] 96563011574 aspartate-rich region 2; other site 96563011575 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 96563011576 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 96563011577 TPP-binding site; other site 96563011578 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 96563011579 PYR/PP interface [polypeptide binding]; other site 96563011580 dimer interface [polypeptide binding]; other site 96563011581 TPP binding site [chemical binding]; other site 96563011582 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 96563011583 Uncharacterized conserved protein [Function unknown]; Region: COG1432 96563011584 LabA_like proteins; Region: LabA; cd10911 96563011585 putative metal binding site [ion binding]; other site 96563011586 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 96563011587 short chain dehydrogenase; Provisional; Region: PRK06181 96563011588 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96563011589 NAD(P) binding site [chemical binding]; other site 96563011590 active site 96563011591 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 96563011592 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 96563011593 substrate binding pocket [chemical binding]; other site 96563011594 membrane-bound complex binding site; other site 96563011595 hinge residues; other site 96563011596 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 96563011597 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 96563011598 ATP binding site [chemical binding]; other site 96563011599 putative Mg++ binding site [ion binding]; other site 96563011600 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 96563011601 nucleotide binding region [chemical binding]; other site 96563011602 ATP-binding site [chemical binding]; other site 96563011603 Helicase associated domain (HA2); Region: HA2; pfam04408 96563011604 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 96563011605 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 96563011606 Cation efflux family; Region: Cation_efflux; cl00316 96563011607 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 96563011608 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 96563011609 putative DNA binding site [nucleotide binding]; other site 96563011610 putative Zn2+ binding site [ion binding]; other site 96563011611 AsnC family; Region: AsnC_trans_reg; pfam01037 96563011612 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 96563011613 heme-binding site [chemical binding]; other site 96563011614 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 96563011615 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 96563011616 pseudouridine synthase; Region: TIGR00093 96563011617 active site 96563011618 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 96563011619 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 96563011620 putative ligand binding site [chemical binding]; other site 96563011621 HEAT repeats; Region: HEAT_2; pfam13646 96563011622 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 96563011623 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 96563011624 TM-ABC transporter signature motif; other site 96563011625 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 96563011626 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 96563011627 TM-ABC transporter signature motif; other site 96563011628 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 96563011629 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 96563011630 Walker A/P-loop; other site 96563011631 ATP binding site [chemical binding]; other site 96563011632 Q-loop/lid; other site 96563011633 ABC transporter signature motif; other site 96563011634 Walker B; other site 96563011635 D-loop; other site 96563011636 H-loop/switch region; other site 96563011637 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 96563011638 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 96563011639 Walker A/P-loop; other site 96563011640 ATP binding site [chemical binding]; other site 96563011641 Q-loop/lid; other site 96563011642 ABC transporter signature motif; other site 96563011643 Walker B; other site 96563011644 D-loop; other site 96563011645 H-loop/switch region; other site 96563011646 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 96563011647 magnesium-transporting ATPase; Provisional; Region: PRK15122 96563011648 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 96563011649 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 96563011650 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 96563011651 motif II; other site 96563011652 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 96563011653 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 96563011654 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 96563011655 alpha-gamma subunit interface [polypeptide binding]; other site 96563011656 beta-gamma subunit interface [polypeptide binding]; other site 96563011657 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 96563011658 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96563011659 Coenzyme A binding pocket [chemical binding]; other site 96563011660 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 96563011661 gamma-beta subunit interface [polypeptide binding]; other site 96563011662 alpha-beta subunit interface [polypeptide binding]; other site 96563011663 urease subunit alpha; Reviewed; Region: ureC; PRK13207 96563011664 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 96563011665 subunit interactions [polypeptide binding]; other site 96563011666 active site 96563011667 flap region; other site 96563011668 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 96563011669 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 96563011670 Na binding site [ion binding]; other site 96563011671 putative substrate binding site [chemical binding]; other site 96563011672 GAF domain; Region: GAF; pfam01590 96563011673 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 96563011674 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96563011675 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 96563011676 dimer interface [polypeptide binding]; other site 96563011677 phosphorylation site [posttranslational modification] 96563011678 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 96563011679 ATP binding site [chemical binding]; other site 96563011680 Mg2+ binding site [ion binding]; other site 96563011681 G-X-G motif; other site 96563011682 hypothetical protein; Provisional; Region: PRK11019 96563011683 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 96563011684 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 96563011685 putative substrate translocation pore; other site 96563011686 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 96563011687 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 96563011688 tetramer interface [polypeptide binding]; other site 96563011689 active site 96563011690 Mg2+/Mn2+ binding site [ion binding]; other site 96563011691 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 96563011692 EamA-like transporter family; Region: EamA; pfam00892 96563011693 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 96563011694 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 96563011695 dimer interface [polypeptide binding]; other site 96563011696 catalytic residues [active] 96563011697 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 96563011698 UreF; Region: UreF; pfam01730 96563011699 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 96563011700 G1 box; other site 96563011701 GTP/Mg2+ binding site [chemical binding]; other site 96563011702 G2 box; other site 96563011703 Switch I region; other site 96563011704 G3 box; other site 96563011705 Switch II region; other site 96563011706 G4 box; other site 96563011707 G5 box; other site 96563011708 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 96563011709 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 96563011710 AMP nucleosidase; Provisional; Region: PRK08292 96563011711 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 96563011712 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 96563011713 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 96563011714 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 96563011715 DNA-binding site [nucleotide binding]; DNA binding site 96563011716 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 96563011717 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563011718 homodimer interface [polypeptide binding]; other site 96563011719 catalytic residue [active] 96563011720 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 96563011721 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 96563011722 tetramer interface [polypeptide binding]; other site 96563011723 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563011724 catalytic residue [active] 96563011725 Ion transport protein; Region: Ion_trans; pfam00520 96563011726 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 96563011727 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96563011728 active site 96563011729 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 96563011730 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 96563011731 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96563011732 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 96563011733 dimer interface [polypeptide binding]; other site 96563011734 phosphorylation site [posttranslational modification] 96563011735 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 96563011736 ATP binding site [chemical binding]; other site 96563011737 Mg2+ binding site [ion binding]; other site 96563011738 G-X-G motif; other site 96563011739 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 96563011740 dimer interface [polypeptide binding]; other site 96563011741 substrate binding site [chemical binding]; other site 96563011742 ATP binding site [chemical binding]; other site 96563011743 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 96563011744 thiamine phosphate binding site [chemical binding]; other site 96563011745 active site 96563011746 pyrophosphate binding site [ion binding]; other site 96563011747 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 96563011748 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 96563011749 inhibitor-cofactor binding pocket; inhibition site 96563011750 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563011751 catalytic residue [active] 96563011752 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 96563011753 Sel1-like repeats; Region: SEL1; smart00671 96563011754 Sel1-like repeats; Region: SEL1; smart00671 96563011755 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 96563011756 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 96563011757 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 96563011758 FeS/SAM binding site; other site 96563011759 TRAM domain; Region: TRAM; pfam01938 96563011760 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 96563011761 PhoH-like protein; Region: PhoH; pfam02562 96563011762 metal-binding heat shock protein; Provisional; Region: PRK00016 96563011763 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 96563011764 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 96563011765 Transporter associated domain; Region: CorC_HlyC; smart01091 96563011766 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 96563011767 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 96563011768 putative active site [active] 96563011769 catalytic triad [active] 96563011770 putative dimer interface [polypeptide binding]; other site 96563011771 Uncharacterized conserved protein [Function unknown]; Region: COG1434 96563011772 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 96563011773 putative active site [active] 96563011774 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 96563011775 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 96563011776 HIGH motif; other site 96563011777 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 96563011778 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 96563011779 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 96563011780 active site 96563011781 KMSKS motif; other site 96563011782 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 96563011783 tRNA binding surface [nucleotide binding]; other site 96563011784 Lipopolysaccharide-assembly; Region: LptE; cl01125 96563011785 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 96563011786 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 96563011787 Domain of unknown function; Region: DUF331; cl01149 96563011788 Transglycosylase SLT domain; Region: SLT_2; pfam13406 96563011789 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 96563011790 N-acetyl-D-glucosamine binding site [chemical binding]; other site 96563011791 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 96563011792 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 96563011793 Transposase; Region: DDE_Tnp_ISL3; pfam01610 96563011794 lipoyl synthase; Provisional; Region: PRK05481 96563011795 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 96563011796 FeS/SAM binding site; other site 96563011797 lipoate-protein ligase B; Provisional; Region: PRK14342 96563011798 hypothetical protein; Provisional; Region: PRK00341 96563011799 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 96563011800 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 96563011801 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 96563011802 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 96563011803 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 96563011804 Sporulation related domain; Region: SPOR; pfam05036 96563011805 Transglycosylase SLT domain; Region: SLT_2; pfam13406 96563011806 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 96563011807 N-acetyl-D-glucosamine binding site [chemical binding]; other site 96563011808 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 96563011809 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 96563011810 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 96563011811 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 96563011812 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 96563011813 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 96563011814 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 96563011815 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 96563011816 active site 96563011817 (T/H)XGH motif; other site 96563011818 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 96563011819 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 96563011820 putative catalytic cysteine [active] 96563011821 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 96563011822 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 96563011823 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 96563011824 active site 96563011825 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 96563011826 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 96563011827 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 96563011828 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 96563011829 putative active site [active] 96563011830 putative catalytic site [active] 96563011831 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 96563011832 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 96563011833 MORN repeat; Region: MORN; cl14787 96563011834 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 96563011835 Peptidase C13 family; Region: Peptidase_C13; cl02159 96563011836 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 96563011837 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 96563011838 NAD binding site [chemical binding]; other site 96563011839 active site 96563011840 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 96563011841 catalytic site [active] 96563011842 putative active site [active] 96563011843 putative substrate binding site [chemical binding]; other site 96563011844 dimer interface [polypeptide binding]; other site 96563011845 Methyltransferase domain; Region: Methyltransf_18; pfam12847 96563011846 S-adenosylmethionine binding site [chemical binding]; other site 96563011847 GTPase RsgA; Reviewed; Region: PRK12288 96563011848 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 96563011849 RNA binding site [nucleotide binding]; other site 96563011850 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 96563011851 GTPase/Zn-binding domain interface [polypeptide binding]; other site 96563011852 GTP/Mg2+ binding site [chemical binding]; other site 96563011853 G4 box; other site 96563011854 G5 box; other site 96563011855 G1 box; other site 96563011856 Switch I region; other site 96563011857 G2 box; other site 96563011858 G3 box; other site 96563011859 Switch II region; other site 96563011860 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 96563011861 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 96563011862 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 96563011863 ligand binding site [chemical binding]; other site 96563011864 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 96563011865 flagellar motor protein MotA; Validated; Region: PRK09110 96563011866 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 96563011867 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 96563011868 active site residue [active] 96563011869 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 96563011870 active site residue [active] 96563011871 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 96563011872 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563011873 active site 96563011874 phosphorylation site [posttranslational modification] 96563011875 intermolecular recognition site; other site 96563011876 dimerization interface [polypeptide binding]; other site 96563011877 PAS domain; Region: PAS_8; pfam13188 96563011878 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 96563011879 putative active site [active] 96563011880 heme pocket [chemical binding]; other site 96563011881 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563011882 metal binding site [ion binding]; metal-binding site 96563011883 active site 96563011884 I-site; other site 96563011885 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 96563011886 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 96563011887 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 96563011888 tetramer interface [polypeptide binding]; other site 96563011889 catalytic Zn binding site [ion binding]; other site 96563011890 NADP binding site [chemical binding]; other site 96563011891 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 96563011892 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 96563011893 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 96563011894 phosphoserine phosphatase SerB; Region: serB; TIGR00338 96563011895 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 96563011896 motif II; other site 96563011897 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 96563011898 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 96563011899 Protein of unknown function (DUF330); Region: DUF330; pfam03886 96563011900 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 96563011901 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 96563011902 CAP-like domain; other site 96563011903 active site 96563011904 primary dimer interface [polypeptide binding]; other site 96563011905 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 96563011906 catalytic motif [active] 96563011907 Catalytic residue [active] 96563011908 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 96563011909 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 96563011910 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 96563011911 ATP binding site [chemical binding]; other site 96563011912 Mg2+ binding site [ion binding]; other site 96563011913 G-X-G motif; other site 96563011914 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 96563011915 anchoring element; other site 96563011916 dimer interface [polypeptide binding]; other site 96563011917 ATP binding site [chemical binding]; other site 96563011918 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 96563011919 active site 96563011920 metal binding site [ion binding]; metal-binding site 96563011921 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 96563011922 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 96563011923 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 96563011924 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 96563011925 active site 96563011926 metal binding site [ion binding]; metal-binding site 96563011927 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 96563011928 hexamer interface [polypeptide binding]; other site 96563011929 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 96563011930 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 96563011931 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 96563011932 dimer interface [polypeptide binding]; other site 96563011933 ADP-ribose binding site [chemical binding]; other site 96563011934 active site 96563011935 nudix motif; other site 96563011936 metal binding site [ion binding]; metal-binding site 96563011937 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 96563011938 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 96563011939 ThiC-associated domain; Region: ThiC-associated; pfam13667 96563011940 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 96563011941 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 96563011942 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 96563011943 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 96563011944 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 96563011945 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 96563011946 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 96563011947 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 96563011948 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 96563011949 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 96563011950 active site 96563011951 catalytic tetrad [active] 96563011952 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 96563011953 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 96563011954 putative ribose interaction site [chemical binding]; other site 96563011955 putative ADP binding site [chemical binding]; other site 96563011956 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 96563011957 active site 96563011958 nucleotide binding site [chemical binding]; other site 96563011959 HIGH motif; other site 96563011960 KMSKS motif; other site 96563011961 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 96563011962 Mig-14; Region: Mig-14; pfam07395 96563011963 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 96563011964 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 96563011965 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 96563011966 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 96563011967 Walker A/P-loop; other site 96563011968 ATP binding site [chemical binding]; other site 96563011969 Q-loop/lid; other site 96563011970 ABC transporter signature motif; other site 96563011971 Walker B; other site 96563011972 D-loop; other site 96563011973 H-loop/switch region; other site 96563011974 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 96563011975 active site 96563011976 ATP binding site [chemical binding]; other site 96563011977 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 96563011978 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563011979 Integrase core domain; Region: rve; pfam00665 96563011980 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 96563011981 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 96563011982 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 96563011983 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 96563011984 Walker A motif; other site 96563011985 ATP binding site [chemical binding]; other site 96563011986 Walker B motif; other site 96563011987 Transposase domain (DUF772); Region: DUF772; pfam05598 96563011988 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 96563011989 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 96563011990 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 96563011991 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96563011992 putative ADP-binding pocket [chemical binding]; other site 96563011993 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 96563011994 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 96563011995 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 96563011996 active site 96563011997 ATP binding site [chemical binding]; other site 96563011998 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 96563011999 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 96563012000 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 96563012001 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96563012002 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 96563012003 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 96563012004 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 96563012005 putative active site [active] 96563012006 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 96563012007 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 96563012008 putative active site [active] 96563012009 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 96563012010 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 96563012011 homodimer interface [polypeptide binding]; other site 96563012012 substrate-cofactor binding pocket; other site 96563012013 catalytic residue [active] 96563012014 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 96563012015 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 96563012016 metal binding triad; other site 96563012017 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 96563012018 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 96563012019 metal binding triad; other site 96563012020 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 96563012021 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 96563012022 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 96563012023 dimer interface [polypeptide binding]; other site 96563012024 TPP-binding site [chemical binding]; other site 96563012025 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 96563012026 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 96563012027 E3 interaction surface; other site 96563012028 lipoyl attachment site [posttranslational modification]; other site 96563012029 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 96563012030 E3 interaction surface; other site 96563012031 lipoyl attachment site [posttranslational modification]; other site 96563012032 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 96563012033 E3 interaction surface; other site 96563012034 lipoyl attachment site [posttranslational modification]; other site 96563012035 e3 binding domain; Region: E3_binding; pfam02817 96563012036 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 96563012037 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 96563012038 GAF domain; Region: GAF; pfam01590 96563012039 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 96563012040 PAS domain; Region: PAS_9; pfam13426 96563012041 putative active site [active] 96563012042 heme pocket [chemical binding]; other site 96563012043 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563012044 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563012045 metal binding site [ion binding]; metal-binding site 96563012046 active site 96563012047 I-site; other site 96563012048 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 96563012049 methionine sulfoxide reductase A; Provisional; Region: PRK00058 96563012050 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 96563012051 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 96563012052 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96563012053 active site 96563012054 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 96563012055 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563012056 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563012057 metal binding site [ion binding]; metal-binding site 96563012058 active site 96563012059 I-site; other site 96563012060 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 96563012061 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 96563012062 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96563012063 active site 96563012064 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 96563012065 AAA domain; Region: AAA_26; pfam13500 96563012066 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 96563012067 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 96563012068 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 96563012069 S-adenosylmethionine binding site [chemical binding]; other site 96563012070 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 96563012071 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 96563012072 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 96563012073 substrate-cofactor binding pocket; other site 96563012074 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563012075 catalytic residue [active] 96563012076 biotin synthase; Provisional; Region: PRK15108 96563012077 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 96563012078 FeS/SAM binding site; other site 96563012079 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 96563012080 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 96563012081 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 96563012082 active site 96563012083 serine/threonine protein kinase; Provisional; Region: PRK11768 96563012084 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 96563012085 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 96563012086 Nitronate monooxygenase; Region: NMO; pfam03060 96563012087 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 96563012088 FMN binding site [chemical binding]; other site 96563012089 substrate binding site [chemical binding]; other site 96563012090 putative catalytic residue [active] 96563012091 beta-carotene hydroxylase; Region: PLN02601 96563012092 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 96563012093 active site lid residues [active] 96563012094 substrate binding pocket [chemical binding]; other site 96563012095 catalytic residues [active] 96563012096 substrate-Mg2+ binding site; other site 96563012097 aspartate-rich region 1; other site 96563012098 aspartate-rich region 2; other site 96563012099 phytoene desaturase; Region: crtI_fam; TIGR02734 96563012100 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 96563012101 lycopene cyclase family protein; Region: carotene-cycl; TIGR01790 96563012102 lycopene cyclase; Region: lycopene_cycl; TIGR01789 96563012103 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 96563012104 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 96563012105 active site 96563012106 TDP-binding site; other site 96563012107 acceptor substrate-binding pocket; other site 96563012108 homodimer interface [polypeptide binding]; other site 96563012109 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 96563012110 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 96563012111 homotetramer interface [polypeptide binding]; other site 96563012112 FMN binding site [chemical binding]; other site 96563012113 homodimer contacts [polypeptide binding]; other site 96563012114 putative active site [active] 96563012115 putative substrate binding site [chemical binding]; other site 96563012116 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 96563012117 substrate binding pocket [chemical binding]; other site 96563012118 substrate-Mg2+ binding site; other site 96563012119 aspartate-rich region 1; other site 96563012120 aspartate-rich region 2; other site 96563012121 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 96563012122 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 96563012123 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96563012124 active site 96563012125 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 96563012126 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 96563012127 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 96563012128 TrkA-C domain; Region: TrkA_C; pfam02080 96563012129 Transporter associated domain; Region: CorC_HlyC; smart01091 96563012130 hypothetical protein; Provisional; Region: PRK11281 96563012131 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 96563012132 Mechanosensitive ion channel; Region: MS_channel; pfam00924 96563012133 Uncharacterized conserved protein [Function unknown]; Region: COG0397 96563012134 hypothetical protein; Validated; Region: PRK00029 96563012135 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563012136 Response regulator receiver domain; Region: Response_reg; pfam00072 96563012137 active site 96563012138 phosphorylation site [posttranslational modification] 96563012139 intermolecular recognition site; other site 96563012140 dimerization interface [polypeptide binding]; other site 96563012141 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96563012142 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 96563012143 dimer interface [polypeptide binding]; other site 96563012144 phosphorylation site [posttranslational modification] 96563012145 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 96563012146 ATP binding site [chemical binding]; other site 96563012147 Mg2+ binding site [ion binding]; other site 96563012148 G-X-G motif; other site 96563012149 CheB methylesterase; Region: CheB_methylest; pfam01339 96563012150 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 96563012151 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 96563012152 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 96563012153 CHASE3 domain; Region: CHASE3; pfam05227 96563012154 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 96563012155 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 96563012156 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96563012157 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 96563012158 dimer interface [polypeptide binding]; other site 96563012159 phosphorylation site [posttranslational modification] 96563012160 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 96563012161 ATP binding site [chemical binding]; other site 96563012162 Mg2+ binding site [ion binding]; other site 96563012163 G-X-G motif; other site 96563012164 Response regulator receiver domain; Region: Response_reg; pfam00072 96563012165 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563012166 active site 96563012167 phosphorylation site [posttranslational modification] 96563012168 intermolecular recognition site; other site 96563012169 dimerization interface [polypeptide binding]; other site 96563012170 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96563012171 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563012172 active site 96563012173 phosphorylation site [posttranslational modification] 96563012174 intermolecular recognition site; other site 96563012175 Response regulator receiver domain; Region: Response_reg; pfam00072 96563012176 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563012177 active site 96563012178 phosphorylation site [posttranslational modification] 96563012179 intermolecular recognition site; other site 96563012180 dimerization interface [polypeptide binding]; other site 96563012181 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 96563012182 short chain dehydrogenase; Provisional; Region: PRK07109 96563012183 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 96563012184 putative NAD(P) binding site [chemical binding]; other site 96563012185 active site 96563012186 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 96563012187 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 96563012188 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 96563012189 dimer interface [polypeptide binding]; other site 96563012190 active site residues [active] 96563012191 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 96563012192 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 96563012193 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 96563012194 Water Stress and Hypersensitive response; Region: WHy; smart00769 96563012195 Transcriptional regulators [Transcription]; Region: PurR; COG1609 96563012196 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 96563012197 DNA binding site [nucleotide binding] 96563012198 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 96563012199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96563012200 active site 96563012201 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 96563012202 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 96563012203 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 96563012204 DctM-like transporters; Region: DctM; pfam06808 96563012205 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 96563012206 EamA-like transporter family; Region: EamA; pfam00892 96563012207 Transcriptional regulators [Transcription]; Region: FadR; COG2186 96563012208 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 96563012209 DNA-binding site [nucleotide binding]; DNA binding site 96563012210 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 96563012211 Trehalase; Region: Trehalase; cl17346 96563012212 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 96563012213 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96563012214 NAD(P) binding site [chemical binding]; other site 96563012215 active site 96563012216 Predicted permeases [General function prediction only]; Region: RarD; COG2962 96563012217 EamA-like transporter family; Region: EamA; pfam00892 96563012218 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 96563012219 ACT domain; Region: ACT_6; pfam13740 96563012220 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 96563012221 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 96563012222 active site 96563012223 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 96563012224 Transposase; Region: DDE_Tnp_ISL3; pfam01610 96563012225 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 96563012226 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 96563012227 ligand binding site [chemical binding]; other site 96563012228 flexible hinge region; other site 96563012229 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 96563012230 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 96563012231 metal binding triad; other site 96563012232 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 96563012233 active site 96563012234 catalytic site [active] 96563012235 substrate binding site [chemical binding]; other site 96563012236 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 96563012237 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 96563012238 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 96563012239 Na binding site [ion binding]; other site 96563012240 Transposase domain (DUF772); Region: DUF772; pfam05598 96563012241 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 96563012242 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 96563012243 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 96563012244 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 96563012245 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 96563012246 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 96563012247 ATP binding site [chemical binding]; other site 96563012248 Mg++ binding site [ion binding]; other site 96563012249 motif III; other site 96563012250 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 96563012251 nucleotide binding region [chemical binding]; other site 96563012252 ATP-binding site [chemical binding]; other site 96563012253 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 96563012254 putative RNA binding site [nucleotide binding]; other site 96563012255 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 96563012256 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 96563012257 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 96563012258 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 96563012259 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 96563012260 substrate binding pocket [chemical binding]; other site 96563012261 membrane-bound complex binding site; other site 96563012262 hinge residues; other site 96563012263 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 96563012264 HI0933-like protein; Region: HI0933_like; pfam03486 96563012265 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 96563012266 heme-binding site [chemical binding]; other site 96563012267 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 96563012268 PAS fold; Region: PAS_3; pfam08447 96563012269 putative active site [active] 96563012270 heme pocket [chemical binding]; other site 96563012271 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563012272 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563012273 metal binding site [ion binding]; metal-binding site 96563012274 active site 96563012275 I-site; other site 96563012276 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 96563012277 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 96563012278 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 96563012279 Methyltransferase domain; Region: Methyltransf_23; pfam13489 96563012280 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 96563012281 S-adenosylmethionine binding site [chemical binding]; other site 96563012282 Response regulator receiver domain; Region: Response_reg; pfam00072 96563012283 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563012284 active site 96563012285 phosphorylation site [posttranslational modification] 96563012286 intermolecular recognition site; other site 96563012287 dimerization interface [polypeptide binding]; other site 96563012288 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 96563012289 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 96563012290 intersubunit interface [polypeptide binding]; other site 96563012291 active site 96563012292 zinc binding site [ion binding]; other site 96563012293 Na+ binding site [ion binding]; other site 96563012294 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 96563012295 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 96563012296 Phosphoglycerate kinase; Region: PGK; pfam00162 96563012297 substrate binding site [chemical binding]; other site 96563012298 hinge regions; other site 96563012299 ADP binding site [chemical binding]; other site 96563012300 catalytic site [active] 96563012301 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 96563012302 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 96563012303 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 96563012304 transketolase; Reviewed; Region: PRK12753 96563012305 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 96563012306 TPP-binding site [chemical binding]; other site 96563012307 dimer interface [polypeptide binding]; other site 96563012308 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 96563012309 PYR/PP interface [polypeptide binding]; other site 96563012310 dimer interface [polypeptide binding]; other site 96563012311 TPP binding site [chemical binding]; other site 96563012312 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 96563012313 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 96563012314 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563012315 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 96563012316 dimerization interface [polypeptide binding]; other site 96563012317 substrate binding pocket [chemical binding]; other site 96563012318 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 96563012319 substrate binding pocket [chemical binding]; other site 96563012320 active site 96563012321 iron coordination sites [ion binding]; other site 96563012322 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 96563012323 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 96563012324 putative DNA binding site [nucleotide binding]; other site 96563012325 putative Zn2+ binding site [ion binding]; other site 96563012326 Methyltransferase domain; Region: Methyltransf_31; pfam13847 96563012327 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 96563012328 S-adenosylmethionine binding site [chemical binding]; other site 96563012329 S-adenosylmethionine synthetase; Validated; Region: PRK05250 96563012330 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 96563012331 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 96563012332 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 96563012333 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 96563012334 ABC-2 type transporter; Region: ABC2_membrane; cl17235 96563012335 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 96563012336 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 96563012337 Walker A/P-loop; other site 96563012338 ATP binding site [chemical binding]; other site 96563012339 Q-loop/lid; other site 96563012340 ABC transporter signature motif; other site 96563012341 Walker B; other site 96563012342 D-loop; other site 96563012343 H-loop/switch region; other site 96563012344 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 96563012345 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 96563012346 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 96563012347 FAD binding pocket [chemical binding]; other site 96563012348 FAD binding motif [chemical binding]; other site 96563012349 phosphate binding motif [ion binding]; other site 96563012350 beta-alpha-beta structure motif; other site 96563012351 NAD binding pocket [chemical binding]; other site 96563012352 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 96563012353 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 96563012354 nucleotide binding pocket [chemical binding]; other site 96563012355 K-X-D-G motif; other site 96563012356 catalytic site [active] 96563012357 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 96563012358 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 96563012359 Cytochrome C' Region: Cytochrom_C_2; pfam01322 96563012360 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 96563012361 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 96563012362 homotetramer interface [polypeptide binding]; other site 96563012363 ligand binding site [chemical binding]; other site 96563012364 catalytic site [active] 96563012365 NAD binding site [chemical binding]; other site 96563012366 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 96563012367 FAD binding site [chemical binding]; other site 96563012368 DEAD-like helicases superfamily; Region: DEXDc; smart00487 96563012369 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 96563012370 ATP binding site [chemical binding]; other site 96563012371 Mg++ binding site [ion binding]; other site 96563012372 motif III; other site 96563012373 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 96563012374 nucleotide binding region [chemical binding]; other site 96563012375 ATP-binding site [chemical binding]; other site 96563012376 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 96563012377 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 96563012378 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 96563012379 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 96563012380 HlyD family secretion protein; Region: HlyD_3; pfam13437 96563012381 hypothetical protein; Provisional; Region: PRK03757 96563012382 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 96563012383 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 96563012384 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 96563012385 inhibitor-cofactor binding pocket; inhibition site 96563012386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563012387 catalytic residue [active] 96563012388 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 96563012389 RNA methyltransferase, RsmE family; Region: TIGR00046 96563012390 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 96563012391 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 96563012392 CheB methylesterase; Region: CheB_methylest; pfam01339 96563012393 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 96563012394 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 96563012395 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 96563012396 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 96563012397 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96563012398 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563012399 dimer interface [polypeptide binding]; other site 96563012400 putative CheW interface [polypeptide binding]; other site 96563012401 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 96563012402 putative CheA interaction surface; other site 96563012403 Response regulator receiver domain; Region: Response_reg; pfam00072 96563012404 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563012405 active site 96563012406 phosphorylation site [posttranslational modification] 96563012407 intermolecular recognition site; other site 96563012408 dimerization interface [polypeptide binding]; other site 96563012409 Response regulator receiver domain; Region: Response_reg; pfam00072 96563012410 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563012411 active site 96563012412 phosphorylation site [posttranslational modification] 96563012413 intermolecular recognition site; other site 96563012414 dimerization interface [polypeptide binding]; other site 96563012415 glutathione synthetase; Provisional; Region: PRK05246 96563012416 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 96563012417 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 96563012418 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 96563012419 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 96563012420 hypothetical protein; Validated; Region: PRK00228 96563012421 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 96563012422 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 96563012423 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 96563012424 active site 96563012425 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 96563012426 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 96563012427 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 96563012428 dihydroorotase; Validated; Region: pyrC; PRK09357 96563012429 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 96563012430 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 96563012431 active site 96563012432 TM2 domain; Region: TM2; cl00984 96563012433 TM2 domain; Region: TM2; cl00984 96563012434 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 96563012435 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 96563012436 FeS/SAM binding site; other site 96563012437 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 96563012438 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 96563012439 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 96563012440 Walker A motif; other site 96563012441 ATP binding site [chemical binding]; other site 96563012442 Walker B motif; other site 96563012443 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 96563012444 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 96563012445 catalytic residue [active] 96563012446 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 96563012447 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 96563012448 YGGT family; Region: YGGT; pfam02325 96563012449 YGGT family; Region: YGGT; pfam02325 96563012450 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 96563012451 Dynamin family; Region: Dynamin_N; pfam00350 96563012452 G1 box; other site 96563012453 GTP/Mg2+ binding site [chemical binding]; other site 96563012454 G2 box; other site 96563012455 Switch I region; other site 96563012456 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 96563012457 G3 box; other site 96563012458 Switch II region; other site 96563012459 GTP/Mg2+ binding site [chemical binding]; other site 96563012460 G4 box; other site 96563012461 G5 box; other site 96563012462 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 96563012463 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 96563012464 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 96563012465 S-adenosylmethionine binding site [chemical binding]; other site 96563012466 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 96563012467 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 96563012468 active site 96563012469 dimerization interface [polypeptide binding]; other site 96563012470 HemN family oxidoreductase; Provisional; Region: PRK05660 96563012471 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 96563012472 FeS/SAM binding site; other site 96563012473 HemN C-terminal domain; Region: HemN_C; pfam06969 96563012474 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 96563012475 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 96563012476 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 96563012477 S-adenosylmethionine binding site [chemical binding]; other site 96563012478 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 96563012479 ThiS interaction site; other site 96563012480 putative active site [active] 96563012481 tetramer interface [polypeptide binding]; other site 96563012482 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 96563012483 thiS-thiF/thiG interaction site; other site 96563012484 Protein of unknown function (DUF423); Region: DUF423; pfam04241 96563012485 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 96563012486 Transglycosylase; Region: Transgly; cl17702 96563012487 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 96563012488 PAS domain; Region: PAS_9; pfam13426 96563012489 putative active site [active] 96563012490 heme pocket [chemical binding]; other site 96563012491 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563012492 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563012493 metal binding site [ion binding]; metal-binding site 96563012494 active site 96563012495 I-site; other site 96563012496 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 96563012497 CHASE domain; Region: CHASE; pfam03924 96563012498 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 96563012499 PAS fold; Region: PAS_3; pfam08447 96563012500 putative active site [active] 96563012501 heme pocket [chemical binding]; other site 96563012502 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 96563012503 dimer interface [polypeptide binding]; other site 96563012504 phosphorylation site [posttranslational modification] 96563012505 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 96563012506 ATP binding site [chemical binding]; other site 96563012507 Mg2+ binding site [ion binding]; other site 96563012508 G-X-G motif; other site 96563012509 Response regulator receiver domain; Region: Response_reg; pfam00072 96563012510 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563012511 active site 96563012512 phosphorylation site [posttranslational modification] 96563012513 intermolecular recognition site; other site 96563012514 dimerization interface [polypeptide binding]; other site 96563012515 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 96563012516 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 96563012517 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 96563012518 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 96563012519 DNA binding residues [nucleotide binding] 96563012520 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 96563012521 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 96563012522 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 96563012523 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96563012524 Walker A/P-loop; other site 96563012525 ATP binding site [chemical binding]; other site 96563012526 Q-loop/lid; other site 96563012527 ABC transporter signature motif; other site 96563012528 Walker B; other site 96563012529 D-loop; other site 96563012530 H-loop/switch region; other site 96563012531 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 96563012532 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 96563012533 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 96563012534 P loop; other site 96563012535 GTP binding site [chemical binding]; other site 96563012536 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 96563012537 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 96563012538 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 96563012539 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 96563012540 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 96563012541 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 96563012542 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 96563012543 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 96563012544 S-adenosylmethionine binding site [chemical binding]; other site 96563012545 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 96563012546 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 96563012547 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 96563012548 HlyD family secretion protein; Region: HlyD_3; pfam13437 96563012549 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 96563012550 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 96563012551 DXD motif; other site 96563012552 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563012553 active site 96563012554 I-site; other site 96563012555 metal binding site [ion binding]; metal-binding site 96563012556 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96563012557 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96563012558 Bacterial transcriptional repressor; Region: TetR; pfam13972 96563012559 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 96563012560 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 96563012561 NAD(P) binding site [chemical binding]; other site 96563012562 catalytic residues [active] 96563012563 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 96563012564 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 96563012565 dehydrogenase, Rv0697 family; Region: Rv0697; TIGR03970 96563012566 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 96563012567 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 96563012568 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 96563012569 active site 96563012570 (T/H)XGH motif; other site 96563012571 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 96563012572 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 96563012573 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 96563012574 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 96563012575 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 96563012576 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 96563012577 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 96563012578 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 96563012579 DNA binding site [nucleotide binding] 96563012580 catalytic residue [active] 96563012581 H2TH interface [polypeptide binding]; other site 96563012582 putative catalytic residues [active] 96563012583 turnover-facilitating residue; other site 96563012584 intercalation triad [nucleotide binding]; other site 96563012585 8OG recognition residue [nucleotide binding]; other site 96563012586 putative reading head residues; other site 96563012587 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 96563012588 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 96563012589 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 96563012590 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 96563012591 intracellular protease, PfpI family; Region: PfpI; TIGR01382 96563012592 proposed catalytic triad [active] 96563012593 conserved cys residue [active] 96563012594 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 96563012595 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 96563012596 putative RNA binding site [nucleotide binding]; other site 96563012597 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 96563012598 S-adenosylmethionine binding site [chemical binding]; other site 96563012599 chlorophyllase; Region: PLN00021 96563012600 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 96563012601 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 96563012602 Predicted dehydrogenase [General function prediction only]; Region: COG0579 96563012603 hydroxyglutarate oxidase; Provisional; Region: PRK11728 96563012604 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 96563012605 active site 96563012606 metal binding site [ion binding]; metal-binding site 96563012607 homotetramer interface [polypeptide binding]; other site 96563012608 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 96563012609 Uncharacterized conserved protein [Function unknown]; Region: COG1284 96563012610 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 96563012611 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 96563012612 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 96563012613 folate binding site [chemical binding]; other site 96563012614 NADP+ binding site [chemical binding]; other site 96563012615 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 96563012616 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 96563012617 putative active site [active] 96563012618 catalytic site [active] 96563012619 putative metal binding site [ion binding]; other site 96563012620 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 96563012621 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 96563012622 G1 box; other site 96563012623 GTP/Mg2+ binding site [chemical binding]; other site 96563012624 G2 box; other site 96563012625 Switch I region; other site 96563012626 G3 box; other site 96563012627 Switch II region; other site 96563012628 G4 box; other site 96563012629 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 96563012630 EamA-like transporter family; Region: EamA; pfam00892 96563012631 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 96563012632 EamA-like transporter family; Region: EamA; pfam00892 96563012633 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563012634 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563012635 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 96563012636 putative effector binding pocket; other site 96563012637 dimerization interface [polypeptide binding]; other site 96563012638 transcriptional regulator PhoU; Provisional; Region: PRK11115 96563012639 PhoU domain; Region: PhoU; pfam01895 96563012640 PhoU domain; Region: PhoU; pfam01895 96563012641 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 96563012642 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 96563012643 Walker A/P-loop; other site 96563012644 ATP binding site [chemical binding]; other site 96563012645 Q-loop/lid; other site 96563012646 ABC transporter signature motif; other site 96563012647 Walker B; other site 96563012648 D-loop; other site 96563012649 H-loop/switch region; other site 96563012650 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 96563012651 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 96563012652 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563012653 dimer interface [polypeptide binding]; other site 96563012654 conserved gate region; other site 96563012655 putative PBP binding loops; other site 96563012656 ABC-ATPase subunit interface; other site 96563012657 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 96563012658 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563012659 dimer interface [polypeptide binding]; other site 96563012660 conserved gate region; other site 96563012661 putative PBP binding loops; other site 96563012662 ABC-ATPase subunit interface; other site 96563012663 PBP superfamily domain; Region: PBP_like_2; cl17296 96563012664 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 96563012665 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 96563012666 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563012667 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563012668 metal binding site [ion binding]; metal-binding site 96563012669 active site 96563012670 I-site; other site 96563012671 Predicted permeases [General function prediction only]; Region: COG0679 96563012672 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 96563012673 AAA domain; Region: AAA_30; pfam13604 96563012674 Family description; Region: UvrD_C_2; pfam13538 96563012675 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 96563012676 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 96563012677 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 96563012678 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 96563012679 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 96563012680 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 96563012681 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 96563012682 PhoU domain; Region: PhoU; pfam01895 96563012683 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 96563012684 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 96563012685 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 96563012686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 96563012687 outer membrane porin, OprD family; Region: OprD; pfam03573 96563012688 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 96563012689 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563012690 active site 96563012691 phosphorylation site [posttranslational modification] 96563012692 intermolecular recognition site; other site 96563012693 dimerization interface [polypeptide binding]; other site 96563012694 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 96563012695 DNA binding site [nucleotide binding] 96563012696 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 96563012697 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96563012698 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 96563012699 dimerization interface [polypeptide binding]; other site 96563012700 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 96563012701 dimer interface [polypeptide binding]; other site 96563012702 phosphorylation site [posttranslational modification] 96563012703 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 96563012704 ATP binding site [chemical binding]; other site 96563012705 Mg2+ binding site [ion binding]; other site 96563012706 G-X-G motif; other site 96563012707 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 96563012708 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 96563012709 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563012710 metal binding site [ion binding]; metal-binding site 96563012711 active site 96563012712 I-site; other site 96563012713 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 96563012714 PAS domain; Region: PAS_9; pfam13426 96563012715 putative active site [active] 96563012716 heme pocket [chemical binding]; other site 96563012717 PAS domain; Region: PAS_9; pfam13426 96563012718 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 96563012719 putative active site [active] 96563012720 heme pocket [chemical binding]; other site 96563012721 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96563012722 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563012723 dimer interface [polypeptide binding]; other site 96563012724 putative CheW interface [polypeptide binding]; other site 96563012725 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 96563012726 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 96563012727 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 96563012728 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 96563012729 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 96563012730 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 96563012731 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 96563012732 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 96563012733 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 96563012734 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563012735 active site 96563012736 phosphorylation site [posttranslational modification] 96563012737 intermolecular recognition site; other site 96563012738 dimerization interface [polypeptide binding]; other site 96563012739 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 96563012740 Walker A motif; other site 96563012741 ATP binding site [chemical binding]; other site 96563012742 Walker B motif; other site 96563012743 arginine finger; other site 96563012744 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96563012745 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 96563012746 dimerization interface [polypeptide binding]; other site 96563012747 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 96563012748 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 96563012749 putative active site [active] 96563012750 heme pocket [chemical binding]; other site 96563012751 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 96563012752 dimer interface [polypeptide binding]; other site 96563012753 phosphorylation site [posttranslational modification] 96563012754 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 96563012755 ATP binding site [chemical binding]; other site 96563012756 Mg2+ binding site [ion binding]; other site 96563012757 G-X-G motif; other site 96563012758 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 96563012759 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 96563012760 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 96563012761 amidase catalytic site [active] 96563012762 Zn binding residues [ion binding]; other site 96563012763 substrate binding site [chemical binding]; other site 96563012764 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 96563012765 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96563012766 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96563012767 metal binding site [ion binding]; metal-binding site 96563012768 active site 96563012769 I-site; other site 96563012770 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 96563012771 putative catalytic site [active] 96563012772 putative phosphate binding site [ion binding]; other site 96563012773 putative metal binding site [ion binding]; other site 96563012774 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 96563012775 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 96563012776 catalytic residues [active] 96563012777 hinge region; other site 96563012778 alpha helical domain; other site 96563012779 Cytochrome c553 [Energy production and conversion]; Region: COG2863 96563012780 Cytochrome c; Region: Cytochrom_C; cl11414 96563012781 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 96563012782 G1 box; other site 96563012783 GTP/Mg2+ binding site [chemical binding]; other site 96563012784 Switch I region; other site 96563012785 G2 box; other site 96563012786 G3 box; other site 96563012787 Switch II region; other site 96563012788 G4 box; other site 96563012789 G5 box; other site 96563012790 glycine dehydrogenase; Provisional; Region: PRK12566 96563012791 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 96563012792 tetramer interface [polypeptide binding]; other site 96563012793 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563012794 catalytic residue [active] 96563012795 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 96563012796 tetramer interface [polypeptide binding]; other site 96563012797 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96563012798 catalytic residue [active] 96563012799 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 96563012800 lipoyl attachment site [posttranslational modification]; other site 96563012801 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 96563012802 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 96563012803 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 96563012804 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563012805 dimer interface [polypeptide binding]; other site 96563012806 conserved gate region; other site 96563012807 putative PBP binding loops; other site 96563012808 ABC-ATPase subunit interface; other site 96563012809 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 96563012810 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 96563012811 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 96563012812 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 96563012813 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 96563012814 active site 2 [active] 96563012815 active site 1 [active] 96563012816 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 96563012817 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 96563012818 proline aminopeptidase P II; Provisional; Region: PRK10879 96563012819 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 96563012820 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 96563012821 active site 96563012822 hypothetical protein; Reviewed; Region: PRK02166 96563012823 TIGR02449 family protein; Region: TIGR02449 96563012824 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 96563012825 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 96563012826 Uncharacterized conserved protein [Function unknown]; Region: COG2947 96563012827 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 96563012828 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 96563012829 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 96563012830 NAD(P) binding site [chemical binding]; other site 96563012831 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 96563012832 SecA binding site; other site 96563012833 Preprotein binding site; other site 96563012834 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 96563012835 GSH binding site [chemical binding]; other site 96563012836 catalytic residues [active] 96563012837 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 96563012838 active site residue [active] 96563012839 phosphoglyceromutase; Provisional; Region: PRK05434 96563012840 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 96563012841 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 96563012842 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 96563012843 Peptidase family M23; Region: Peptidase_M23; pfam01551 96563012844 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 96563012845 C-terminal peptidase (prc); Region: prc; TIGR00225 96563012846 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 96563012847 protein binding site [polypeptide binding]; other site 96563012848 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 96563012849 Catalytic dyad [active] 96563012850 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 96563012851 NodB motif; other site 96563012852 putative active site [active] 96563012853 putative catalytic site [active] 96563012854 Zn binding site [ion binding]; other site 96563012855 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 96563012856 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 96563012857 substrate binding pocket [chemical binding]; other site 96563012858 membrane-bound complex binding site; other site 96563012859 hinge residues; other site 96563012860 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 96563012861 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 96563012862 substrate binding pocket [chemical binding]; other site 96563012863 membrane-bound complex binding site; other site 96563012864 hinge residues; other site 96563012865 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 96563012866 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 96563012867 substrate binding site [chemical binding]; other site 96563012868 glutamase interaction surface [polypeptide binding]; other site 96563012869 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 96563012870 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 96563012871 catalytic residues [active] 96563012872 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 96563012873 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 96563012874 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 96563012875 putative active site [active] 96563012876 oxyanion strand; other site 96563012877 catalytic triad [active] 96563012878 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 96563012879 putative active site pocket [active] 96563012880 4-fold oligomerization interface [polypeptide binding]; other site 96563012881 metal binding residues [ion binding]; metal-binding site 96563012882 3-fold/trimer interface [polypeptide binding]; other site 96563012883 Nitrate and nitrite sensing; Region: NIT; pfam08376 96563012884 ANTAR domain; Region: ANTAR; pfam03861 96563012885 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 96563012886 Transposase; Region: DDE_Tnp_ISL3; pfam01610 96563012887 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 96563012888 NMT1-like family; Region: NMT1_2; pfam13379 96563012889 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 96563012890 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563012891 dimer interface [polypeptide binding]; other site 96563012892 conserved gate region; other site 96563012893 putative PBP binding loops; other site 96563012894 ABC-ATPase subunit interface; other site 96563012895 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 96563012896 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 96563012897 Walker A/P-loop; other site 96563012898 ATP binding site [chemical binding]; other site 96563012899 Q-loop/lid; other site 96563012900 ABC transporter signature motif; other site 96563012901 Walker B; other site 96563012902 D-loop; other site 96563012903 H-loop/switch region; other site 96563012904 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96563012905 Coenzyme A binding pocket [chemical binding]; other site 96563012906 AsmA family; Region: AsmA; pfam05170 96563012907 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 96563012908 adenine DNA glycosylase; Provisional; Region: PRK10880 96563012909 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 96563012910 minor groove reading motif; other site 96563012911 helix-hairpin-helix signature motif; other site 96563012912 substrate binding pocket [chemical binding]; other site 96563012913 active site 96563012914 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 96563012915 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 96563012916 DNA binding and oxoG recognition site [nucleotide binding] 96563012917 oxidative damage protection protein; Provisional; Region: PRK05408 96563012918 Staphylococcal nuclease homologues; Region: SNc; smart00318 96563012919 Catalytic site; other site 96563012920 Staphylococcal nuclease homologue; Region: SNase; pfam00565 96563012921 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 96563012922 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 96563012923 substrate binding pocket [chemical binding]; other site 96563012924 membrane-bound complex binding site; other site 96563012925 hinge residues; other site 96563012926 BCCT family transporter; Region: BCCT; cl00569 96563012927 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 96563012928 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 96563012929 Walker A/P-loop; other site 96563012930 ATP binding site [chemical binding]; other site 96563012931 Q-loop/lid; other site 96563012932 ABC transporter signature motif; other site 96563012933 Walker B; other site 96563012934 D-loop; other site 96563012935 H-loop/switch region; other site 96563012936 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 96563012937 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 96563012938 substrate binding pocket [chemical binding]; other site 96563012939 membrane-bound complex binding site; other site 96563012940 hinge residues; other site 96563012941 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 96563012942 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563012943 dimer interface [polypeptide binding]; other site 96563012944 conserved gate region; other site 96563012945 putative PBP binding loops; other site 96563012946 ABC-ATPase subunit interface; other site 96563012947 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 96563012948 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 96563012949 dimer interface [polypeptide binding]; other site 96563012950 conserved gate region; other site 96563012951 putative PBP binding loops; other site 96563012952 ABC-ATPase subunit interface; other site 96563012953 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 96563012954 active site 96563012955 phosphate binding residues; other site 96563012956 catalytic residues [active] 96563012957 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 96563012958 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 96563012959 Protein of unknown function (DUF770); Region: DUF770; pfam05591 96563012960 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 96563012961 Protein of unknown function (DUF877); Region: DUF877; pfam05943 96563012962 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 96563012963 PAAR motif; Region: PAAR_motif; pfam05488 96563012964 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 96563012965 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 96563012966 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 96563012967 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 96563012968 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 96563012969 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 96563012970 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 96563012971 Walker A motif; other site 96563012972 ATP binding site [chemical binding]; other site 96563012973 Walker B motif; other site 96563012974 arginine finger; other site 96563012975 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 96563012976 Walker A motif; other site 96563012977 ATP binding site [chemical binding]; other site 96563012978 Walker B motif; other site 96563012979 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 96563012980 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 96563012981 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 96563012982 Walker A motif; other site 96563012983 ATP binding site [chemical binding]; other site 96563012984 Walker B motif; other site 96563012985 arginine finger; other site 96563012986 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96563012987 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 96563012988 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 96563012989 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 96563012990 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 96563012991 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 96563012992 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 96563012993 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563012994 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563012995 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 96563012996 putative dimerization interface [polypeptide binding]; other site 96563012997 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 96563012998 hydroxyglutarate oxidase; Provisional; Region: PRK11728 96563012999 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 96563013000 dimerization interface [polypeptide binding]; other site 96563013001 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96563013002 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96563013003 dimer interface [polypeptide binding]; other site 96563013004 putative CheW interface [polypeptide binding]; other site 96563013005 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 96563013006 Malonate transporter MadL subunit; Region: MadL; cl04273 96563013007 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 96563013008 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 96563013009 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 96563013010 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 96563013011 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; pfam06833 96563013012 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 96563013013 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 96563013014 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 96563013015 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 96563013016 Coenzyme A transferase; Region: CoA_trans; cl17247 96563013017 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 96563013018 malonic semialdehyde reductase; Provisional; Region: PRK10538 96563013019 putative NAD(P) binding site [chemical binding]; other site 96563013020 homotetramer interface [polypeptide binding]; other site 96563013021 homodimer interface [polypeptide binding]; other site 96563013022 active site 96563013023 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 96563013024 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 96563013025 active site 96563013026 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 96563013027 helix-hairpin-helix signature motif; other site 96563013028 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 96563013029 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 96563013030 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 96563013031 DctM-like transporters; Region: DctM; pfam06808 96563013032 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 96563013033 Ferritin-like domain; Region: Ferritin; pfam00210 96563013034 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 96563013035 dinuclear metal binding motif [ion binding]; other site 96563013036 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 96563013037 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 96563013038 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 96563013039 Dodecin; Region: Dodecin; pfam07311 96563013040 putative S-transferase; Provisional; Region: PRK11752 96563013041 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 96563013042 C-terminal domain interface [polypeptide binding]; other site 96563013043 GSH binding site (G-site) [chemical binding]; other site 96563013044 dimer interface [polypeptide binding]; other site 96563013045 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 96563013046 dimer interface [polypeptide binding]; other site 96563013047 N-terminal domain interface [polypeptide binding]; other site 96563013048 active site 96563013049 Predicted membrane protein [Function unknown]; Region: COG3918 96563013050 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 96563013051 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 96563013052 putative active site [active] 96563013053 putative metal binding site [ion binding]; other site 96563013054 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 96563013055 Predicted acetyltransferase [General function prediction only]; Region: COG2388 96563013056 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins; Region: GAT1_Peptidase_E_like; cd03129 96563013057 catalytic triad [active] 96563013058 active site nucleophile [active] 96563013059 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 96563013060 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 96563013061 Walker A/P-loop; other site 96563013062 ATP binding site [chemical binding]; other site 96563013063 Q-loop/lid; other site 96563013064 ABC transporter signature motif; other site 96563013065 Walker B; other site 96563013066 D-loop; other site 96563013067 H-loop/switch region; other site 96563013068 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 96563013069 Transposase domain (DUF772); Region: DUF772; pfam05598 96563013070 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 96563013071 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 96563013072 Predicted membrane protein [Function unknown]; Region: COG2323 96563013073 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96563013074 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96563013075 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 96563013076 dimerization interface [polypeptide binding]; other site 96563013077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 96563013078 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 96563013079 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 96563013080 phosphoglucomutase; Validated; Region: PRK07564 96563013081 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 96563013082 active site 96563013083 substrate binding site [chemical binding]; other site 96563013084 metal binding site [ion binding]; metal-binding site 96563013085 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 96563013086 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 96563013087 putative NAD(P) binding site [chemical binding]; other site 96563013088 putative substrate binding site [chemical binding]; other site 96563013089 catalytic Zn binding site [ion binding]; other site 96563013090 structural Zn binding site [ion binding]; other site 96563013091 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 96563013092 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 96563013093 putative metal binding site [ion binding]; other site 96563013094 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 96563013095 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 96563013096 trimer interface [polypeptide binding]; other site 96563013097 putative metal binding site [ion binding]; other site 96563013098 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 96563013099 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 96563013100 active site 96563013101 Zn binding site [ion binding]; other site 96563013102 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 96563013103 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 96563013104 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 96563013105 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 96563013106 FeS/SAM binding site; other site 96563013107 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 96563013108 active site clefts [active] 96563013109 zinc binding site [ion binding]; other site 96563013110 dimer interface [polypeptide binding]; other site 96563013111 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 96563013112 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 96563013113 Sulfate transporter family; Region: Sulfate_transp; pfam00916 96563013114 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 96563013115 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 96563013116 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 96563013117 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 96563013118 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 96563013119 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 96563013120 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 96563013121 Subunit I/III interface [polypeptide binding]; other site 96563013122 D-pathway; other site 96563013123 Subunit I/VIIc interface [polypeptide binding]; other site 96563013124 Subunit I/IV interface [polypeptide binding]; other site 96563013125 Subunit I/II interface [polypeptide binding]; other site 96563013126 Low-spin heme (heme a) binding site [chemical binding]; other site 96563013127 Subunit I/VIIa interface [polypeptide binding]; other site 96563013128 Subunit I/VIa interface [polypeptide binding]; other site 96563013129 Dimer interface; other site 96563013130 Putative water exit pathway; other site 96563013131 Binuclear center (heme a3/CuB) [ion binding]; other site 96563013132 K-pathway; other site 96563013133 Subunit I/Vb interface [polypeptide binding]; other site 96563013134 Putative proton exit pathway; other site 96563013135 Subunit I/VIb interface; other site 96563013136 Subunit I/VIc interface [polypeptide binding]; other site 96563013137 Electron transfer pathway; other site 96563013138 Subunit I/VIIIb interface [polypeptide binding]; other site 96563013139 Subunit I/VIIb interface [polypeptide binding]; other site 96563013140 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 96563013141 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 96563013142 Subunit III/VIIa interface [polypeptide binding]; other site 96563013143 Phospholipid binding site [chemical binding]; other site 96563013144 Subunit I/III interface [polypeptide binding]; other site 96563013145 Subunit III/VIb interface [polypeptide binding]; other site 96563013146 Subunit III/VIa interface; other site 96563013147 Subunit III/Vb interface [polypeptide binding]; other site 96563013148 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 96563013149 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 96563013150 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 96563013151 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 96563013152 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 96563013153 UbiA prenyltransferase family; Region: UbiA; pfam01040 96563013154 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 96563013155 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 96563013156 Cu(I) binding site [ion binding]; other site 96563013157 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 96563013158 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 96563013159 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 96563013160 Secretin and TonB N terminus short domain; Region: STN; smart00965 96563013161 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 96563013162 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 96563013163 N-terminal plug; other site 96563013164 ligand-binding site [chemical binding]; other site 96563013165 fec operon regulator FecR; Reviewed; Region: PRK09774 96563013166 FecR protein; Region: FecR; pfam04773 96563013167 RNA polymerase sigma factor; Provisional; Region: PRK12528 96563013168 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 96563013169 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 96563013170 DNA binding residues [nucleotide binding] 96563013171 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 96563013172 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 96563013173 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 96563013174 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 96563013175 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 96563013176 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 96563013177 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 96563013178 GAF domain; Region: GAF; pfam01590 96563013179 Phytochrome region; Region: PHY; pfam00360 96563013180 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 96563013181 dimer interface [polypeptide binding]; other site 96563013182 phosphorylation site [posttranslational modification] 96563013183 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 96563013184 ATP binding site [chemical binding]; other site 96563013185 Mg2+ binding site [ion binding]; other site 96563013186 G-X-G motif; other site 96563013187 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96563013188 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563013189 active site 96563013190 phosphorylation site [posttranslational modification] 96563013191 intermolecular recognition site; other site 96563013192 dimerization interface [polypeptide binding]; other site 96563013193 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96563013194 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563013195 active site 96563013196 phosphorylation site [posttranslational modification] 96563013197 intermolecular recognition site; other site 96563013198 dimerization interface [polypeptide binding]; other site 96563013199 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 96563013200 PAS fold; Region: PAS_3; pfam08447 96563013201 putative active site [active] 96563013202 heme pocket [chemical binding]; other site 96563013203 PAS domain S-box; Region: sensory_box; TIGR00229 96563013204 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 96563013205 putative active site [active] 96563013206 heme pocket [chemical binding]; other site 96563013207 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96563013208 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 96563013209 dimer interface [polypeptide binding]; other site 96563013210 phosphorylation site [posttranslational modification] 96563013211 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 96563013212 ATP binding site [chemical binding]; other site 96563013213 Mg2+ binding site [ion binding]; other site 96563013214 G-X-G motif; other site 96563013215 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96563013216 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 96563013217 active site 96563013218 phosphorylation site [posttranslational modification] 96563013219 intermolecular recognition site; other site 96563013220 dimerization interface [polypeptide binding]; other site 96563013221 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 96563013222 heme binding pocket [chemical binding]; other site 96563013223 heme ligand [chemical binding]; other site 96563013224 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 96563013225 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 96563013226 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 96563013227 protein binding site [polypeptide binding]; other site 96563013228 Peptidase family M48; Region: Peptidase_M48; cl12018 96563013229 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 96563013230 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 96563013231 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 96563013232 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 96563013233 TrkA-N domain; Region: TrkA_N; pfam02254 96563013234 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 96563013235 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 96563013236 catalytic residues [active] 96563013237 FtsH Extracellular; Region: FtsH_ext; pfam06480 96563013238 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 96563013239 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 96563013240 Walker A motif; other site 96563013241 ATP binding site [chemical binding]; other site 96563013242 Walker B motif; other site 96563013243 arginine finger; other site 96563013244 Peptidase family M41; Region: Peptidase_M41; pfam01434 96563013245 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 96563013246 Clp amino terminal domain; Region: Clp_N; pfam02861 96563013247 Clp amino terminal domain; Region: Clp_N; pfam02861 96563013248 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 96563013249 Walker A motif; other site 96563013250 ATP binding site [chemical binding]; other site 96563013251 Walker B motif; other site 96563013252 arginine finger; other site 96563013253 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 96563013254 Walker A motif; other site 96563013255 ATP binding site [chemical binding]; other site 96563013256 Walker B motif; other site 96563013257 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 96563013258 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 96563013259 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 96563013260 putative dimer interface [polypeptide binding]; other site 96563013261 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 96563013262 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 96563013263 TniQ; Region: TniQ; pfam06527 96563013264 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 96563013265 AAA domain; Region: AAA_22; pfam13401 96563013266 Tn7 transposition regulator TnsC; Region: Tn7_TnsC_Int; pfam11426 96563013267 Integrase core domain; Region: rve; pfam00665 96563013268 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 96563013269 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 96563013270 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 96563013271 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 96563013272 glutaminase active site [active] 96563013273 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 96563013274 dimer interface [polypeptide binding]; other site 96563013275 active site 96563013276 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 96563013277 dimer interface [polypeptide binding]; other site 96563013278 active site 96563013279 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 96563013280 putative DNA binding site [nucleotide binding]; other site 96563013281 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 96563013282 putative Zn2+ binding site [ion binding]; other site 96563013283 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 96563013284 LysE type translocator; Region: LysE; cl00565 96563013285 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 96563013286 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 96563013287 Substrate binding site; other site 96563013288 Mg++ binding site; other site 96563013289 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 96563013290 active site 96563013291 substrate binding site [chemical binding]; other site 96563013292 CoA binding site [chemical binding]; other site 96563013293 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 96563013294 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 96563013295 gamma subunit interface [polypeptide binding]; other site 96563013296 epsilon subunit interface [polypeptide binding]; other site 96563013297 LBP interface [polypeptide binding]; other site 96563013298 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 96563013299 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 96563013300 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 96563013301 alpha subunit interaction interface [polypeptide binding]; other site 96563013302 Walker A motif; other site 96563013303 ATP binding site [chemical binding]; other site 96563013304 Walker B motif; other site 96563013305 inhibitor binding site; inhibition site 96563013306 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 96563013307 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 96563013308 core domain interface [polypeptide binding]; other site 96563013309 delta subunit interface [polypeptide binding]; other site 96563013310 epsilon subunit interface [polypeptide binding]; other site 96563013311 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 96563013312 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 96563013313 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 96563013314 beta subunit interaction interface [polypeptide binding]; other site 96563013315 Walker A motif; other site 96563013316 ATP binding site [chemical binding]; other site 96563013317 Walker B motif; other site 96563013318 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 96563013319 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 96563013320 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 96563013321 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 96563013322 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 96563013323 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 96563013324 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 96563013325 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 96563013326 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 96563013327 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 96563013328 ParB-like nuclease domain; Region: ParBc; pfam02195 96563013329 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 96563013330 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 96563013331 P-loop; other site 96563013332 Magnesium ion binding site [ion binding]; other site 96563013333 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 96563013334 Magnesium ion binding site [ion binding]; other site 96563013335 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 96563013336 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 96563013337 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 96563013338 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 96563013339 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 96563013340 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 96563013341 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 96563013342 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 96563013343 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 96563013344 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 96563013345 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 96563013346 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 96563013347 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 96563013348 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 96563013349 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 96563013350 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 96563013351 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 96563013352 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 96563013353 trmE is a tRNA modification GTPase; Region: trmE; cd04164 96563013354 G1 box; other site 96563013355 GTP/Mg2+ binding site [chemical binding]; other site 96563013356 Switch I region; other site 96563013357 G2 box; other site 96563013358 Switch II region; other site 96563013359 G3 box; other site 96563013360 G4 box; other site 96563013361 G5 box; other site 96563013362 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 96563013363 membrane protein insertase; Provisional; Region: PRK01318 96563013364 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 96563013365 Haemolytic domain; Region: Haemolytic; cl00506 96563013366 ribonuclease P; Reviewed; Region: rnpA; PRK00396 96563013367 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399