-- dump date 20140620_005646 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1001585000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1001585000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1001585000003 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 1001585000004 Walker A motif; other site 1001585000005 ATP binding site [chemical binding]; other site 1001585000006 Walker B motif; other site 1001585000007 arginine finger; other site 1001585000008 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 1001585000009 DnaA box-binding interface [nucleotide binding]; other site 1001585000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 1001585000011 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 1001585000012 putative DNA binding surface [nucleotide binding]; other site 1001585000013 dimer interface [polypeptide binding]; other site 1001585000014 beta-clamp/clamp loader binding surface; other site 1001585000015 beta-clamp/translesion DNA polymerase binding surface; other site 1001585000016 recombination protein F; Reviewed; Region: recF; PRK00064 1001585000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585000018 Walker A/P-loop; other site 1001585000019 ATP binding site [chemical binding]; other site 1001585000020 Q-loop/lid; other site 1001585000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585000022 ABC transporter signature motif; other site 1001585000023 Walker B; other site 1001585000024 D-loop; other site 1001585000025 H-loop/switch region; other site 1001585000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1001585000027 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585000028 Mg2+ binding site [ion binding]; other site 1001585000029 G-X-G motif; other site 1001585000030 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 1001585000031 anchoring element; other site 1001585000032 dimer interface [polypeptide binding]; other site 1001585000033 ATP binding site [chemical binding]; other site 1001585000034 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 1001585000035 active site 1001585000036 putative metal-binding site [ion binding]; other site 1001585000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1001585000038 Apolipoprotein L; Region: ApoL; pfam05461 1001585000039 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1001585000040 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1001585000041 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1001585000042 Walker A/P-loop; other site 1001585000043 ATP binding site [chemical binding]; other site 1001585000044 Q-loop/lid; other site 1001585000045 ABC transporter signature motif; other site 1001585000046 Walker B; other site 1001585000047 D-loop; other site 1001585000048 H-loop/switch region; other site 1001585000049 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1001585000050 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1001585000051 active site 1001585000052 ATP binding site [chemical binding]; other site 1001585000053 substrate binding site [chemical binding]; other site 1001585000054 activation loop (A-loop); other site 1001585000055 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1001585000056 metal ion-dependent adhesion site (MIDAS); other site 1001585000057 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 1001585000058 active site 1001585000059 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; pfam09867 1001585000060 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1001585000061 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1001585000062 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1001585000063 hypothetical protein; Provisional; Region: PRK07033 1001585000064 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 1001585000065 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585000066 ligand binding site [chemical binding]; other site 1001585000067 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 1001585000068 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1001585000069 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1001585000070 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 1001585000071 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 1001585000072 phosphopeptide binding site; other site 1001585000073 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1001585000074 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1001585000075 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1001585000076 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 1001585000077 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1001585000078 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1001585000079 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 1001585000080 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1001585000081 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1001585000082 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1001585000083 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 1001585000084 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1001585000085 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 1001585000086 Walker A motif; other site 1001585000087 ATP binding site [chemical binding]; other site 1001585000088 Walker B motif; other site 1001585000089 arginine finger; other site 1001585000090 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 1001585000091 Walker A motif; other site 1001585000092 ATP binding site [chemical binding]; other site 1001585000093 Walker B motif; other site 1001585000094 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1001585000095 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1001585000096 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1001585000097 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1001585000098 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 1001585000099 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 1001585000100 PAAR motif; Region: PAAR_motif; pfam05488 1001585000101 RHS Repeat; Region: RHS_repeat; cl11982 1001585000102 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1001585000103 RHS Repeat; Region: RHS_repeat; pfam05593 1001585000104 RHS Repeat; Region: RHS_repeat; pfam05593 1001585000105 RHS Repeat; Region: RHS_repeat; pfam05593 1001585000106 RHS Repeat; Region: RHS_repeat; pfam05593 1001585000107 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1001585000108 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1001585000109 RHS protein; Region: RHS; pfam03527 1001585000110 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1001585000111 Protein of unknown function (DUF4237); Region: DUF4237; pfam14021 1001585000112 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585000113 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585000114 metal binding site [ion binding]; metal-binding site 1001585000115 active site 1001585000116 I-site; other site 1001585000117 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 1001585000118 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1001585000119 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1001585000120 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1001585000121 putative acyl-acceptor binding pocket; other site 1001585000122 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 1001585000123 active site 1001585000124 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 1001585000125 active site 1001585000126 catalytic residues [active] 1001585000127 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1001585000128 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1001585000129 Putative methyltransferase; Region: Methyltransf_20; pfam12147 1001585000130 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1001585000131 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1001585000132 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1001585000133 putative acyl-acceptor binding pocket; other site 1001585000134 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1001585000135 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 1001585000136 active site 1001585000137 motif I; other site 1001585000138 motif II; other site 1001585000139 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1001585000140 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 1001585000141 dimer interface [polypeptide binding]; other site 1001585000142 motif 1; other site 1001585000143 active site 1001585000144 motif 2; other site 1001585000145 motif 3; other site 1001585000146 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1001585000147 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 1001585000148 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1001585000149 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1001585000150 putative acyl-acceptor binding pocket; other site 1001585000151 PilZ domain; Region: PilZ; pfam07238 1001585000152 Predicted integral membrane protein [Function unknown]; Region: COG0392 1001585000153 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1001585000154 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1001585000155 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 1001585000156 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 1001585000157 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 1001585000158 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1001585000159 Walker A/P-loop; other site 1001585000160 ATP binding site [chemical binding]; other site 1001585000161 Q-loop/lid; other site 1001585000162 ABC transporter signature motif; other site 1001585000163 Walker B; other site 1001585000164 D-loop; other site 1001585000165 H-loop/switch region; other site 1001585000166 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1001585000167 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585000168 dimer interface [polypeptide binding]; other site 1001585000169 conserved gate region; other site 1001585000170 putative PBP binding loops; other site 1001585000171 ABC-ATPase subunit interface; other site 1001585000172 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1001585000173 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585000174 dimer interface [polypeptide binding]; other site 1001585000175 conserved gate region; other site 1001585000176 putative PBP binding loops; other site 1001585000177 ABC-ATPase subunit interface; other site 1001585000178 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 1001585000179 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 1001585000180 substrate binding pocket [chemical binding]; other site 1001585000181 membrane-bound complex binding site; other site 1001585000182 hinge residues; other site 1001585000183 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 1001585000184 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585000185 DNA-binding site [nucleotide binding]; DNA binding site 1001585000186 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 1001585000187 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585000188 homodimer interface [polypeptide binding]; other site 1001585000189 catalytic residue [active] 1001585000190 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1001585000191 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 1001585000192 tetramer interface [polypeptide binding]; other site 1001585000193 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585000194 catalytic residue [active] 1001585000195 ectoine utilization protein EutC; Validated; Region: PRK08291 1001585000196 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1001585000197 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 1001585000198 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1001585000199 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 1001585000200 active site 1001585000201 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 1001585000202 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 1001585000203 putative active site [active] 1001585000204 Zn binding site [ion binding]; other site 1001585000205 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1001585000206 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 1001585000207 putative DNA binding site [nucleotide binding]; other site 1001585000208 putative Zn2+ binding site [ion binding]; other site 1001585000209 AsnC family; Region: AsnC_trans_reg; pfam01037 1001585000210 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1001585000211 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1001585000212 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1001585000213 NlpC/P60 family; Region: NLPC_P60; pfam00877 1001585000214 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1001585000215 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1001585000216 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585000217 Coenzyme A binding pocket [chemical binding]; other site 1001585000218 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 1001585000219 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 1001585000220 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585000221 DNA-binding site [nucleotide binding]; DNA binding site 1001585000222 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 1001585000223 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585000224 homodimer interface [polypeptide binding]; other site 1001585000225 catalytic residue [active] 1001585000226 hypothetical protein; Provisional; Region: PRK11212 1001585000227 succinic semialdehyde dehydrogenase; Region: PLN02278 1001585000228 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1001585000229 tetramerization interface [polypeptide binding]; other site 1001585000230 NAD(P) binding site [chemical binding]; other site 1001585000231 catalytic residues [active] 1001585000232 hypothetical protein; Provisional; Region: PRK07482 1001585000233 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 1001585000234 inhibitor-cofactor binding pocket; inhibition site 1001585000235 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585000236 catalytic residue [active] 1001585000237 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 1001585000238 TPR motif; other site 1001585000239 binding surface 1001585000240 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1001585000241 TrkA-N domain; Region: TrkA_N; pfam02254 1001585000242 TrkA-C domain; Region: TrkA_C; pfam02080 1001585000243 TrkA-N domain; Region: TrkA_N; pfam02254 1001585000244 TrkA-C domain; Region: TrkA_C; pfam02080 1001585000245 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1001585000246 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 1001585000247 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 1001585000248 S-adenosylmethionine binding site [chemical binding]; other site 1001585000249 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1001585000250 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1001585000251 putative active site [active] 1001585000252 substrate binding site [chemical binding]; other site 1001585000253 putative cosubstrate binding site; other site 1001585000254 catalytic site [active] 1001585000255 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1001585000256 substrate binding site [chemical binding]; other site 1001585000257 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 1001585000258 active site 1001585000259 catalytic residues [active] 1001585000260 metal binding site [ion binding]; metal-binding site 1001585000261 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1001585000262 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1001585000263 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1001585000264 DNA protecting protein DprA; Region: dprA; TIGR00732 1001585000265 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1001585000266 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1001585000267 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1001585000268 NADP binding site [chemical binding]; other site 1001585000269 dimer interface [polypeptide binding]; other site 1001585000270 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1001585000271 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1001585000272 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1001585000273 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1001585000274 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1001585000275 shikimate binding site; other site 1001585000276 NAD(P) binding site [chemical binding]; other site 1001585000277 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 1001585000278 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1001585000279 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1001585000280 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1001585000281 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 1001585000282 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1001585000283 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1001585000284 Sulfatase; Region: Sulfatase; cl17466 1001585000285 choline-sulfatase; Region: chol_sulfatase; TIGR03417 1001585000286 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 1001585000287 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1001585000288 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585000289 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 1001585000290 dimerization interface [polypeptide binding]; other site 1001585000291 substrate binding pocket [chemical binding]; other site 1001585000292 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 1001585000293 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1001585000294 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585000295 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585000296 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 1001585000297 dimerization interface [polypeptide binding]; other site 1001585000298 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 1001585000299 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1001585000300 active site 1001585000301 catalytic tetrad [active] 1001585000302 glucose-1-dehydrogenase; Provisional; Region: PRK06947 1001585000303 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585000304 NAD(P) binding site [chemical binding]; other site 1001585000305 active site 1001585000306 putative cation:proton antiport protein; Provisional; Region: PRK10669 1001585000307 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1001585000308 TrkA-N domain; Region: TrkA_N; pfam02254 1001585000309 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1001585000310 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1001585000311 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1001585000312 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 1001585000313 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1001585000314 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 1001585000315 substrate binding site [chemical binding]; other site 1001585000316 active site 1001585000317 catalytic residues [active] 1001585000318 heterodimer interface [polypeptide binding]; other site 1001585000319 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1001585000320 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 1001585000321 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585000322 catalytic residue [active] 1001585000323 Protein of unknown function (DUF3060); Region: DUF3060; pfam11259 1001585000324 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1001585000325 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585000326 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 1001585000327 dimerization interface [polypeptide binding]; other site 1001585000328 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cl00246 1001585000329 FAD binding site [chemical binding]; other site 1001585000330 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 1001585000331 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585000332 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 1001585000333 DNA binding residues [nucleotide binding] 1001585000334 fec operon regulator FecR; Reviewed; Region: PRK09774 1001585000335 FecR protein; Region: FecR; pfam04773 1001585000336 Secretin and TonB N terminus short domain; Region: STN; smart00965 1001585000337 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1001585000338 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 1001585000339 N-terminal plug; other site 1001585000340 ligand-binding site [chemical binding]; other site 1001585000341 Dodecin; Region: Dodecin; pfam07311 1001585000342 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1001585000343 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 1001585000344 putative NAD(P) binding site [chemical binding]; other site 1001585000345 active site 1001585000346 putative substrate binding site [chemical binding]; other site 1001585000347 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 1001585000348 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 1001585000349 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 1001585000350 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 1001585000351 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1001585000352 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585000353 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1001585000354 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1001585000355 DctM-like transporters; Region: DctM; pfam06808 1001585000356 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1001585000357 active site 1001585000358 phosphate binding residues; other site 1001585000359 catalytic residues [active] 1001585000360 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1001585000361 Predicted membrane protein [Function unknown]; Region: COG2261 1001585000362 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1001585000363 ATP-grasp domain; Region: ATP-grasp; pfam02222 1001585000364 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1001585000365 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1001585000366 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1001585000367 NAD binding site [chemical binding]; other site 1001585000368 substrate binding site [chemical binding]; other site 1001585000369 catalytic Zn binding site [ion binding]; other site 1001585000370 tetramer interface [polypeptide binding]; other site 1001585000371 structural Zn binding site [ion binding]; other site 1001585000372 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585000373 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585000374 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585000375 Sulfatase; Region: Sulfatase; pfam00884 1001585000376 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 1001585000377 BNR repeat-like domain; Region: BNR_2; pfam13088 1001585000378 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1001585000379 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1001585000380 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1001585000381 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1001585000382 active site 1001585000383 Zn binding site [ion binding]; other site 1001585000384 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1001585000385 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1001585000386 cell density-dependent motility repressor; Provisional; Region: PRK10082 1001585000387 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585000388 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 1001585000389 dimerization interface [polypeptide binding]; other site 1001585000390 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1001585000391 Aspartase; Region: Aspartase; cd01357 1001585000392 active sites [active] 1001585000393 tetramer interface [polypeptide binding]; other site 1001585000394 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1001585000395 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1001585000396 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 1001585000397 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 1001585000398 metal ion-dependent adhesion site (MIDAS); other site 1001585000399 Low-spin heme binding site [chemical binding]; other site 1001585000400 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 1001585000401 D-pathway; other site 1001585000402 Binuclear center (active site) [active] 1001585000403 K-pathway; other site 1001585000404 Putative proton exit pathway; other site 1001585000405 Putative water exit pathway; other site 1001585000406 Cytochrome c; Region: Cytochrom_C; pfam00034 1001585000407 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 1001585000408 Subunit I/III interface [polypeptide binding]; other site 1001585000409 MoxR-like ATPases [General function prediction only]; Region: COG0714 1001585000410 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 1001585000411 Walker A motif; other site 1001585000412 ATP binding site [chemical binding]; other site 1001585000413 Walker B motif; other site 1001585000414 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 1001585000415 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1001585000416 Cytochrome c; Region: Cytochrom_C; cl11414 1001585000417 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 1001585000418 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1001585000419 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1001585000420 nitrous-oxide reductase; Validated; Region: PRK02888 1001585000421 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1001585000422 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 1001585000423 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1001585000424 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1001585000425 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1001585000426 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1001585000427 Walker A/P-loop; other site 1001585000428 ATP binding site [chemical binding]; other site 1001585000429 Q-loop/lid; other site 1001585000430 ABC transporter signature motif; other site 1001585000431 Walker B; other site 1001585000432 D-loop; other site 1001585000433 H-loop/switch region; other site 1001585000434 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1001585000435 NosL; Region: NosL; pfam05573 1001585000436 twin arginine translocase protein A; Provisional; Region: tatA; PRK04598 1001585000437 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1001585000438 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1001585000439 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 1001585000440 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1001585000441 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1001585000442 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1001585000443 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 1001585000444 ligand binding site [chemical binding]; other site 1001585000445 flexible hinge region; other site 1001585000446 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 1001585000447 non-specific DNA interactions [nucleotide binding]; other site 1001585000448 DNA binding site [nucleotide binding] 1001585000449 sequence specific DNA binding site [nucleotide binding]; other site 1001585000450 putative cAMP binding site [chemical binding]; other site 1001585000451 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1001585000452 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 1001585000453 ligand binding site [chemical binding]; other site 1001585000454 flexible hinge region; other site 1001585000455 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 1001585000456 putative switch regulator; other site 1001585000457 non-specific DNA interactions [nucleotide binding]; other site 1001585000458 DNA binding site [nucleotide binding] 1001585000459 sequence specific DNA binding site [nucleotide binding]; other site 1001585000460 putative cAMP binding site [chemical binding]; other site 1001585000461 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 1001585000462 non-specific DNA binding site [nucleotide binding]; other site 1001585000463 salt bridge; other site 1001585000464 sequence-specific DNA binding site [nucleotide binding]; other site 1001585000465 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1001585000466 amino acid carrier protein; Region: agcS; TIGR00835 1001585000467 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1001585000468 active site 1001585000469 homodimer interface [polypeptide binding]; other site 1001585000470 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1001585000471 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585000472 Coenzyme A binding pocket [chemical binding]; other site 1001585000473 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 1001585000474 homotrimer interaction site [polypeptide binding]; other site 1001585000475 putative active site [active] 1001585000476 glutaminase; Provisional; Region: PRK00971 1001585000477 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1001585000478 Predicted permeases [General function prediction only]; Region: COG0679 1001585000479 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1001585000480 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1001585000481 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1001585000482 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1001585000483 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1001585000484 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1001585000485 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 1001585000486 Subunit I/III interface [polypeptide binding]; other site 1001585000487 D-pathway; other site 1001585000488 Subunit I/VIIc interface [polypeptide binding]; other site 1001585000489 Subunit I/IV interface [polypeptide binding]; other site 1001585000490 Subunit I/II interface [polypeptide binding]; other site 1001585000491 Low-spin heme (heme a) binding site [chemical binding]; other site 1001585000492 Subunit I/VIIa interface [polypeptide binding]; other site 1001585000493 Subunit I/VIa interface [polypeptide binding]; other site 1001585000494 Dimer interface; other site 1001585000495 Putative water exit pathway; other site 1001585000496 Binuclear center (heme a3/CuB) [ion binding]; other site 1001585000497 K-pathway; other site 1001585000498 Subunit I/Vb interface [polypeptide binding]; other site 1001585000499 Putative proton exit pathway; other site 1001585000500 Subunit I/VIb interface; other site 1001585000501 Subunit I/VIc interface [polypeptide binding]; other site 1001585000502 Electron transfer pathway; other site 1001585000503 Subunit I/VIIIb interface [polypeptide binding]; other site 1001585000504 Subunit I/VIIb interface [polypeptide binding]; other site 1001585000505 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 1001585000506 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 1001585000507 Subunit III/VIIa interface [polypeptide binding]; other site 1001585000508 Phospholipid binding site [chemical binding]; other site 1001585000509 Subunit I/III interface [polypeptide binding]; other site 1001585000510 Subunit III/VIb interface [polypeptide binding]; other site 1001585000511 Subunit III/VIa interface; other site 1001585000512 Subunit III/Vb interface [polypeptide binding]; other site 1001585000513 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1001585000514 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 1001585000515 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1001585000516 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1001585000517 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1001585000518 UbiA prenyltransferase family; Region: UbiA; pfam01040 1001585000519 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1001585000520 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 1001585000521 Cu(I) binding site [ion binding]; other site 1001585000522 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1001585000523 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 1001585000524 putative active site [active] 1001585000525 putative substrate binding site [chemical binding]; other site 1001585000526 ATP binding site [chemical binding]; other site 1001585000527 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 1001585000528 DNA polymerase I; Provisional; Region: PRK05755 1001585000529 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1001585000530 active site 1001585000531 metal binding site 1 [ion binding]; metal-binding site 1001585000532 putative 5' ssDNA interaction site; other site 1001585000533 metal binding site 3; metal-binding site 1001585000534 metal binding site 2 [ion binding]; metal-binding site 1001585000535 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1001585000536 putative DNA binding site [nucleotide binding]; other site 1001585000537 putative metal binding site [ion binding]; other site 1001585000538 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 1001585000539 active site 1001585000540 catalytic site [active] 1001585000541 substrate binding site [chemical binding]; other site 1001585000542 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1001585000543 active site 1001585000544 DNA binding site [nucleotide binding] 1001585000545 catalytic site [active] 1001585000546 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1001585000547 G1 box; other site 1001585000548 GTP/Mg2+ binding site [chemical binding]; other site 1001585000549 Switch I region; other site 1001585000550 G2 box; other site 1001585000551 G3 box; other site 1001585000552 Switch II region; other site 1001585000553 G4 box; other site 1001585000554 G5 box; other site 1001585000555 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1001585000556 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1001585000557 Cytochrome c; Region: Cytochrom_C; cl11414 1001585000558 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 1001585000559 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1001585000560 catalytic residues [active] 1001585000561 hinge region; other site 1001585000562 alpha helical domain; other site 1001585000563 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1001585000564 putative catalytic site [active] 1001585000565 putative phosphate binding site [ion binding]; other site 1001585000566 putative metal binding site [ion binding]; other site 1001585000567 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585000568 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585000569 metal binding site [ion binding]; metal-binding site 1001585000570 active site 1001585000571 I-site; other site 1001585000572 xanthine permease; Region: pbuX; TIGR03173 1001585000573 MarC family integral membrane protein; Region: MarC; cl00919 1001585000574 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1001585000575 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 1001585000576 amidase catalytic site [active] 1001585000577 Zn binding residues [ion binding]; other site 1001585000578 substrate binding site [chemical binding]; other site 1001585000579 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1001585000580 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 1001585000581 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585000582 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585000583 active site 1001585000584 phosphorylation site [posttranslational modification] 1001585000585 intermolecular recognition site; other site 1001585000586 dimerization interface [polypeptide binding]; other site 1001585000587 CHASE3 domain; Region: CHASE3; pfam05227 1001585000588 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1001585000589 GAF domain; Region: GAF_3; pfam13492 1001585000590 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 1001585000591 dimer interface [polypeptide binding]; other site 1001585000592 phosphorylation site [posttranslational modification] 1001585000593 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585000594 ATP binding site [chemical binding]; other site 1001585000595 Mg2+ binding site [ion binding]; other site 1001585000596 G-X-G motif; other site 1001585000597 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585000598 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585000599 active site 1001585000600 phosphorylation site [posttranslational modification] 1001585000601 intermolecular recognition site; other site 1001585000602 dimerization interface [polypeptide binding]; other site 1001585000603 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1001585000604 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585000605 active site 1001585000606 phosphorylation site [posttranslational modification] 1001585000607 intermolecular recognition site; other site 1001585000608 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585000609 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585000610 active site 1001585000611 phosphorylation site [posttranslational modification] 1001585000612 intermolecular recognition site; other site 1001585000613 dimerization interface [polypeptide binding]; other site 1001585000614 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1001585000615 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1001585000616 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1001585000617 CheB methylesterase; Region: CheB_methylest; pfam01339 1001585000618 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585000619 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585000620 active site 1001585000621 phosphorylation site [posttranslational modification] 1001585000622 intermolecular recognition site; other site 1001585000623 dimerization interface [polypeptide binding]; other site 1001585000624 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585000625 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 1001585000626 dimer interface [polypeptide binding]; other site 1001585000627 phosphorylation site [posttranslational modification] 1001585000628 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585000629 ATP binding site [chemical binding]; other site 1001585000630 Mg2+ binding site [ion binding]; other site 1001585000631 G-X-G motif; other site 1001585000632 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 1001585000633 dimerization interface [polypeptide binding]; other site 1001585000634 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1001585000635 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 1001585000636 putative active site [active] 1001585000637 heme pocket [chemical binding]; other site 1001585000638 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 1001585000639 dimer interface [polypeptide binding]; other site 1001585000640 phosphorylation site [posttranslational modification] 1001585000641 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585000642 ATP binding site [chemical binding]; other site 1001585000643 Mg2+ binding site [ion binding]; other site 1001585000644 G-X-G motif; other site 1001585000645 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1001585000646 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585000647 active site 1001585000648 phosphorylation site [posttranslational modification] 1001585000649 intermolecular recognition site; other site 1001585000650 dimerization interface [polypeptide binding]; other site 1001585000651 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 1001585000652 Walker A motif; other site 1001585000653 ATP binding site [chemical binding]; other site 1001585000654 Walker B motif; other site 1001585000655 arginine finger; other site 1001585000656 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1001585000657 BON domain; Region: BON; pfam04972 1001585000658 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1001585000659 BON domain; Region: BON; pfam04972 1001585000660 BON domain; Region: BON; cl02771 1001585000661 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 1001585000662 PBP superfamily domain; Region: PBP_like_2; cl17296 1001585000663 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1001585000664 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 1001585000665 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585000666 ABC-ATPase subunit interface; other site 1001585000667 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 1001585000668 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 1001585000669 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585000670 dimer interface [polypeptide binding]; other site 1001585000671 conserved gate region; other site 1001585000672 putative PBP binding loops; other site 1001585000673 ABC-ATPase subunit interface; other site 1001585000674 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 1001585000675 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1001585000676 Walker A/P-loop; other site 1001585000677 ATP binding site [chemical binding]; other site 1001585000678 Q-loop/lid; other site 1001585000679 ABC transporter signature motif; other site 1001585000680 Walker B; other site 1001585000681 D-loop; other site 1001585000682 H-loop/switch region; other site 1001585000683 transcriptional regulator PhoU; Provisional; Region: PRK11115 1001585000684 PhoU domain; Region: PhoU; pfam01895 1001585000685 PhoU domain; Region: PhoU; pfam01895 1001585000686 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585000687 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585000688 active site 1001585000689 phosphorylation site [posttranslational modification] 1001585000690 intermolecular recognition site; other site 1001585000691 dimerization interface [polypeptide binding]; other site 1001585000692 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1001585000693 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1001585000694 Peptidase family M23; Region: Peptidase_M23; pfam01551 1001585000695 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1001585000696 flagellar capping protein; Reviewed; Region: fliD; PRK08032 1001585000697 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1001585000698 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1001585000699 Flagellar protein FliS; Region: FliS; cl00654 1001585000700 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1001585000701 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 1001585000702 flagellar biosynthesis sigma factor; Provisional; Region: PRK12427 1001585000703 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585000704 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1001585000705 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 1001585000706 DNA binding residues [nucleotide binding] 1001585000707 flagellar motor protein MotA; Provisional; Region: PRK12482 1001585000708 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1001585000709 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1001585000710 hypothetical protein; Validated; Region: PRK06778 1001585000711 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585000712 ligand binding site [chemical binding]; other site 1001585000713 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 1001585000714 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1001585000715 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 1001585000716 DNA binding site [nucleotide binding] 1001585000717 flagellin; Provisional; Region: PRK12802 1001585000718 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1001585000719 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1001585000720 Rubredoxin [Energy production and conversion]; Region: COG1773 1001585000721 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 1001585000722 iron binding site [ion binding]; other site 1001585000723 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1001585000724 L-lactate permease; Region: Lactate_perm; cl00701 1001585000725 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 1001585000726 active site 1001585000727 Domain of unknown function (DUF336); Region: DUF336; cl01249 1001585000728 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1001585000729 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 1001585000730 Cysteine-rich domain; Region: CCG; pfam02754 1001585000731 Cysteine-rich domain; Region: CCG; pfam02754 1001585000732 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1001585000733 FAD binding domain; Region: FAD_binding_4; pfam01565 1001585000734 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1001585000735 FAD binding domain; Region: FAD_binding_4; pfam01565 1001585000736 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 1001585000737 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585000738 DNA-binding site [nucleotide binding]; DNA binding site 1001585000739 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1001585000740 SAF-like; Region: SAF_2; pfam13144 1001585000741 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1001585000742 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1001585000743 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK12685 1001585000744 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 1001585000745 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1001585000746 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1001585000747 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK09619 1001585000748 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1001585000749 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 1001585000750 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1001585000751 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1001585000752 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1001585000753 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1001585000754 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1001585000755 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1001585000756 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1001585000757 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1001585000758 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12407 1001585000759 Flagellar L-ring protein; Region: FlgH; pfam02107 1001585000760 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1001585000761 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1001585000762 Rod binding protein; Region: Rod-binding; cl01626 1001585000763 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 1001585000764 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1001585000765 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1001585000766 catalytic residue [active] 1001585000767 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 1001585000768 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1001585000769 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 1001585000770 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1001585000771 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1001585000772 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 1001585000773 PAS fold; Region: PAS_3; pfam08447 1001585000774 putative active site [active] 1001585000775 heme pocket [chemical binding]; other site 1001585000776 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585000777 metal binding site [ion binding]; metal-binding site 1001585000778 active site 1001585000779 I-site; other site 1001585000780 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 1001585000781 Coenzyme A transferase; Region: CoA_trans; cl17247 1001585000782 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 1001585000783 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 1001585000784 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 1001585000785 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 1001585000786 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 1001585000787 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 1001585000788 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1001585000789 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 1001585000790 Malonate transporter MadL subunit; Region: MadL; pfam03817 1001585000791 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 1001585000792 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585000793 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585000794 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 1001585000795 putative dimerization interface [polypeptide binding]; other site 1001585000796 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 1001585000797 CoenzymeA binding site [chemical binding]; other site 1001585000798 subunit interaction site [polypeptide binding]; other site 1001585000799 PHB binding site; other site 1001585000800 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1001585000801 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1001585000802 NAD(P) binding site [chemical binding]; other site 1001585000803 MarR family; Region: MarR_2; pfam12802 1001585000804 putative glutathione S-transferase; Provisional; Region: PRK10357 1001585000805 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 1001585000806 putative C-terminal domain interface [polypeptide binding]; other site 1001585000807 putative GSH binding site (G-site) [chemical binding]; other site 1001585000808 putative dimer interface [polypeptide binding]; other site 1001585000809 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1001585000810 N-terminal domain interface [polypeptide binding]; other site 1001585000811 dimer interface [polypeptide binding]; other site 1001585000812 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1001585000813 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 1001585000814 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585000815 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585000816 dimer interface [polypeptide binding]; other site 1001585000817 putative CheW interface [polypeptide binding]; other site 1001585000818 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 1001585000819 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585000820 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585000821 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585000822 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1001585000823 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585000824 DNA-binding site [nucleotide binding]; DNA binding site 1001585000825 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1001585000826 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 1001585000827 DNA-binding site [nucleotide binding]; DNA binding site 1001585000828 FCD domain; Region: FCD; pfam07729 1001585000829 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1001585000830 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1001585000831 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1001585000832 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1001585000833 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1001585000834 DctM-like transporters; Region: DctM; pfam06808 1001585000835 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585000836 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1001585000837 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1001585000838 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1001585000839 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 1001585000840 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1001585000841 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 1001585000842 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 1001585000843 phosphate binding site [ion binding]; other site 1001585000844 dihydroxy-acid dehydratase; Validated; Region: PRK06131 1001585000845 DctM-like transporters; Region: DctM; pfam06808 1001585000846 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1001585000847 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1001585000848 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585000849 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585000850 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585000851 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1001585000852 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 1001585000853 dimerization interface [polypeptide binding]; other site 1001585000854 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1001585000855 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 1001585000856 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1001585000857 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1001585000858 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585000859 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 1001585000860 putative dimerization interface [polypeptide binding]; other site 1001585000861 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 1001585000862 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1001585000863 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585000864 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585000865 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 1001585000866 dimerization interface [polypeptide binding]; other site 1001585000867 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1001585000868 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 1001585000869 putative active site [active] 1001585000870 metal binding site [ion binding]; metal-binding site 1001585000871 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585000872 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585000873 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 1001585000874 dimerization interface [polypeptide binding]; other site 1001585000875 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 1001585000876 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1001585000877 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1001585000878 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1001585000879 dimer interface [polypeptide binding]; other site 1001585000880 NADP binding site [chemical binding]; other site 1001585000881 catalytic residues [active] 1001585000882 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1001585000883 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585000884 HD domain; Region: HD_5; pfam13487 1001585000885 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1001585000886 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 1001585000887 DNA binding residues [nucleotide binding] 1001585000888 WYL domain; Region: WYL; pfam13280 1001585000889 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1001585000890 Sel1-like repeats; Region: SEL1; smart00671 1001585000891 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 1001585000892 GAF domain; Region: GAF; pfam01590 1001585000893 Phytochrome region; Region: PHY; pfam00360 1001585000894 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 1001585000895 dimer interface [polypeptide binding]; other site 1001585000896 phosphorylation site [posttranslational modification] 1001585000897 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585000898 ATP binding site [chemical binding]; other site 1001585000899 Mg2+ binding site [ion binding]; other site 1001585000900 G-X-G motif; other site 1001585000901 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 1001585000902 heme binding pocket [chemical binding]; other site 1001585000903 heme ligand [chemical binding]; other site 1001585000904 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 1001585000905 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1001585000906 tetramerization interface [polypeptide binding]; other site 1001585000907 NAD(P) binding site [chemical binding]; other site 1001585000908 catalytic residues [active] 1001585000909 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 1001585000910 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 1001585000911 inhibitor-cofactor binding pocket; inhibition site 1001585000912 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585000913 catalytic residue [active] 1001585000914 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585000915 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585000916 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 1001585000917 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1001585000918 putative substrate translocation pore; other site 1001585000919 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1001585000920 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 1001585000921 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1001585000922 NAD(P) binding site [chemical binding]; other site 1001585000923 catalytic residues [active] 1001585000924 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 1001585000925 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1001585000926 putative substrate translocation pore; other site 1001585000927 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 1001585000928 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585000929 DNA-binding site [nucleotide binding]; DNA binding site 1001585000930 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 1001585000931 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585000932 homodimer interface [polypeptide binding]; other site 1001585000933 catalytic residue [active] 1001585000934 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1001585000935 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1001585000936 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1001585000937 Flagellin N-methylase; Region: FliB; pfam03692 1001585000938 RNA polymerase sigma factor; Reviewed; Region: PRK12527 1001585000939 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1001585000940 DNA binding residues [nucleotide binding] 1001585000941 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1001585000942 FecR protein; Region: FecR; pfam04773 1001585000943 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1001585000944 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 1001585000945 N-terminal plug; other site 1001585000946 ligand-binding site [chemical binding]; other site 1001585000947 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1001585000948 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 1001585000949 putative DNA binding site [nucleotide binding]; other site 1001585000950 putative Zn2+ binding site [ion binding]; other site 1001585000951 AsnC family; Region: AsnC_trans_reg; pfam01037 1001585000952 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1001585000953 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1001585000954 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1001585000955 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 1001585000956 homotrimer interaction site [polypeptide binding]; other site 1001585000957 putative active site [active] 1001585000958 alanine racemase; Reviewed; Region: dadX; PRK03646 1001585000959 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1001585000960 active site 1001585000961 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1001585000962 substrate binding site [chemical binding]; other site 1001585000963 catalytic residues [active] 1001585000964 dimer interface [polypeptide binding]; other site 1001585000965 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1001585000966 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 1001585000967 non-specific DNA binding site [nucleotide binding]; other site 1001585000968 salt bridge; other site 1001585000969 sequence-specific DNA binding site [nucleotide binding]; other site 1001585000970 Cupin domain; Region: Cupin_2; pfam07883 1001585000971 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 1001585000972 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1001585000973 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 1001585000974 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1001585000975 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1001585000976 active site 1001585000977 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 1001585000978 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1001585000979 Part of AAA domain; Region: AAA_19; pfam13245 1001585000980 Family description; Region: UvrD_C_2; pfam13538 1001585000981 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585000982 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585000983 metal binding site [ion binding]; metal-binding site 1001585000984 active site 1001585000985 I-site; other site 1001585000986 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 1001585000987 multidrug efflux protein NorA; Provisional; Region: PRK00187 1001585000988 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1001585000989 cation binding site [ion binding]; other site 1001585000990 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1001585000991 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585000992 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 1001585000993 dimerization interface [polypeptide binding]; other site 1001585000994 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 1001585000995 dimerization interface [polypeptide binding]; other site 1001585000996 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585000997 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585000998 dimer interface [polypeptide binding]; other site 1001585000999 putative CheW interface [polypeptide binding]; other site 1001585001000 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1001585001001 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1001585001002 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1001585001003 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1001585001004 Membrane fusogenic activity; Region: BMFP; pfam04380 1001585001005 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1001585001006 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1001585001007 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 1001585001008 Uncharacterized conserved protein [Function unknown]; Region: COG0432 1001585001009 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 1001585001010 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 1001585001011 motif II; other site 1001585001012 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1001585001013 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 1001585001014 active site 1001585001015 DNA binding site [nucleotide binding] 1001585001016 Int/Topo IB signature motif; other site 1001585001017 Protein of unknown function, DUF484; Region: DUF484; pfam04340 1001585001018 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1001585001019 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1001585001020 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1001585001021 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1001585001022 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1001585001023 active site 1001585001024 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1001585001025 substrate binding site [chemical binding]; other site 1001585001026 catalytic residues [active] 1001585001027 dimer interface [polypeptide binding]; other site 1001585001028 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585001029 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585001030 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585001031 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 1001585001032 putative iron binding site [ion binding]; other site 1001585001033 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 1001585001034 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1001585001035 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1001585001036 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the...; Region: Lipase_3; cd00519 1001585001037 active site flap/lid [active] 1001585001038 nucleophilic elbow; other site 1001585001039 catalytic triad [active] 1001585001040 adenylate cyclase; Provisional; Region: cyaA; PRK09450 1001585001041 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1001585001042 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1001585001043 TIGR02647 family protein; Region: DNA 1001585001044 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 1001585001045 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585001046 substrate binding pocket [chemical binding]; other site 1001585001047 membrane-bound complex binding site; other site 1001585001048 hinge residues; other site 1001585001049 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1001585001050 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585001051 Coenzyme A binding pocket [chemical binding]; other site 1001585001052 argininosuccinate lyase; Provisional; Region: PRK00855 1001585001053 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1001585001054 active sites [active] 1001585001055 tetramer interface [polypeptide binding]; other site 1001585001056 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1001585001057 Histidine kinase; Region: His_kinase; pfam06580 1001585001058 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1001585001059 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585001060 active site 1001585001061 phosphorylation site [posttranslational modification] 1001585001062 intermolecular recognition site; other site 1001585001063 dimerization interface [polypeptide binding]; other site 1001585001064 LytTr DNA-binding domain; Region: LytTR; pfam04397 1001585001065 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1001585001066 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 1001585001067 domain interfaces; other site 1001585001068 active site 1001585001069 uroporphyrinogen-III synthase; Validated; Region: PRK05752 1001585001070 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 1001585001071 active site 1001585001072 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 1001585001073 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1001585001074 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1001585001075 HemY protein N-terminus; Region: HemY_N; pfam07219 1001585001076 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 1001585001077 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 1001585001078 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1001585001079 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1001585001080 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1001585001081 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 1001585001082 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1001585001083 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1001585001084 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1001585001085 ABC transporter; Region: ABC_tran_2; pfam12848 1001585001086 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1001585001087 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1001585001088 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1001585001089 LysE type translocator; Region: LysE; cl00565 1001585001090 Cytochrome c; Region: Cytochrom_C; pfam00034 1001585001091 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 1001585001092 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 1001585001093 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 1001585001094 CoenzymeA binding site [chemical binding]; other site 1001585001095 subunit interaction site [polypeptide binding]; other site 1001585001096 PHB binding site; other site 1001585001097 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 1001585001098 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 1001585001099 conserved cys residue [active] 1001585001100 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1001585001101 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1001585001102 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1001585001103 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1001585001104 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 1001585001105 dimer interface [polypeptide binding]; other site 1001585001106 active site 1001585001107 aspartate-rich active site metal binding site; other site 1001585001108 allosteric magnesium binding site [ion binding]; other site 1001585001109 Schiff base residues; other site 1001585001110 polyphosphate kinase; Provisional; Region: PRK05443 1001585001111 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1001585001112 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1001585001113 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1001585001114 putative active site [active] 1001585001115 catalytic site [active] 1001585001116 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1001585001117 putative domain interface [polypeptide binding]; other site 1001585001118 putative active site [active] 1001585001119 catalytic site [active] 1001585001120 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1001585001121 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1001585001122 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1001585001123 ureidoglycolate hydrolase; Provisional; Region: PRK03606 1001585001124 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1001585001125 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1001585001126 Walker A/P-loop; other site 1001585001127 ATP binding site [chemical binding]; other site 1001585001128 Q-loop/lid; other site 1001585001129 ABC transporter signature motif; other site 1001585001130 Walker B; other site 1001585001131 D-loop; other site 1001585001132 H-loop/switch region; other site 1001585001133 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585001134 dimer interface [polypeptide binding]; other site 1001585001135 conserved gate region; other site 1001585001136 putative PBP binding loops; other site 1001585001137 ABC-ATPase subunit interface; other site 1001585001138 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585001139 dimer interface [polypeptide binding]; other site 1001585001140 conserved gate region; other site 1001585001141 ABC-ATPase subunit interface; other site 1001585001142 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585001143 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 1001585001144 substrate binding pocket [chemical binding]; other site 1001585001145 membrane-bound complex binding site; other site 1001585001146 hinge residues; other site 1001585001147 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1001585001148 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585001149 DNA-binding site [nucleotide binding]; DNA binding site 1001585001150 FCD domain; Region: FCD; pfam07729 1001585001151 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 1001585001152 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1001585001153 catalytic residues [active] 1001585001154 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1001585001155 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1001585001156 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 1001585001157 RNA binding site [nucleotide binding]; other site 1001585001158 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 1001585001159 multimer interface [polypeptide binding]; other site 1001585001160 Walker A motif; other site 1001585001161 ATP binding site [chemical binding]; other site 1001585001162 Walker B motif; other site 1001585001163 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1001585001164 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1001585001165 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 1001585001166 catalytic loop [active] 1001585001167 iron binding site [ion binding]; other site 1001585001168 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 1001585001169 FAD binding pocket [chemical binding]; other site 1001585001170 FAD binding motif [chemical binding]; other site 1001585001171 phosphate binding motif [ion binding]; other site 1001585001172 beta-alpha-beta structure motif; other site 1001585001173 NAD binding pocket [chemical binding]; other site 1001585001174 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1001585001175 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1001585001176 NAD(P) binding site [chemical binding]; other site 1001585001177 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 1001585001178 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1001585001179 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1001585001180 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1001585001181 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1001585001182 Walker A/P-loop; other site 1001585001183 ATP binding site [chemical binding]; other site 1001585001184 Q-loop/lid; other site 1001585001185 ABC transporter signature motif; other site 1001585001186 Walker B; other site 1001585001187 D-loop; other site 1001585001188 H-loop/switch region; other site 1001585001189 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1001585001190 Walker A/P-loop; other site 1001585001191 ATP binding site [chemical binding]; other site 1001585001192 Q-loop/lid; other site 1001585001193 ABC transporter signature motif; other site 1001585001194 Walker B; other site 1001585001195 D-loop; other site 1001585001196 H-loop/switch region; other site 1001585001197 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1001585001198 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1001585001199 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1001585001200 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1001585001201 HlyD family secretion protein; Region: HlyD_3; pfam13437 1001585001202 CHASE domain; Region: CHASE; cl01369 1001585001203 PAS domain; Region: PAS_9; pfam13426 1001585001204 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585001205 metal binding site [ion binding]; metal-binding site 1001585001206 active site 1001585001207 I-site; other site 1001585001208 Uncharacterized conserved protein [Function unknown]; Region: COG2947 1001585001209 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 1001585001210 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 1001585001211 TIGR02449 family protein; Region: TIGR02449 1001585001212 hypothetical protein; Reviewed; Region: PRK02166 1001585001213 proline aminopeptidase P II; Provisional; Region: PRK10879 1001585001214 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1001585001215 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 1001585001216 active site 1001585001217 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 1001585001218 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 1001585001219 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 1001585001220 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1001585001221 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 1001585001222 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1001585001223 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1001585001224 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1001585001225 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585001226 dimer interface [polypeptide binding]; other site 1001585001227 conserved gate region; other site 1001585001228 putative PBP binding loops; other site 1001585001229 ABC-ATPase subunit interface; other site 1001585001230 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1001585001231 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1001585001232 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1001585001233 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 1001585001234 lipoyl attachment site [posttranslational modification]; other site 1001585001235 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 1001585001236 dimerization interface [polypeptide binding]; other site 1001585001237 putative DNA binding site [nucleotide binding]; other site 1001585001238 putative Zn2+ binding site [ion binding]; other site 1001585001239 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 1001585001240 Predicted transporter component [General function prediction only]; Region: COG2391 1001585001241 Sulphur transport; Region: Sulf_transp; pfam04143 1001585001242 Sulphur transport; Region: Sulf_transp; pfam04143 1001585001243 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1001585001244 agmatine deiminase; Provisional; Region: PRK13551 1001585001245 agmatine deiminase; Region: agmatine_aguA; TIGR03380 1001585001246 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 1001585001247 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1001585001248 putative active site; other site 1001585001249 catalytic triad [active] 1001585001250 putative dimer interface [polypeptide binding]; other site 1001585001251 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585001252 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585001253 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1001585001254 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1001585001255 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1001585001256 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1001585001257 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1001585001258 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1001585001259 putative aminotransferase; Validated; Region: PRK07480 1001585001260 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 1001585001261 inhibitor-cofactor binding pocket; inhibition site 1001585001262 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585001263 catalytic residue [active] 1001585001264 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1001585001265 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1001585001266 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1001585001267 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1001585001268 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 1001585001269 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585001270 Walker A/P-loop; other site 1001585001271 ATP binding site [chemical binding]; other site 1001585001272 Q-loop/lid; other site 1001585001273 ABC transporter signature motif; other site 1001585001274 Walker B; other site 1001585001275 D-loop; other site 1001585001276 H-loop/switch region; other site 1001585001277 TOBE domain; Region: TOBE_2; pfam08402 1001585001278 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585001279 dimer interface [polypeptide binding]; other site 1001585001280 conserved gate region; other site 1001585001281 putative PBP binding loops; other site 1001585001282 ABC-ATPase subunit interface; other site 1001585001283 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1001585001284 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585001285 dimer interface [polypeptide binding]; other site 1001585001286 conserved gate region; other site 1001585001287 putative PBP binding loops; other site 1001585001288 ABC-ATPase subunit interface; other site 1001585001289 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1001585001290 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1001585001291 putative active site [active] 1001585001292 putative metal binding residues [ion binding]; other site 1001585001293 signature motif; other site 1001585001294 putative triphosphate binding site [ion binding]; other site 1001585001295 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1001585001296 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1001585001297 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1001585001298 acetylornithine deacetylase; Provisional; Region: PRK05111 1001585001299 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1001585001300 metal binding site [ion binding]; metal-binding site 1001585001301 putative dimer interface [polypeptide binding]; other site 1001585001302 N-acetylglutamate synthase; Validated; Region: PRK05279 1001585001303 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 1001585001304 putative feedback inhibition sensing region; other site 1001585001305 putative nucleotide binding site [chemical binding]; other site 1001585001306 putative substrate binding site [chemical binding]; other site 1001585001307 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585001308 Coenzyme A binding pocket [chemical binding]; other site 1001585001309 Ribosome modulation factor; Region: RMF; cl01207 1001585001310 glutamate--cysteine ligase; Provisional; Region: PRK02107 1001585001311 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 1001585001312 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1001585001313 CoenzymeA binding site [chemical binding]; other site 1001585001314 subunit interaction site [polypeptide binding]; other site 1001585001315 PHB binding site; other site 1001585001316 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1001585001317 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1001585001318 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1001585001319 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 1001585001320 RNA binding site [nucleotide binding]; other site 1001585001321 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1001585001322 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585001323 active site 1001585001324 phosphorylation site [posttranslational modification] 1001585001325 intermolecular recognition site; other site 1001585001326 dimerization interface [polypeptide binding]; other site 1001585001327 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 1001585001328 DNA binding site [nucleotide binding] 1001585001329 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1001585001330 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 1001585001331 dimerization interface [polypeptide binding]; other site 1001585001332 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585001333 ATP binding site [chemical binding]; other site 1001585001334 Mg2+ binding site [ion binding]; other site 1001585001335 G-X-G motif; other site 1001585001336 MASE1; Region: MASE1; pfam05231 1001585001337 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 1001585001338 PAS domain; Region: PAS_9; pfam13426 1001585001339 putative active site [active] 1001585001340 heme pocket [chemical binding]; other site 1001585001341 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 1001585001342 PAS domain; Region: PAS_9; pfam13426 1001585001343 putative active site [active] 1001585001344 heme pocket [chemical binding]; other site 1001585001345 PAS domain S-box; Region: sensory_box; TIGR00229 1001585001346 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585001347 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585001348 metal binding site [ion binding]; metal-binding site 1001585001349 active site 1001585001350 I-site; other site 1001585001351 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 1001585001352 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1001585001353 dimer interface [polypeptide binding]; other site 1001585001354 catalytic triad [active] 1001585001355 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1001585001356 RimK-like ATP-grasp domain; Region: RimK; pfam08443 1001585001357 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1001585001358 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 1001585001359 RNA binding surface [nucleotide binding]; other site 1001585001360 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 1001585001361 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1001585001362 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 1001585001363 dimerization interface [polypeptide binding]; other site 1001585001364 domain crossover interface; other site 1001585001365 redox-dependent activation switch; other site 1001585001366 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1001585001367 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 1001585001368 active site 1001585001369 substrate-binding site [chemical binding]; other site 1001585001370 metal-binding site [ion binding] 1001585001371 ATP binding site [chemical binding]; other site 1001585001372 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1001585001373 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 1001585001374 ATP binding site [chemical binding]; other site 1001585001375 putative Mg++ binding site [ion binding]; other site 1001585001376 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 1001585001377 nucleotide binding region [chemical binding]; other site 1001585001378 ATP-binding site [chemical binding]; other site 1001585001379 Protein of unknown function (DUF330); Region: DUF330; cl01135 1001585001380 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 1001585001381 mce related protein; Region: MCE; pfam02470 1001585001382 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1001585001383 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585001384 Walker A/P-loop; other site 1001585001385 ATP binding site [chemical binding]; other site 1001585001386 Q-loop/lid; other site 1001585001387 ABC transporter signature motif; other site 1001585001388 Walker B; other site 1001585001389 D-loop; other site 1001585001390 H-loop/switch region; other site 1001585001391 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1001585001392 Permease; Region: Permease; pfam02405 1001585001393 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1001585001394 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1001585001395 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 1001585001396 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1001585001397 active site 1001585001398 catalytic tetrad [active] 1001585001399 TLC ATP/ADP transporter; Region: TLC; cl03940 1001585001400 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1001585001401 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585001402 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585001403 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 1001585001404 dimerization interface [polypeptide binding]; other site 1001585001405 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1001585001406 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1001585001407 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1001585001408 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1001585001409 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1001585001410 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1001585001411 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585001412 active site 1001585001413 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1001585001414 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1001585001415 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 1001585001416 putative active site [active] 1001585001417 metal binding site [ion binding]; metal-binding site 1001585001418 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 1001585001419 active site 1001585001420 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1001585001421 PBP superfamily domain; Region: PBP_like; pfam12727 1001585001422 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1001585001423 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 1001585001424 putative dimer interface [polypeptide binding]; other site 1001585001425 [2Fe-2S] cluster binding site [ion binding]; other site 1001585001426 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 1001585001427 putative dimer interface [polypeptide binding]; other site 1001585001428 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1001585001429 SLBB domain; Region: SLBB; pfam10531 1001585001430 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1001585001431 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1001585001432 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 1001585001433 catalytic loop [active] 1001585001434 iron binding site [ion binding]; other site 1001585001435 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1001585001436 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 1001585001437 [4Fe-4S] binding site [ion binding]; other site 1001585001438 molybdopterin cofactor binding site; other site 1001585001439 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 1001585001440 molybdopterin cofactor binding site; other site 1001585001441 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 1001585001442 Uncharacterized protein required for formate dehydrogenase activity [Energy production and conversion]; Region: FdhD; COG1526 1001585001443 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1001585001444 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 1001585001445 motif II; other site 1001585001446 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1001585001447 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 1001585001448 dimer interface [polypeptide binding]; other site 1001585001449 ADP-ribose binding site [chemical binding]; other site 1001585001450 active site 1001585001451 nudix motif; other site 1001585001452 metal binding site [ion binding]; metal-binding site 1001585001453 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1001585001454 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 1001585001455 active site 1001585001456 "elongating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type I and II and polyketide synthases.They are characterized by the utlization of acyl carrier protein (ACP)...; Region: elong_cond_enzymes; cd00828 1001585001457 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1001585001458 active site 1001585001459 dihydroorotase; Validated; Region: pyrC; PRK09357 1001585001460 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 1001585001461 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 1001585001462 active site 1001585001463 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1001585001464 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1001585001465 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1001585001466 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1001585001467 active site 1001585001468 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1001585001469 hypothetical protein; Validated; Region: PRK00228 1001585001470 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1001585001471 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1001585001472 glutathione synthetase; Provisional; Region: PRK05246 1001585001473 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1001585001474 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1001585001475 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585001476 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585001477 active site 1001585001478 phosphorylation site [posttranslational modification] 1001585001479 intermolecular recognition site; other site 1001585001480 dimerization interface [polypeptide binding]; other site 1001585001481 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585001482 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585001483 active site 1001585001484 phosphorylation site [posttranslational modification] 1001585001485 intermolecular recognition site; other site 1001585001486 dimerization interface [polypeptide binding]; other site 1001585001487 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 1001585001488 putative CheA interaction surface; other site 1001585001489 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1001585001490 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585001491 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585001492 dimer interface [polypeptide binding]; other site 1001585001493 putative CheW interface [polypeptide binding]; other site 1001585001494 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1001585001495 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 1001585001496 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1001585001497 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 1001585001498 putative binding surface; other site 1001585001499 active site 1001585001500 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1001585001501 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 1001585001502 putative binding surface; other site 1001585001503 active site 1001585001504 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 1001585001505 putative binding surface; other site 1001585001506 active site 1001585001507 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 1001585001508 putative binding surface; other site 1001585001509 active site 1001585001510 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 1001585001511 putative binding surface; other site 1001585001512 active site 1001585001513 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1001585001514 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1001585001515 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585001516 ATP binding site [chemical binding]; other site 1001585001517 Mg2+ binding site [ion binding]; other site 1001585001518 G-X-G motif; other site 1001585001519 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 1001585001520 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585001521 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585001522 active site 1001585001523 phosphorylation site [posttranslational modification] 1001585001524 intermolecular recognition site; other site 1001585001525 dimerization interface [polypeptide binding]; other site 1001585001526 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 1001585001527 CheB methylesterase; Region: CheB_methylest; pfam01339 1001585001528 CheW-like domain; Region: CheW; pfam01584 1001585001529 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1001585001530 amino acid carrier protein; Region: agcS; TIGR00835 1001585001531 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1001585001532 RNA methyltransferase, RsmE family; Region: TIGR00046 1001585001533 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 1001585001534 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 1001585001535 inhibitor-cofactor binding pocket; inhibition site 1001585001536 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585001537 catalytic residue [active] 1001585001538 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1001585001539 hypothetical protein; Provisional; Region: PRK03757 1001585001540 helicase 45; Provisional; Region: PTZ00424 1001585001541 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 1001585001542 ATP binding site [chemical binding]; other site 1001585001543 Mg++ binding site [ion binding]; other site 1001585001544 motif III; other site 1001585001545 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 1001585001546 nucleotide binding region [chemical binding]; other site 1001585001547 ATP-binding site [chemical binding]; other site 1001585001548 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585001549 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 1001585001550 substrate binding pocket [chemical binding]; other site 1001585001551 membrane-bound complex binding site; other site 1001585001552 hinge residues; other site 1001585001553 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1001585001554 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1001585001555 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 1001585001556 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 1001585001557 FAD binding site [chemical binding]; other site 1001585001558 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1001585001559 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1001585001560 homotetramer interface [polypeptide binding]; other site 1001585001561 ligand binding site [chemical binding]; other site 1001585001562 catalytic site [active] 1001585001563 NAD binding site [chemical binding]; other site 1001585001564 Predicted membrane protein [Function unknown]; Region: COG3686 1001585001565 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1001585001566 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1001585001567 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585001568 dimer interface [polypeptide binding]; other site 1001585001569 putative CheW interface [polypeptide binding]; other site 1001585001570 Cytochrome C' Region: Cytochrom_C_2; pfam01322 1001585001571 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 1001585001572 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 1001585001573 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 1001585001574 nucleotide binding pocket [chemical binding]; other site 1001585001575 K-X-D-G motif; other site 1001585001576 catalytic site [active] 1001585001577 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1001585001578 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1001585001579 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1001585001580 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1001585001581 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1001585001582 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 1001585001583 putative DNA binding site [nucleotide binding]; other site 1001585001584 putative Zn2+ binding site [ion binding]; other site 1001585001585 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1001585001586 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 1001585001587 S-adenosylmethionine binding site [chemical binding]; other site 1001585001588 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585001589 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585001590 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 1001585001591 putative dimerization interface [polypeptide binding]; other site 1001585001592 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 1001585001593 gating phenylalanine in ion channel; other site 1001585001594 transketolase; Reviewed; Region: PRK12753 1001585001595 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 1001585001596 TPP-binding site [chemical binding]; other site 1001585001597 dimer interface [polypeptide binding]; other site 1001585001598 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 1001585001599 PYR/PP interface [polypeptide binding]; other site 1001585001600 dimer interface [polypeptide binding]; other site 1001585001601 TPP binding site [chemical binding]; other site 1001585001602 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1001585001603 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 1001585001604 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1001585001605 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1001585001606 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 1001585001607 Phosphoglycerate kinase; Region: PGK; pfam00162 1001585001608 substrate binding site [chemical binding]; other site 1001585001609 hinge regions; other site 1001585001610 ADP binding site [chemical binding]; other site 1001585001611 catalytic site [active] 1001585001612 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1001585001613 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 1001585001614 intersubunit interface [polypeptide binding]; other site 1001585001615 active site 1001585001616 zinc binding site [ion binding]; other site 1001585001617 Na+ binding site [ion binding]; other site 1001585001618 Alginate lyase; Region: Alginate_lyase2; pfam08787 1001585001619 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1001585001620 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1001585001621 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1001585001622 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 1001585001623 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1001585001624 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1001585001625 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1001585001626 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585001627 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585001628 metal binding site [ion binding]; metal-binding site 1001585001629 active site 1001585001630 I-site; other site 1001585001631 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 1001585001632 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1001585001633 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1001585001634 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585001635 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585001636 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1001585001637 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1001585001638 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1001585001639 N-terminal domain interface [polypeptide binding]; other site 1001585001640 dimer interface [polypeptide binding]; other site 1001585001641 substrate binding pocket (H-site) [chemical binding]; other site 1001585001642 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1001585001643 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 1001585001644 C-terminal domain interface [polypeptide binding]; other site 1001585001645 GSH binding site (G-site) [chemical binding]; other site 1001585001646 dimer interface [polypeptide binding]; other site 1001585001647 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1001585001648 N-terminal domain interface [polypeptide binding]; other site 1001585001649 putative dimer interface [polypeptide binding]; other site 1001585001650 active site 1001585001651 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1001585001652 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1001585001653 hexamer interface [polypeptide binding]; other site 1001585001654 ligand binding site [chemical binding]; other site 1001585001655 putative active site [active] 1001585001656 NAD(P) binding site [chemical binding]; other site 1001585001657 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1001585001658 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 1001585001659 TrkA-C domain; Region: TrkA_C; pfam02080 1001585001660 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1001585001661 TrkA-C domain; Region: TrkA_C; pfam02080 1001585001662 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 1001585001663 HI0933-like protein; Region: HI0933_like; pfam03486 1001585001664 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1001585001665 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585001666 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 1001585001667 substrate binding pocket [chemical binding]; other site 1001585001668 membrane-bound complex binding site; other site 1001585001669 hinge residues; other site 1001585001670 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1001585001671 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585001672 active site 1001585001673 phosphorylation site [posttranslational modification] 1001585001674 intermolecular recognition site; other site 1001585001675 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585001676 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585001677 active site 1001585001678 phosphorylation site [posttranslational modification] 1001585001679 intermolecular recognition site; other site 1001585001680 dimerization interface [polypeptide binding]; other site 1001585001681 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585001682 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585001683 metal binding site [ion binding]; metal-binding site 1001585001684 active site 1001585001685 I-site; other site 1001585001686 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1001585001687 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 1001585001688 ATP binding site [chemical binding]; other site 1001585001689 Mg++ binding site [ion binding]; other site 1001585001690 motif III; other site 1001585001691 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 1001585001692 nucleotide binding region [chemical binding]; other site 1001585001693 ATP-binding site [chemical binding]; other site 1001585001694 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1001585001695 putative RNA binding site [nucleotide binding]; other site 1001585001696 putative transporter; Provisional; Region: PRK10504 1001585001697 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 1001585001698 putative substrate translocation pore; other site 1001585001699 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 1001585001700 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1001585001701 choline dehydrogenase; Validated; Region: PRK02106 1001585001702 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1001585001703 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1001585001704 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 1001585001705 tetrameric interface [polypeptide binding]; other site 1001585001706 NAD binding site [chemical binding]; other site 1001585001707 catalytic residues [active] 1001585001708 transcriptional regulator BetI; Validated; Region: PRK00767 1001585001709 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585001710 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1001585001711 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1001585001712 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1001585001713 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1001585001714 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1001585001715 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585001716 dimer interface [polypeptide binding]; other site 1001585001717 conserved gate region; other site 1001585001718 putative PBP binding loops; other site 1001585001719 ABC-ATPase subunit interface; other site 1001585001720 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1001585001721 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1001585001722 Walker A/P-loop; other site 1001585001723 ATP binding site [chemical binding]; other site 1001585001724 Q-loop/lid; other site 1001585001725 ABC transporter signature motif; other site 1001585001726 Walker B; other site 1001585001727 D-loop; other site 1001585001728 H-loop/switch region; other site 1001585001729 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 1001585001730 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1001585001731 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1001585001732 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1001585001733 conserved cys residue [active] 1001585001734 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1001585001735 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585001736 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1001585001737 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1001585001738 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1001585001739 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; cd01985 1001585001740 Ligand binding site [chemical binding]; other site 1001585001741 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1001585001742 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 1001585001743 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1001585001744 Cysteine-rich domain; Region: CCG; pfam02754 1001585001745 Cysteine-rich domain; Region: CCG; pfam02754 1001585001746 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1001585001747 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 1001585001748 putative active site [active] 1001585001749 putative FMN binding site [chemical binding]; other site 1001585001750 putative substrate binding site [chemical binding]; other site 1001585001751 putative catalytic residue [active] 1001585001752 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1001585001753 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 1001585001754 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1001585001755 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 1001585001756 active site 1001585001757 dimer interface [polypeptide binding]; other site 1001585001758 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1001585001759 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1001585001760 conserved cys residue [active] 1001585001761 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1001585001762 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1001585001763 Uncharacterized conserved protein [Function unknown]; Region: COG3246 1001585001764 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 1001585001765 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1001585001766 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1001585001767 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 1001585001768 active site 1001585001769 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1001585001770 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 1001585001771 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 1001585001772 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 1001585001773 PAS fold; Region: PAS; pfam00989 1001585001774 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 1001585001775 putative active site [active] 1001585001776 heme pocket [chemical binding]; other site 1001585001777 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585001778 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585001779 metal binding site [ion binding]; metal-binding site 1001585001780 active site 1001585001781 I-site; other site 1001585001782 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 1001585001783 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 1001585001784 active site 1001585001785 catalytic triad [active] 1001585001786 oxyanion hole [active] 1001585001787 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1001585001788 fructose-1,6-bisphosphatase family protein; Region: PLN02628 1001585001789 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 1001585001790 AMP binding site [chemical binding]; other site 1001585001791 metal binding site [ion binding]; metal-binding site 1001585001792 active site 1001585001793 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 1001585001794 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1001585001795 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 1001585001796 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1001585001797 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1001585001798 TAP-like protein; Region: Abhydrolase_4; pfam08386 1001585001799 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 1001585001800 putative active site [active] 1001585001801 dimerization interface [polypeptide binding]; other site 1001585001802 putative tRNAtyr binding site [nucleotide binding]; other site 1001585001803 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1001585001804 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1001585001805 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 1001585001806 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1001585001807 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 1001585001808 metal binding site [ion binding]; metal-binding site 1001585001809 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1001585001810 ABC1 family; Region: ABC1; cl17513 1001585001811 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1001585001812 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1001585001813 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1001585001814 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 1001585001815 S-adenosylmethionine binding site [chemical binding]; other site 1001585001816 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; pfam09650 1001585001817 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 1001585001818 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 1001585001819 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585001820 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585001821 Bacterial transcriptional repressor; Region: TetR; pfam13972 1001585001822 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 1001585001823 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1001585001824 poly(3-hydroxyalkanoate) depolymerase; Region: PHA_depoly_arom; TIGR02240 1001585001825 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1001585001826 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 1001585001827 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1001585001828 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 1001585001829 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1001585001830 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 1001585001831 Walker A motif; other site 1001585001832 ATP binding site [chemical binding]; other site 1001585001833 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1001585001834 Walker B motif; other site 1001585001835 arginine finger; other site 1001585001836 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1001585001837 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 1001585001838 active site 1001585001839 HslU subunit interaction site [polypeptide binding]; other site 1001585001840 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 1001585001841 Sporulation related domain; Region: SPOR; pfam05036 1001585001842 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1001585001843 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1001585001844 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1001585001845 active site 1001585001846 HIGH motif; other site 1001585001847 KMSK motif region; other site 1001585001848 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1001585001849 tRNA binding surface [nucleotide binding]; other site 1001585001850 anticodon binding site; other site 1001585001851 primosome assembly protein PriA; Validated; Region: PRK05580 1001585001852 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 1001585001853 ATP binding site [chemical binding]; other site 1001585001854 putative Mg++ binding site [ion binding]; other site 1001585001855 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1001585001856 ATP-binding site [chemical binding]; other site 1001585001857 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1001585001858 Staphylococcal nuclease homologues; Region: SNc; smart00318 1001585001859 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1001585001860 Catalytic site; other site 1001585001861 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 1001585001862 Peptidase family M48; Region: Peptidase_M48; pfam01435 1001585001863 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1001585001864 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1001585001865 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1001585001866 putative NAD(P) binding site [chemical binding]; other site 1001585001867 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1001585001868 Transglycosylase; Region: Transgly; pfam00912 1001585001869 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1001585001870 Competence protein A; Region: Competence_A; pfam11104 1001585001871 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1001585001872 nucleotide binding site [chemical binding]; other site 1001585001873 Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilO; COG3167 1001585001874 Pilus assembly protein, PilP; Region: PilP; pfam04351 1001585001875 AMIN domain; Region: AMIN; pfam11741 1001585001876 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1001585001877 Secretin and TonB N terminus short domain; Region: STN; smart00965 1001585001878 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1001585001879 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1001585001880 shikimate kinase; Reviewed; Region: aroK; PRK00131 1001585001881 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 1001585001882 ADP binding site [chemical binding]; other site 1001585001883 magnesium binding site [ion binding]; other site 1001585001884 putative shikimate binding site; other site 1001585001885 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1001585001886 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1001585001887 active site 1001585001888 dimer interface [polypeptide binding]; other site 1001585001889 metal binding site [ion binding]; metal-binding site 1001585001890 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 1001585001891 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 1001585001892 cell division protein DamX; Validated; Region: PRK10905 1001585001893 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1001585001894 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 1001585001895 active site 1001585001896 dimer interface [polypeptide binding]; other site 1001585001897 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1001585001898 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 1001585001899 active site 1001585001900 FMN binding site [chemical binding]; other site 1001585001901 substrate binding site [chemical binding]; other site 1001585001902 3Fe-4S cluster binding site [ion binding]; other site 1001585001903 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 1001585001904 domain interface; other site 1001585001905 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 1001585001906 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1001585001907 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585001908 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 1001585001909 PAS domain; Region: PAS_9; pfam13426 1001585001910 putative active site [active] 1001585001911 heme pocket [chemical binding]; other site 1001585001912 PAS domain; Region: PAS; smart00091 1001585001913 PAS domain; Region: PAS_9; pfam13426 1001585001914 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1001585001915 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1001585001916 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 1001585001917 Walker A motif; other site 1001585001918 ATP binding site [chemical binding]; other site 1001585001919 Walker B motif; other site 1001585001920 arginine finger; other site 1001585001921 NMT1-like family; Region: NMT1_2; pfam13379 1001585001922 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1001585001923 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1001585001924 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585001925 dimer interface [polypeptide binding]; other site 1001585001926 conserved gate region; other site 1001585001927 putative PBP binding loops; other site 1001585001928 ABC-ATPase subunit interface; other site 1001585001929 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1001585001930 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1001585001931 Walker A/P-loop; other site 1001585001932 ATP binding site [chemical binding]; other site 1001585001933 Q-loop/lid; other site 1001585001934 ABC transporter signature motif; other site 1001585001935 Walker B; other site 1001585001936 D-loop; other site 1001585001937 H-loop/switch region; other site 1001585001938 cyanate hydratase; Validated; Region: PRK02866 1001585001939 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 1001585001940 oligomer interface [polypeptide binding]; other site 1001585001941 active site 1001585001942 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1001585001943 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 1001585001944 substrate binding site [chemical binding]; other site 1001585001945 active site 1001585001946 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 1001585001947 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 1001585001948 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 1001585001949 dimer interface [polypeptide binding]; other site 1001585001950 active site 1001585001951 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 1001585001952 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1001585001953 active site 1001585001954 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1001585001955 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1001585001956 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1001585001957 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585001958 Walker A/P-loop; other site 1001585001959 ATP binding site [chemical binding]; other site 1001585001960 Q-loop/lid; other site 1001585001961 ABC transporter signature motif; other site 1001585001962 Walker B; other site 1001585001963 D-loop; other site 1001585001964 H-loop/switch region; other site 1001585001965 Phospholipid methyltransferase; Region: PEMT; cl17370 1001585001966 VirB8 protein; Region: VirB8; cl01500 1001585001967 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 1001585001968 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 1001585001969 dimer interface [polypeptide binding]; other site 1001585001970 active site 1001585001971 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1001585001972 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1001585001973 NAD(P) binding site [chemical binding]; other site 1001585001974 homotetramer interface [polypeptide binding]; other site 1001585001975 homodimer interface [polypeptide binding]; other site 1001585001976 active site 1001585001977 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 1001585001978 putative active site 1 [active] 1001585001979 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 1001585001980 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 1001585001981 dimer interface [polypeptide binding]; other site 1001585001982 active site 1001585001983 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1001585001984 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 1001585001985 S-adenosylmethionine binding site [chemical binding]; other site 1001585001986 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 1001585001987 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1001585001988 Predicted exporter [General function prediction only]; Region: COG4258 1001585001989 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1001585001990 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 1001585001991 active site 1001585001992 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1001585001993 active sites [active] 1001585001994 tetramer interface [polypeptide binding]; other site 1001585001995 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1001585001996 putative acyl-acceptor binding pocket; other site 1001585001997 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1001585001998 Ligand binding site; other site 1001585001999 Putative Catalytic site; other site 1001585002000 DXD motif; other site 1001585002001 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1001585002002 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1001585002003 active site 1001585002004 AMP binding site [chemical binding]; other site 1001585002005 acyl-activating enzyme (AAE) consensus motif; other site 1001585002006 CoA binding site [chemical binding]; other site 1001585002007 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 1001585002008 active site 2 [active] 1001585002009 dimer interface [polypeptide binding]; other site 1001585002010 active site 1 [active] 1001585002011 Predicted membrane protein [Function unknown]; Region: COG4648 1001585002012 acyl carrier protein; Provisional; Region: PRK05350 1001585002013 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1001585002014 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1001585002015 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1001585002016 putative acyl-acceptor binding pocket; other site 1001585002017 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 1001585002018 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1001585002019 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 1001585002020 P-loop; other site 1001585002021 Magnesium ion binding site [ion binding]; other site 1001585002022 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 1001585002023 Magnesium ion binding site [ion binding]; other site 1001585002024 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 1001585002025 Ligand Binding Site [chemical binding]; other site 1001585002026 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 1001585002027 Ligand Binding Site [chemical binding]; other site 1001585002028 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 1001585002029 CoenzymeA binding site [chemical binding]; other site 1001585002030 subunit interaction site [polypeptide binding]; other site 1001585002031 PHB binding site; other site 1001585002032 thioredoxin 2; Provisional; Region: PRK10996 1001585002033 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 1001585002034 catalytic residues [active] 1001585002035 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 1001585002036 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 1001585002037 homodimer interface [polypeptide binding]; other site 1001585002038 substrate-cofactor binding pocket; other site 1001585002039 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585002040 catalytic residue [active] 1001585002041 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 1001585002042 transmembrane helices; other site 1001585002043 TrkA-C domain; Region: TrkA_C; pfam02080 1001585002044 TrkA-C domain; Region: TrkA_C; pfam02080 1001585002045 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1001585002046 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 1001585002047 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1001585002048 hypothetical protein; Validated; Region: PRK00029 1001585002049 hypothetical protein; Provisional; Region: PRK11281 1001585002050 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1001585002051 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1001585002052 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 1001585002053 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1001585002054 TrkA-C domain; Region: TrkA_C; pfam02080 1001585002055 Transporter associated domain; Region: CorC_HlyC; smart01091 1001585002056 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1001585002057 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1001585002058 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585002059 active site 1001585002060 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1001585002061 Nitronate monooxygenase; Region: NMO; pfam03060 1001585002062 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 1001585002063 FMN binding site [chemical binding]; other site 1001585002064 substrate binding site [chemical binding]; other site 1001585002065 putative catalytic residue [active] 1001585002066 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1001585002067 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1001585002068 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1001585002069 Zn2+ binding site [ion binding]; other site 1001585002070 Mg2+ binding site [ion binding]; other site 1001585002071 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1001585002072 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1001585002073 GAF domain; Region: GAF; pfam01590 1001585002074 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 1001585002075 PAS domain; Region: PAS_9; pfam13426 1001585002076 putative active site [active] 1001585002077 heme pocket [chemical binding]; other site 1001585002078 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585002079 metal binding site [ion binding]; metal-binding site 1001585002080 active site 1001585002081 I-site; other site 1001585002082 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 1001585002083 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 1001585002084 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1001585002085 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 1001585002086 E3 interaction surface; other site 1001585002087 lipoyl attachment site [posttranslational modification]; other site 1001585002088 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 1001585002089 E3 interaction surface; other site 1001585002090 lipoyl attachment site [posttranslational modification]; other site 1001585002091 e3 binding domain; Region: E3_binding; pfam02817 1001585002092 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1001585002093 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1001585002094 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 1001585002095 dimer interface [polypeptide binding]; other site 1001585002096 TPP-binding site [chemical binding]; other site 1001585002097 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 1001585002098 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1001585002099 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1001585002100 metal binding triad; other site 1001585002101 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1001585002102 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1001585002103 metal binding triad; other site 1001585002104 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1001585002105 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1001585002106 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 1001585002107 homodimer interface [polypeptide binding]; other site 1001585002108 substrate-cofactor binding pocket; other site 1001585002109 catalytic residue [active] 1001585002110 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1001585002111 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 1001585002112 putative active site [active] 1001585002113 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1001585002114 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 1001585002115 putative active site [active] 1001585002116 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1001585002117 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 1001585002118 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 1001585002119 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1001585002120 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 1001585002121 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 1001585002122 active site 1001585002123 ATP binding site [chemical binding]; other site 1001585002124 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 1001585002125 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1001585002126 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 1001585002127 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1001585002128 putative ADP-binding pocket [chemical binding]; other site 1001585002129 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 1001585002130 trimer interface [polypeptide binding]; other site 1001585002131 active site 1001585002132 substrate binding site [chemical binding]; other site 1001585002133 CoA binding site [chemical binding]; other site 1001585002134 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1001585002135 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1001585002136 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 1001585002137 active site 1001585002138 substrate binding site [chemical binding]; other site 1001585002139 ATP binding site [chemical binding]; other site 1001585002140 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1001585002141 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1001585002142 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1001585002143 Walker A/P-loop; other site 1001585002144 ATP binding site [chemical binding]; other site 1001585002145 Q-loop/lid; other site 1001585002146 ABC transporter signature motif; other site 1001585002147 Walker B; other site 1001585002148 D-loop; other site 1001585002149 H-loop/switch region; other site 1001585002150 Mig-14; Region: Mig-14; pfam07395 1001585002151 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1001585002152 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 1001585002153 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1001585002154 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 1001585002155 putative ribose interaction site [chemical binding]; other site 1001585002156 putative ADP binding site [chemical binding]; other site 1001585002157 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1001585002158 active site 1001585002159 nucleotide binding site [chemical binding]; other site 1001585002160 HIGH motif; other site 1001585002161 KMSKS motif; other site 1001585002162 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585002163 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585002164 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585002165 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585002166 active site 1001585002167 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1001585002168 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1001585002169 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 1001585002170 CAP-like domain; other site 1001585002171 active site 1001585002172 primary dimer interface [polypeptide binding]; other site 1001585002173 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1001585002174 catalytic motif [active] 1001585002175 Catalytic residue [active] 1001585002176 SdiA-regulated; Region: SdiA-regulated; cd09971 1001585002177 putative active site [active] 1001585002178 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1001585002179 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585002180 ATP binding site [chemical binding]; other site 1001585002181 Mg2+ binding site [ion binding]; other site 1001585002182 G-X-G motif; other site 1001585002183 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 1001585002184 anchoring element; other site 1001585002185 dimer interface [polypeptide binding]; other site 1001585002186 ATP binding site [chemical binding]; other site 1001585002187 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 1001585002188 active site 1001585002189 metal binding site [ion binding]; metal-binding site 1001585002190 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1001585002191 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1001585002192 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585002193 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1001585002194 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1001585002195 hexamer interface [polypeptide binding]; other site 1001585002196 active site 1001585002197 metal binding site [ion binding]; metal-binding site 1001585002198 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 1001585002199 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1001585002200 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 1001585002201 dimer interface [polypeptide binding]; other site 1001585002202 ADP-ribose binding site [chemical binding]; other site 1001585002203 active site 1001585002204 nudix motif; other site 1001585002205 metal binding site [ion binding]; metal-binding site 1001585002206 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1001585002207 ThiC-associated domain; Region: ThiC-associated; pfam13667 1001585002208 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1001585002209 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 1001585002210 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1001585002211 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1001585002212 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 1001585002213 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585002214 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585002215 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 1001585002216 dimerization interface [polypeptide binding]; other site 1001585002217 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1001585002218 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1001585002219 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1001585002220 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 1001585002221 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1001585002222 active site 1001585002223 catalytic tetrad [active] 1001585002224 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 1001585002225 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 1001585002226 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 1001585002227 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1001585002228 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 1001585002229 motif II; other site 1001585002230 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1001585002231 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 1001585002232 active site 1001585002233 phosphorylation site [posttranslational modification] 1001585002234 intermolecular recognition site; other site 1001585002235 dimerization interface [polypeptide binding]; other site 1001585002236 PAS domain S-box; Region: sensory_box; TIGR00229 1001585002237 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 1001585002238 putative active site [active] 1001585002239 heme pocket [chemical binding]; other site 1001585002240 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585002241 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585002242 metal binding site [ion binding]; metal-binding site 1001585002243 active site 1001585002244 I-site; other site 1001585002245 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 1001585002246 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1001585002247 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 1001585002248 active site residue [active] 1001585002249 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 1001585002250 active site residue [active] 1001585002251 HDOD domain; Region: HDOD; pfam08668 1001585002252 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1001585002253 flagellar motor protein MotA; Validated; Region: PRK09110 1001585002254 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1001585002255 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1001585002256 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585002257 ligand binding site [chemical binding]; other site 1001585002258 GTPase RsgA; Reviewed; Region: PRK12288 1001585002259 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 1001585002260 RNA binding site [nucleotide binding]; other site 1001585002261 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1001585002262 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1001585002263 GTP/Mg2+ binding site [chemical binding]; other site 1001585002264 G4 box; other site 1001585002265 G5 box; other site 1001585002266 G1 box; other site 1001585002267 Switch I region; other site 1001585002268 G2 box; other site 1001585002269 G3 box; other site 1001585002270 Switch II region; other site 1001585002271 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1001585002272 catalytic site [active] 1001585002273 putative active site [active] 1001585002274 putative substrate binding site [chemical binding]; other site 1001585002275 dimer interface [polypeptide binding]; other site 1001585002276 epoxyqueuosine reductase; Region: TIGR00276 1001585002277 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1001585002278 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1001585002279 putative carbohydrate kinase; Provisional; Region: PRK10565 1001585002280 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 1001585002281 putative substrate binding site [chemical binding]; other site 1001585002282 putative ATP binding site [chemical binding]; other site 1001585002283 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1001585002284 AMIN domain; Region: AMIN; pfam11741 1001585002285 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1001585002286 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 1001585002287 active site 1001585002288 metal binding site [ion binding]; metal-binding site 1001585002289 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1001585002290 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1001585002291 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1001585002292 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585002293 ATP binding site [chemical binding]; other site 1001585002294 Mg2+ binding site [ion binding]; other site 1001585002295 G-X-G motif; other site 1001585002296 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 1001585002297 ATP binding site [chemical binding]; other site 1001585002298 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1001585002299 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1001585002300 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1001585002301 bacterial Hfq-like; Region: Hfq; cd01716 1001585002302 hexamer interface [polypeptide binding]; other site 1001585002303 Sm1 motif; other site 1001585002304 RNA binding site [nucleotide binding]; other site 1001585002305 Sm2 motif; other site 1001585002306 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1001585002307 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1001585002308 HflX GTPase family; Region: HflX; cd01878 1001585002309 G1 box; other site 1001585002310 GTP/Mg2+ binding site [chemical binding]; other site 1001585002311 Switch I region; other site 1001585002312 G2 box; other site 1001585002313 G3 box; other site 1001585002314 Switch II region; other site 1001585002315 G4 box; other site 1001585002316 G5 box; other site 1001585002317 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1001585002318 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 1001585002319 HflK protein; Region: hflK; TIGR01933 1001585002320 FtsH protease regulator HflC; Provisional; Region: PRK11029 1001585002321 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 1001585002322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 1001585002323 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 1001585002324 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 1001585002325 dimer interface [polypeptide binding]; other site 1001585002326 motif 1; other site 1001585002327 active site 1001585002328 motif 2; other site 1001585002329 motif 3; other site 1001585002330 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1001585002331 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 1001585002332 GDP-binding site [chemical binding]; other site 1001585002333 ACT binding site; other site 1001585002334 IMP binding site; other site 1001585002335 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1001585002336 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 1001585002337 dimerization interface [polypeptide binding]; other site 1001585002338 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585002339 dimer interface [polypeptide binding]; other site 1001585002340 putative CheW interface [polypeptide binding]; other site 1001585002341 ribonuclease R; Region: RNase_R; TIGR02063 1001585002342 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1001585002343 RNB domain; Region: RNB; pfam00773 1001585002344 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 1001585002345 RNA binding site [nucleotide binding]; other site 1001585002346 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1001585002347 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1001585002348 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1001585002349 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1001585002350 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1001585002351 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1001585002352 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1001585002353 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1001585002354 replicative DNA helicase; Provisional; Region: PRK05748 1001585002355 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1001585002356 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 1001585002357 Walker A motif; other site 1001585002358 ATP binding site [chemical binding]; other site 1001585002359 Walker B motif; other site 1001585002360 DNA binding loops [nucleotide binding] 1001585002361 alanine racemase; Reviewed; Region: alr; PRK00053 1001585002362 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1001585002363 active site 1001585002364 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1001585002365 substrate binding site [chemical binding]; other site 1001585002366 catalytic residues [active] 1001585002367 dimer interface [polypeptide binding]; other site 1001585002368 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1001585002369 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1001585002370 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585002371 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585002372 metal binding site [ion binding]; metal-binding site 1001585002373 active site 1001585002374 I-site; other site 1001585002375 hypothetical protein; Provisional; Region: PRK01254 1001585002376 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1001585002377 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1001585002378 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1001585002379 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 1001585002380 S-adenosylmethionine binding site [chemical binding]; other site 1001585002381 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 1001585002382 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 1001585002383 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 1001585002384 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1001585002385 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 1001585002386 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1001585002387 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1001585002388 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1001585002389 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1001585002390 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1001585002391 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1001585002392 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 1001585002393 Phage Tail Collar Domain; Region: Collar; pfam07484 1001585002394 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1001585002395 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1001585002396 Coenzyme A binding pocket [chemical binding]; other site 1001585002397 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 1001585002398 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1001585002399 active site 1001585002400 putative substrate binding region [chemical binding]; other site 1001585002401 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 1001585002402 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 1001585002403 lipoyl-biotinyl attachment site [posttranslational modification]; other site 1001585002404 HlyD family secretion protein; Region: HlyD_3; pfam13437 1001585002405 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 1001585002406 HlyD family secretion protein; Region: HlyD_3; pfam13437 1001585002407 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1001585002408 HlyD family secretion protein; Region: HlyD_3; pfam13437 1001585002409 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1001585002410 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1001585002411 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1001585002412 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 1001585002413 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 1001585002414 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1001585002415 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1001585002416 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1001585002417 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1001585002418 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1001585002419 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1001585002420 azurin; Region: azurin; TIGR02695 1001585002421 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1001585002422 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1001585002423 LysE type translocator; Region: LysE; pfam01810 1001585002424 Glycerophosphodiester phosphodiesterase domain of Streptomyces coelicolor cytoplasmic phosphodiesterases UgpQ2 and similar proteins; Region: GDPD_cytoplasmic_ScUgpQ2_like; cd08561 1001585002425 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 1001585002426 putative active site [active] 1001585002427 catalytic site [active] 1001585002428 putative metal binding site [ion binding]; other site 1001585002429 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 1001585002430 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 1001585002431 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1001585002432 UreF; Region: UreF; pfam01730 1001585002433 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 1001585002434 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 1001585002435 dimer interface [polypeptide binding]; other site 1001585002436 catalytic residues [active] 1001585002437 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1001585002438 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585002439 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 1001585002440 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1001585002441 FAD binding pocket [chemical binding]; other site 1001585002442 FAD binding motif [chemical binding]; other site 1001585002443 phosphate binding motif [ion binding]; other site 1001585002444 beta-alpha-beta structure motif; other site 1001585002445 NAD binding pocket [chemical binding]; other site 1001585002446 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 1001585002447 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1001585002448 catalytic loop [active] 1001585002449 iron binding site [ion binding]; other site 1001585002450 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1001585002451 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 1001585002452 putative di-iron ligands [ion binding]; other site 1001585002453 Predicted permeases [General function prediction only]; Region: COG0679 1001585002454 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585002455 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1001585002456 catalytic site [active] 1001585002457 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1001585002458 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1001585002459 DctM-like transporters; Region: DctM; pfam06808 1001585002460 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 1001585002461 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1001585002462 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585002463 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1001585002464 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1001585002465 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 1001585002466 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1001585002467 NAD(P) binding site [chemical binding]; other site 1001585002468 catalytic residues [active] 1001585002469 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1001585002470 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 1001585002471 putative active site [active] 1001585002472 metal binding site [ion binding]; metal-binding site 1001585002473 putative chaperone; Provisional; Region: PRK11678 1001585002474 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1001585002475 nucleotide binding site [chemical binding]; other site 1001585002476 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1001585002477 SBD interface [polypeptide binding]; other site 1001585002478 Predicted integral membrane protein [Function unknown]; Region: COG0392 1001585002479 Predicted membrane protein [Function unknown]; Region: COG1238 1001585002480 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1001585002481 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1001585002482 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585002483 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 1001585002484 substrate binding pocket [chemical binding]; other site 1001585002485 membrane-bound complex binding site; other site 1001585002486 hinge residues; other site 1001585002487 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585002488 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 1001585002489 substrate binding pocket [chemical binding]; other site 1001585002490 membrane-bound complex binding site; other site 1001585002491 hinge residues; other site 1001585002492 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1001585002493 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1001585002494 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1001585002495 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 1001585002496 tetramer interface [polypeptide binding]; other site 1001585002497 active site 1001585002498 Mg2+/Mn2+ binding site [ion binding]; other site 1001585002499 hypothetical protein; Provisional; Region: PRK11019 1001585002500 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 1001585002501 Hemerythrin-like domain; Region: Hr-like; cd12108 1001585002502 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1001585002503 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 1001585002504 subunit interactions [polypeptide binding]; other site 1001585002505 active site 1001585002506 flap region; other site 1001585002507 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 1001585002508 gamma-beta subunit interface [polypeptide binding]; other site 1001585002509 alpha-beta subunit interface [polypeptide binding]; other site 1001585002510 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1001585002511 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585002512 Coenzyme A binding pocket [chemical binding]; other site 1001585002513 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 1001585002514 alpha-gamma subunit interface [polypeptide binding]; other site 1001585002515 beta-gamma subunit interface [polypeptide binding]; other site 1001585002516 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1001585002517 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1001585002518 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1001585002519 Walker A/P-loop; other site 1001585002520 ATP binding site [chemical binding]; other site 1001585002521 Q-loop/lid; other site 1001585002522 ABC transporter signature motif; other site 1001585002523 Walker B; other site 1001585002524 D-loop; other site 1001585002525 H-loop/switch region; other site 1001585002526 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1001585002527 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1001585002528 Walker A/P-loop; other site 1001585002529 ATP binding site [chemical binding]; other site 1001585002530 Q-loop/lid; other site 1001585002531 ABC transporter signature motif; other site 1001585002532 Walker B; other site 1001585002533 D-loop; other site 1001585002534 H-loop/switch region; other site 1001585002535 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1001585002536 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 1001585002537 TM-ABC transporter signature motif; other site 1001585002538 HEAT repeats; Region: HEAT_2; pfam13646 1001585002539 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 1001585002540 TM-ABC transporter signature motif; other site 1001585002541 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1001585002542 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1001585002543 putative ligand binding site [chemical binding]; other site 1001585002544 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1001585002545 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585002546 DNA-binding site [nucleotide binding]; DNA binding site 1001585002547 FCD domain; Region: FCD; pfam07729 1001585002548 allophanate hydrolase; Provisional; Region: PRK08186 1001585002549 Amidase; Region: Amidase; pfam01425 1001585002550 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1001585002551 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1001585002552 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1001585002553 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585002554 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 1001585002555 dimer interface [polypeptide binding]; other site 1001585002556 phosphorylation site [posttranslational modification] 1001585002557 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585002558 ATP binding site [chemical binding]; other site 1001585002559 Mg2+ binding site [ion binding]; other site 1001585002560 G-X-G motif; other site 1001585002561 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585002562 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585002563 active site 1001585002564 phosphorylation site [posttranslational modification] 1001585002565 intermolecular recognition site; other site 1001585002566 dimerization interface [polypeptide binding]; other site 1001585002567 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585002568 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585002569 active site 1001585002570 phosphorylation site [posttranslational modification] 1001585002571 intermolecular recognition site; other site 1001585002572 dimerization interface [polypeptide binding]; other site 1001585002573 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1001585002574 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1001585002575 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1001585002576 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1001585002577 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1001585002578 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 1001585002579 purine monophosphate binding site [chemical binding]; other site 1001585002580 dimer interface [polypeptide binding]; other site 1001585002581 putative catalytic residues [active] 1001585002582 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1001585002583 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1001585002584 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 1001585002585 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1001585002586 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1001585002587 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 1001585002588 FMN binding site [chemical binding]; other site 1001585002589 active site 1001585002590 catalytic residues [active] 1001585002591 substrate binding site [chemical binding]; other site 1001585002592 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1001585002593 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 1001585002594 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1001585002595 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 1001585002596 Domain of unknown function (DUF4272); Region: DUF4272; pfam14094 1001585002597 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1001585002598 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1001585002599 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1001585002600 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1001585002601 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1001585002602 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 1001585002603 carboxyltransferase (CT) interaction site; other site 1001585002604 biotinylation site [posttranslational modification]; other site 1001585002605 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 1001585002606 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1001585002607 active site 1001585002608 trimer interface [polypeptide binding]; other site 1001585002609 dimer interface [polypeptide binding]; other site 1001585002610 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1001585002611 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1001585002612 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1001585002613 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 1001585002614 DsbD alpha interface [polypeptide binding]; other site 1001585002615 catalytic residues [active] 1001585002616 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585002617 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585002618 dimer interface [polypeptide binding]; other site 1001585002619 putative CheW interface [polypeptide binding]; other site 1001585002620 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 1001585002621 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585002622 active site 1001585002623 phosphorylation site [posttranslational modification] 1001585002624 intermolecular recognition site; other site 1001585002625 dimerization interface [polypeptide binding]; other site 1001585002626 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585002627 metal binding site [ion binding]; metal-binding site 1001585002628 active site 1001585002629 I-site; other site 1001585002630 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 1001585002631 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1001585002632 nudix motif; other site 1001585002633 translation initiation factor Sui1; Validated; Region: PRK06824 1001585002634 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1001585002635 putative rRNA binding site [nucleotide binding]; other site 1001585002636 arginine decarboxylase; Provisional; Region: PRK05354 1001585002637 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1001585002638 dimer interface [polypeptide binding]; other site 1001585002639 active site 1001585002640 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1001585002641 catalytic residues [active] 1001585002642 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1001585002643 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 1001585002644 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585002645 DNA-binding site [nucleotide binding]; DNA binding site 1001585002646 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 1001585002647 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585002648 homodimer interface [polypeptide binding]; other site 1001585002649 catalytic residue [active] 1001585002650 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1001585002651 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585002652 Coenzyme A binding pocket [chemical binding]; other site 1001585002653 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1001585002654 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1001585002655 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1001585002656 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1001585002657 Predicted membrane protein [Function unknown]; Region: COG3556 1001585002658 GAF domain; Region: GAF; pfam01590 1001585002659 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1001585002660 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585002661 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585002662 metal binding site [ion binding]; metal-binding site 1001585002663 active site 1001585002664 I-site; other site 1001585002665 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1001585002666 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1001585002667 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1001585002668 MG2 domain; Region: A2M_N; pfam01835 1001585002669 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1001585002670 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 1001585002671 surface patch; other site 1001585002672 thioester region; other site 1001585002673 specificity defining residues; other site 1001585002674 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 1001585002675 penicillin-binding protein 1C; Provisional; Region: PRK11240 1001585002676 Transglycosylase; Region: Transgly; pfam00912 1001585002677 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1001585002678 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1001585002679 Cache domain; Region: Cache_1; pfam02743 1001585002680 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 1001585002681 dimerization interface [polypeptide binding]; other site 1001585002682 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585002683 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585002684 dimer interface [polypeptide binding]; other site 1001585002685 putative CheW interface [polypeptide binding]; other site 1001585002686 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585002687 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585002688 metal binding site [ion binding]; metal-binding site 1001585002689 active site 1001585002690 I-site; other site 1001585002691 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 1001585002692 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 1001585002693 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 1001585002694 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 1001585002695 molybdopterin cofactor binding site; other site 1001585002696 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1001585002697 4Fe-4S binding domain; Region: Fer4; cl02805 1001585002698 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1001585002699 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 1001585002700 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1001585002701 Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]; Region: FdhE; COG3058 1001585002702 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1001585002703 selenocysteine synthase; Provisional; Region: PRK04311 1001585002704 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1001585002705 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1001585002706 catalytic residue [active] 1001585002707 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1001585002708 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1001585002709 G1 box; other site 1001585002710 putative GEF interaction site [polypeptide binding]; other site 1001585002711 GTP/Mg2+ binding site [chemical binding]; other site 1001585002712 Switch I region; other site 1001585002713 G2 box; other site 1001585002714 G3 box; other site 1001585002715 Switch II region; other site 1001585002716 G4 box; other site 1001585002717 G5 box; other site 1001585002718 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 1001585002719 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 1001585002720 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1001585002721 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1001585002722 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1001585002723 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1001585002724 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1001585002725 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1001585002726 active site 1001585002727 catalytic triad [active] 1001585002728 dimer interface [polypeptide binding]; other site 1001585002729 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585002730 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1001585002731 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1001585002732 DctM-like transporters; Region: DctM; pfam06808 1001585002733 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1001585002734 DctM-like transporters; Region: DctM; pfam06808 1001585002735 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1001585002736 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1001585002737 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585002738 hypothetical protein; Validated; Region: PRK06201 1001585002739 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 1001585002740 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585002741 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585002742 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 1001585002743 dimerization interface [polypeptide binding]; other site 1001585002744 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1001585002745 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585002746 Coenzyme A binding pocket [chemical binding]; other site 1001585002747 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1001585002748 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1001585002749 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 1001585002750 S-adenosylmethionine binding site [chemical binding]; other site 1001585002751 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 1001585002752 homodimer interface [polypeptide binding]; other site 1001585002753 chemical substrate binding site [chemical binding]; other site 1001585002754 oligomer interface [polypeptide binding]; other site 1001585002755 metal binding site [ion binding]; metal-binding site 1001585002756 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 1001585002757 active site 2 [active] 1001585002758 active site 1 [active] 1001585002759 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585002760 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1001585002761 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585002762 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 1001585002763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585002764 NAD(P) binding site [chemical binding]; other site 1001585002765 active site 1001585002766 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 1001585002767 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 1001585002768 dimer interface [polypeptide binding]; other site 1001585002769 active site 1001585002770 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1001585002771 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1001585002772 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1001585002773 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 1001585002774 Cache domain; Region: Cache_1; pfam02743 1001585002775 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 1001585002776 dimerization interface [polypeptide binding]; other site 1001585002777 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585002778 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585002779 dimer interface [polypeptide binding]; other site 1001585002780 putative CheW interface [polypeptide binding]; other site 1001585002781 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1001585002782 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1001585002783 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1001585002784 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 1001585002785 S-adenosylmethionine binding site [chemical binding]; other site 1001585002786 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1001585002787 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585002788 DNA-binding site [nucleotide binding]; DNA binding site 1001585002789 FCD domain; Region: FCD; pfam07729 1001585002790 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1001585002791 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 1001585002792 substrate binding pocket [chemical binding]; other site 1001585002793 membrane-bound complex binding site; other site 1001585002794 hinge residues; other site 1001585002795 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1001585002796 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585002797 dimer interface [polypeptide binding]; other site 1001585002798 conserved gate region; other site 1001585002799 putative PBP binding loops; other site 1001585002800 ABC-ATPase subunit interface; other site 1001585002801 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585002802 dimer interface [polypeptide binding]; other site 1001585002803 conserved gate region; other site 1001585002804 putative PBP binding loops; other site 1001585002805 ABC-ATPase subunit interface; other site 1001585002806 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1001585002807 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1001585002808 Walker A/P-loop; other site 1001585002809 ATP binding site [chemical binding]; other site 1001585002810 Q-loop/lid; other site 1001585002811 ABC transporter signature motif; other site 1001585002812 Walker B; other site 1001585002813 D-loop; other site 1001585002814 H-loop/switch region; other site 1001585002815 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 1001585002816 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1001585002817 catalytic residue [active] 1001585002818 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 1001585002819 ferredoxin-NADP reductase; Provisional; Region: PRK10926 1001585002820 FAD binding pocket [chemical binding]; other site 1001585002821 FAD binding motif [chemical binding]; other site 1001585002822 phosphate binding motif [ion binding]; other site 1001585002823 beta-alpha-beta structure motif; other site 1001585002824 NAD binding pocket [chemical binding]; other site 1001585002825 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1001585002826 Domain of unknown function DUF21; Region: DUF21; pfam01595 1001585002827 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 1001585002828 Protein of unknown function (DUF465); Region: DUF465; cl01070 1001585002829 Protein of unknown function (DUF465); Region: DUF465; cl01070 1001585002830 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585002831 Coenzyme A binding pocket [chemical binding]; other site 1001585002832 DNA repair protein RadA; Provisional; Region: PRK11823 1001585002833 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 1001585002834 Walker A motif/ATP binding site; other site 1001585002835 ATP binding site [chemical binding]; other site 1001585002836 Walker B motif; other site 1001585002837 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1001585002838 PilZ domain; Region: PilZ; pfam07238 1001585002839 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 1001585002840 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1001585002841 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 1001585002842 dimer interface [polypeptide binding]; other site 1001585002843 active site 1001585002844 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1001585002845 folate binding site [chemical binding]; other site 1001585002846 PAS domain S-box; Region: sensory_box; TIGR00229 1001585002847 PAS domain S-box; Region: sensory_box; TIGR00229 1001585002848 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 1001585002849 putative active site [active] 1001585002850 heme pocket [chemical binding]; other site 1001585002851 PAS domain S-box; Region: sensory_box; TIGR00229 1001585002852 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 1001585002853 putative active site [active] 1001585002854 heme pocket [chemical binding]; other site 1001585002855 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 1001585002856 PAS domain; Region: PAS_9; pfam13426 1001585002857 putative active site [active] 1001585002858 heme pocket [chemical binding]; other site 1001585002859 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585002860 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585002861 metal binding site [ion binding]; metal-binding site 1001585002862 active site 1001585002863 I-site; other site 1001585002864 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 1001585002865 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1001585002866 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1001585002867 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1001585002868 ABC transporter; Region: ABC_tran_2; pfam12848 1001585002869 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1001585002870 PilZ domain; Region: PilZ; pfam07238 1001585002871 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 1001585002872 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1001585002873 potassium uptake protein; Region: kup; TIGR00794 1001585002874 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1001585002875 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585002876 Protein of unknown function (DUF3094); Region: DUF3094; pfam11293 1001585002877 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1001585002878 MOSC domain; Region: MOSC; pfam03473 1001585002879 Protein of unknown function (DUF1780); Region: DUF1780; pfam08682 1001585002880 Predicted membrane protein [Function unknown]; Region: COG3235 1001585002881 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1001585002882 DNA gyrase inhibitor; Reviewed; Region: PRK00418 1001585002883 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1001585002884 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 1001585002885 CoA-binding site [chemical binding]; other site 1001585002886 ATP-binding [chemical binding]; other site 1001585002887 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 1001585002888 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1001585002889 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1001585002890 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1001585002891 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1001585002892 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1001585002893 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 1001585002894 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1001585002895 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 1001585002896 Walker A motif; other site 1001585002897 ATP binding site [chemical binding]; other site 1001585002898 Walker B motif; other site 1001585002899 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 1001585002900 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1001585002901 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1001585002902 Walker A/P-loop; other site 1001585002903 ATP binding site [chemical binding]; other site 1001585002904 Q-loop/lid; other site 1001585002905 ABC transporter signature motif; other site 1001585002906 Walker B; other site 1001585002907 D-loop; other site 1001585002908 H-loop/switch region; other site 1001585002909 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 1001585002910 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 1001585002911 dimerization interface [polypeptide binding]; other site 1001585002912 active site 1001585002913 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 1001585002914 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1001585002915 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 1001585002916 amidase catalytic site [active] 1001585002917 Zn binding residues [ion binding]; other site 1001585002918 substrate binding site [chemical binding]; other site 1001585002919 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 1001585002920 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 1001585002921 dimerization interface [polypeptide binding]; other site 1001585002922 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585002923 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585002924 dimer interface [polypeptide binding]; other site 1001585002925 putative CheW interface [polypeptide binding]; other site 1001585002926 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1001585002927 active site 1001585002928 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1001585002929 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1001585002930 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 1001585002931 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1001585002932 DNA binding site [nucleotide binding] 1001585002933 domain linker motif; other site 1001585002934 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1001585002935 dimerization interface [polypeptide binding]; other site 1001585002936 ligand binding site [chemical binding]; other site 1001585002937 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 1001585002938 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 1001585002939 active site 1001585002940 phosphorylation site [posttranslational modification] 1001585002941 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 1001585002942 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 1001585002943 regulatory protein interface [polypeptide binding]; other site 1001585002944 active site 1001585002945 regulatory phosphorylation site [posttranslational modification]; other site 1001585002946 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1001585002947 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1001585002948 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1001585002949 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1001585002950 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1001585002951 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 1001585002952 putative substrate binding site [chemical binding]; other site 1001585002953 putative ATP binding site [chemical binding]; other site 1001585002954 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 1001585002955 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 1001585002956 active site 1001585002957 P-loop; other site 1001585002958 phosphorylation site [posttranslational modification] 1001585002959 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 1001585002960 active site 1001585002961 P-loop; other site 1001585002962 phosphorylation site [posttranslational modification] 1001585002963 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 1001585002964 NAD-dependent deacetylase; Provisional; Region: PRK00481 1001585002965 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 1001585002966 NAD+ binding site [chemical binding]; other site 1001585002967 substrate binding site [chemical binding]; other site 1001585002968 Zn binding site [ion binding]; other site 1001585002969 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1001585002970 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1001585002971 Trp docking motif [polypeptide binding]; other site 1001585002972 putative active site [active] 1001585002973 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1001585002974 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1001585002975 G1 box; other site 1001585002976 putative GEF interaction site [polypeptide binding]; other site 1001585002977 GTP/Mg2+ binding site [chemical binding]; other site 1001585002978 Switch I region; other site 1001585002979 G2 box; other site 1001585002980 G3 box; other site 1001585002981 Switch II region; other site 1001585002982 G4 box; other site 1001585002983 G5 box; other site 1001585002984 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 1001585002985 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1001585002986 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1001585002987 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1001585002988 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1001585002989 Flavodoxin; Region: Flavodoxin_1; pfam00258 1001585002990 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 1001585002991 FAD binding pocket [chemical binding]; other site 1001585002992 FAD binding motif [chemical binding]; other site 1001585002993 catalytic residues [active] 1001585002994 NAD binding pocket [chemical binding]; other site 1001585002995 phosphate binding motif [ion binding]; other site 1001585002996 beta-alpha-beta structure motif; other site 1001585002997 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1001585002998 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 1001585002999 dimer interface [polypeptide binding]; other site 1001585003000 active site 1001585003001 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1001585003002 catalytic residues [active] 1001585003003 substrate binding site [chemical binding]; other site 1001585003004 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1001585003005 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 1001585003006 N-terminal plug; other site 1001585003007 ligand-binding site [chemical binding]; other site 1001585003008 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1001585003009 putative active site [active] 1001585003010 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 1001585003011 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1001585003012 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1001585003013 NAD binding site [chemical binding]; other site 1001585003014 substrate binding site [chemical binding]; other site 1001585003015 putative active site [active] 1001585003016 transcriptional regulator; Provisional; Region: PRK10632 1001585003017 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585003018 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 1001585003019 putative effector binding pocket; other site 1001585003020 dimerization interface [polypeptide binding]; other site 1001585003021 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 1001585003022 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 1001585003023 ATP binding site [chemical binding]; other site 1001585003024 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1001585003025 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1001585003026 DNA binding residues [nucleotide binding] 1001585003027 dimer interface [polypeptide binding]; other site 1001585003028 copper binding site [ion binding]; other site 1001585003029 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1001585003030 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 1001585003031 metal-binding site [ion binding] 1001585003032 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1001585003033 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 1001585003034 metal-binding site [ion binding] 1001585003035 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1001585003036 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1001585003037 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 1001585003038 metal-binding site [ion binding] 1001585003039 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1001585003040 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585003041 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1001585003042 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1001585003043 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1001585003044 HlyD family secretion protein; Region: HlyD_3; pfam13437 1001585003045 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1001585003046 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 1001585003047 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1001585003048 Predicted metalloprotease [General function prediction only]; Region: COG2321 1001585003049 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1001585003050 Predicted metal-binding protein [General function prediction only]; Region: COG3019 1001585003051 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1001585003052 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 1001585003053 S-adenosylmethionine binding site [chemical binding]; other site 1001585003054 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1001585003055 DJ-1 family protein; Region: not_thiJ; TIGR01383 1001585003056 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 1001585003057 conserved cys residue [active] 1001585003058 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1001585003059 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1001585003060 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585003061 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1001585003062 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 1001585003063 DNA binding site [nucleotide binding] 1001585003064 active site 1001585003065 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1001585003066 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585003067 active site 1001585003068 phosphorylation site [posttranslational modification] 1001585003069 dimerization interface [polypeptide binding]; other site 1001585003070 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1001585003071 Zn2+ binding site [ion binding]; other site 1001585003072 Mg2+ binding site [ion binding]; other site 1001585003073 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1001585003074 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1001585003075 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585003076 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585003077 ATP binding site [chemical binding]; other site 1001585003078 G-X-G motif; other site 1001585003079 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1001585003080 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585003081 active site 1001585003082 phosphorylation site [posttranslational modification] 1001585003083 intermolecular recognition site; other site 1001585003084 dimerization interface [polypeptide binding]; other site 1001585003085 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1001585003086 Predicted permeases [General function prediction only]; Region: COG0679 1001585003087 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1001585003088 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1001585003089 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1001585003090 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1001585003091 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1001585003092 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1001585003093 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1001585003094 GatB domain; Region: GatB_Yqey; smart00845 1001585003095 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1001585003096 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1001585003097 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1001585003098 rod shape-determining protein MreB; Provisional; Region: PRK13927 1001585003099 MreB and similar proteins; Region: MreB_like; cd10225 1001585003100 nucleotide binding site [chemical binding]; other site 1001585003101 Mg binding site [ion binding]; other site 1001585003102 putative protofilament interaction site [polypeptide binding]; other site 1001585003103 RodZ interaction site [polypeptide binding]; other site 1001585003104 rod shape-determining protein MreC; Provisional; Region: PRK13922 1001585003105 rod shape-determining protein MreC; Region: MreC; pfam04085 1001585003106 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 1001585003107 Maf-like protein; Region: Maf; pfam02545 1001585003108 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 1001585003109 active site 1001585003110 dimer interface [polypeptide binding]; other site 1001585003111 ribonuclease G; Provisional; Region: PRK11712 1001585003112 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 1001585003113 homodimer interface [polypeptide binding]; other site 1001585003114 oligonucleotide binding site [chemical binding]; other site 1001585003115 TIGR02099 family protein; Region: TIGR02099 1001585003116 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1001585003117 nitrilase; Region: PLN02798 1001585003118 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1001585003119 putative active site [active] 1001585003120 catalytic triad [active] 1001585003121 dimer interface [polypeptide binding]; other site 1001585003122 protease TldD; Provisional; Region: tldD; PRK10735 1001585003123 hypothetical protein; Provisional; Region: PRK05255 1001585003124 peptidase PmbA; Provisional; Region: PRK11040 1001585003125 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 1001585003126 dimerization domain swap beta strand [polypeptide binding]; other site 1001585003127 regulatory protein interface [polypeptide binding]; other site 1001585003128 active site 1001585003129 regulatory phosphorylation site [posttranslational modification]; other site 1001585003130 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1001585003131 AAA domain; Region: AAA_18; pfam13238 1001585003132 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 1001585003133 active site 1001585003134 phosphorylation site [posttranslational modification] 1001585003135 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 1001585003136 30S subunit binding site; other site 1001585003137 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1001585003138 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1001585003139 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1001585003140 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1001585003141 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1001585003142 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1001585003143 Walker A/P-loop; other site 1001585003144 ATP binding site [chemical binding]; other site 1001585003145 Q-loop/lid; other site 1001585003146 ABC transporter signature motif; other site 1001585003147 Walker B; other site 1001585003148 D-loop; other site 1001585003149 H-loop/switch region; other site 1001585003150 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1001585003151 OstA-like protein; Region: OstA; pfam03968 1001585003152 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1001585003153 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1001585003154 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1001585003155 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 1001585003156 active site 1001585003157 motif I; other site 1001585003158 motif II; other site 1001585003159 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1001585003160 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 1001585003161 putative active site [active] 1001585003162 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 1001585003163 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1001585003164 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1001585003165 Walker A/P-loop; other site 1001585003166 ATP binding site [chemical binding]; other site 1001585003167 Q-loop/lid; other site 1001585003168 ABC transporter signature motif; other site 1001585003169 Walker B; other site 1001585003170 D-loop; other site 1001585003171 H-loop/switch region; other site 1001585003172 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1001585003173 Permease; Region: Permease; cl00510 1001585003174 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1001585003175 mce related protein; Region: MCE; pfam02470 1001585003176 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 1001585003177 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 1001585003178 anti sigma factor interaction site; other site 1001585003179 regulatory phosphorylation site [posttranslational modification]; other site 1001585003180 BolA-like protein; Region: BolA; cl00386 1001585003181 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1001585003182 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 1001585003183 hinge; other site 1001585003184 active site 1001585003185 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1001585003186 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1001585003187 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1001585003188 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 1001585003189 NAD binding site [chemical binding]; other site 1001585003190 dimerization interface [polypeptide binding]; other site 1001585003191 product binding site; other site 1001585003192 substrate binding site [chemical binding]; other site 1001585003193 zinc binding site [ion binding]; other site 1001585003194 catalytic residues [active] 1001585003195 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1001585003196 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 1001585003197 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585003198 homodimer interface [polypeptide binding]; other site 1001585003199 catalytic residue [active] 1001585003200 serine endoprotease; Provisional; Region: PRK10898 1001585003201 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1001585003202 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 1001585003203 protein binding site [polypeptide binding]; other site 1001585003204 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1001585003205 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1001585003206 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1001585003207 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 1001585003208 Active Sites [active] 1001585003209 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1001585003210 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1001585003211 CysD dimerization site [polypeptide binding]; other site 1001585003212 G1 box; other site 1001585003213 putative GEF interaction site [polypeptide binding]; other site 1001585003214 GTP/Mg2+ binding site [chemical binding]; other site 1001585003215 Switch I region; other site 1001585003216 G2 box; other site 1001585003217 G3 box; other site 1001585003218 Switch II region; other site 1001585003219 G4 box; other site 1001585003220 G5 box; other site 1001585003221 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 1001585003222 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 1001585003223 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 1001585003224 ligand-binding site [chemical binding]; other site 1001585003225 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 1001585003226 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 1001585003227 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585003228 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 1001585003229 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1001585003230 active site 1001585003231 HIGH motif; other site 1001585003232 dimer interface [polypeptide binding]; other site 1001585003233 KMSKS motif; other site 1001585003234 Predicted ATPase [General function prediction only]; Region: COG1485 1001585003235 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1001585003236 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1001585003237 conserved cys residue [active] 1001585003238 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585003239 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585003240 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585003241 active site 1001585003242 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 1001585003243 Active_site [active] 1001585003244 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 1001585003245 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1001585003246 active site 1001585003247 catalytic tetrad [active] 1001585003248 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 1001585003249 23S rRNA interface [nucleotide binding]; other site 1001585003250 L3 interface [polypeptide binding]; other site 1001585003251 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1001585003252 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 1001585003253 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1001585003254 [2Fe-2S] cluster binding site [ion binding]; other site 1001585003255 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1001585003256 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 1001585003257 Qi binding site; other site 1001585003258 intrachain domain interface; other site 1001585003259 interchain domain interface [polypeptide binding]; other site 1001585003260 heme bH binding site [chemical binding]; other site 1001585003261 heme bL binding site [chemical binding]; other site 1001585003262 Qo binding site; other site 1001585003263 interchain domain interface [polypeptide binding]; other site 1001585003264 intrachain domain interface; other site 1001585003265 Qi binding site; other site 1001585003266 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1001585003267 Qo binding site; other site 1001585003268 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1001585003269 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1001585003270 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 1001585003271 C-terminal domain interface [polypeptide binding]; other site 1001585003272 putative GSH binding site (G-site) [chemical binding]; other site 1001585003273 dimer interface [polypeptide binding]; other site 1001585003274 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1001585003275 dimer interface [polypeptide binding]; other site 1001585003276 N-terminal domain interface [polypeptide binding]; other site 1001585003277 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1001585003278 outer membrane lipoprotein; Provisional; Region: PRK11023 1001585003279 BON domain; Region: BON; pfam04972 1001585003280 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 1001585003281 dimer interface [polypeptide binding]; other site 1001585003282 active site 1001585003283 hypothetical protein; Reviewed; Region: PRK12497 1001585003284 LppC putative lipoprotein; Region: LppC; pfam04348 1001585003285 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1001585003286 putative ligand binding site [chemical binding]; other site 1001585003287 Predicted methyltransferases [General function prediction only]; Region: COG0313 1001585003288 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1001585003289 putative SAM binding site [chemical binding]; other site 1001585003290 putative homodimer interface [polypeptide binding]; other site 1001585003291 cell division protein MraZ; Reviewed; Region: PRK00326 1001585003292 MraZ protein; Region: MraZ; pfam02381 1001585003293 MraZ protein; Region: MraZ; pfam02381 1001585003294 MraW methylase family; Region: Methyltransf_5; pfam01795 1001585003295 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1001585003296 Cell division protein FtsL; Region: FtsL; pfam04999 1001585003297 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1001585003298 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1001585003299 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1001585003300 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1001585003301 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1001585003302 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1001585003303 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1001585003304 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1001585003305 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 1001585003306 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1001585003307 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1001585003308 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1001585003309 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 1001585003310 Mg++ binding site [ion binding]; other site 1001585003311 putative catalytic motif [active] 1001585003312 putative substrate binding site [chemical binding]; other site 1001585003313 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 1001585003314 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1001585003315 cell division protein FtsW; Region: ftsW; TIGR02614 1001585003316 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1001585003317 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 1001585003318 active site 1001585003319 homodimer interface [polypeptide binding]; other site 1001585003320 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1001585003321 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1001585003322 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1001585003323 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1001585003324 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1001585003325 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1001585003326 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1001585003327 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1001585003328 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1001585003329 Cell division protein FtsQ; Region: FtsQ; pfam03799 1001585003330 cell division protein FtsA; Region: ftsA; TIGR01174 1001585003331 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1001585003332 nucleotide binding site [chemical binding]; other site 1001585003333 Cell division protein FtsA; Region: FtsA; pfam14450 1001585003334 cell division protein FtsZ; Validated; Region: PRK09330 1001585003335 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 1001585003336 nucleotide binding site [chemical binding]; other site 1001585003337 SulA interaction site; other site 1001585003338 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1001585003339 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1001585003340 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1001585003341 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1001585003342 Peptidase family M23; Region: Peptidase_M23; pfam01551 1001585003343 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13103 1001585003344 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 1001585003345 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1001585003346 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 1001585003347 nucleotide binding region [chemical binding]; other site 1001585003348 ATP-binding site [chemical binding]; other site 1001585003349 SEC-C motif; Region: SEC-C; pfam02810 1001585003350 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 1001585003351 heterotetramer interface [polypeptide binding]; other site 1001585003352 active site pocket [active] 1001585003353 cleavage site 1001585003354 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 1001585003355 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1001585003356 putative C-terminal domain interface [polypeptide binding]; other site 1001585003357 putative GSH binding site (G-site) [chemical binding]; other site 1001585003358 putative dimer interface [polypeptide binding]; other site 1001585003359 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1001585003360 putative N-terminal domain interface [polypeptide binding]; other site 1001585003361 putative dimer interface [polypeptide binding]; other site 1001585003362 putative substrate binding pocket (H-site) [chemical binding]; other site 1001585003363 hypothetical protein; Provisional; Region: PRK08999 1001585003364 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 1001585003365 active site 1001585003366 8-oxo-dGMP binding site [chemical binding]; other site 1001585003367 nudix motif; other site 1001585003368 metal binding site [ion binding]; metal-binding site 1001585003369 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 1001585003370 thiamine phosphate binding site [chemical binding]; other site 1001585003371 active site 1001585003372 pyrophosphate binding site [ion binding]; other site 1001585003373 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 1001585003374 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 1001585003375 dimerization interface [polypeptide binding]; other site 1001585003376 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1001585003377 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 1001585003378 dimer interface [polypeptide binding]; other site 1001585003379 phosphorylation site [posttranslational modification] 1001585003380 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585003381 ATP binding site [chemical binding]; other site 1001585003382 Mg2+ binding site [ion binding]; other site 1001585003383 G-X-G motif; other site 1001585003384 2-dehydropantoate 2-reductase; Provisional; Region: PRK05708 1001585003385 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1001585003386 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1001585003387 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1001585003388 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585003389 active site 1001585003390 phosphorylation site [posttranslational modification] 1001585003391 intermolecular recognition site; other site 1001585003392 dimerization interface [polypeptide binding]; other site 1001585003393 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585003394 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585003395 metal binding site [ion binding]; metal-binding site 1001585003396 active site 1001585003397 I-site; other site 1001585003398 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1001585003399 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1001585003400 mechanosensitive channel MscS; Provisional; Region: PRK10334 1001585003401 Conserved TM helix; Region: TM_helix; pfam05552 1001585003402 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1001585003403 muropeptide transporter; Validated; Region: ampG; cl17669 1001585003404 muropeptide transporter; Validated; Region: ampG; cl17669 1001585003405 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 1001585003406 active site 1001585003407 DNA binding site [nucleotide binding] 1001585003408 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1001585003409 Sm and related proteins; Region: Sm_like; cl00259 1001585003410 Sm1 motif; other site 1001585003411 hexamer interface [polypeptide binding]; other site 1001585003412 heptamer interface [polypeptide binding]; other site 1001585003413 RNA binding site [nucleotide binding]; other site 1001585003414 Sm2 motif; other site 1001585003415 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1001585003416 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1001585003417 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1001585003418 active site 1001585003419 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1001585003420 active site 1001585003421 putative transporter; Provisional; Region: PRK11660 1001585003422 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1001585003423 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1001585003424 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 1001585003425 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1001585003426 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1001585003427 MviN-like protein; Region: MVIN; pfam03023 1001585003428 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1001585003429 riboflavin kinase/FMN adenylyltransferase; Region: ribF; TIGR00083 1001585003430 active site 1001585003431 Riboflavin kinase; Region: Flavokinase; smart00904 1001585003432 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1001585003433 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1001585003434 active site 1001585003435 HIGH motif; other site 1001585003436 nucleotide binding site [chemical binding]; other site 1001585003437 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1001585003438 active site 1001585003439 KMSKS motif; other site 1001585003440 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1001585003441 tRNA binding surface [nucleotide binding]; other site 1001585003442 anticodon binding site; other site 1001585003443 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1001585003444 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1001585003445 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1001585003446 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1001585003447 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1001585003448 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1001585003449 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1001585003450 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 1001585003451 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 1001585003452 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 1001585003453 PilX N-terminal; Region: PilX_N; pfam14341 1001585003454 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 1001585003455 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 1001585003456 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1001585003457 Type II transport protein GspH; Region: GspH; pfam12019 1001585003458 Type II transport protein GspH; Region: GspH; pfam12019 1001585003459 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1001585003460 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1001585003461 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1001585003462 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585003463 active site 1001585003464 phosphorylation site [posttranslational modification] 1001585003465 intermolecular recognition site; other site 1001585003466 dimerization interface [polypeptide binding]; other site 1001585003467 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 1001585003468 Walker A motif; other site 1001585003469 ATP binding site [chemical binding]; other site 1001585003470 Walker B motif; other site 1001585003471 arginine finger; other site 1001585003472 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1001585003473 PAS domain; Region: PAS; smart00091 1001585003474 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1001585003475 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 1001585003476 dimer interface [polypeptide binding]; other site 1001585003477 phosphorylation site [posttranslational modification] 1001585003478 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585003479 ATP binding site [chemical binding]; other site 1001585003480 Mg2+ binding site [ion binding]; other site 1001585003481 G-X-G motif; other site 1001585003482 Nuclear pore assembly and biogenesis; Region: Apq12; pfam12716 1001585003483 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1001585003484 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1001585003485 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 1001585003486 RNA binding surface [nucleotide binding]; other site 1001585003487 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1001585003488 active site 1001585003489 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1001585003490 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1001585003491 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585003492 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585003493 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 1001585003494 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1001585003495 putative active site [active] 1001585003496 putative FMN binding site [chemical binding]; other site 1001585003497 putative substrate binding site [chemical binding]; other site 1001585003498 putative catalytic residue [active] 1001585003499 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1001585003500 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 1001585003501 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585003502 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585003503 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 1001585003504 substrate binding pocket [chemical binding]; other site 1001585003505 dimerization interface [polypeptide binding]; other site 1001585003506 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 1001585003507 hydrophobic ligand binding site; other site 1001585003508 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1001585003509 thioredoxin reductase; Provisional; Region: PRK10262 1001585003510 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1001585003511 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585003512 Predicted ATPase [General function prediction only]; Region: COG4637 1001585003513 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585003514 Walker A/P-loop; other site 1001585003515 ATP binding site [chemical binding]; other site 1001585003516 short chain dehydrogenase; Provisional; Region: PRK05693 1001585003517 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1001585003518 NADP binding site [chemical binding]; other site 1001585003519 active site 1001585003520 steroid binding site; other site 1001585003521 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1001585003522 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1001585003523 Substrate binding site; other site 1001585003524 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1001585003525 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 1001585003526 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1001585003527 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 1001585003528 active site 1001585003529 Right handed beta helix region; Region: Beta_helix; pfam13229 1001585003530 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1001585003531 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1001585003532 PilZ domain; Region: PilZ; pfam07238 1001585003533 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 1001585003534 lipoyl-biotinyl attachment site [posttranslational modification]; other site 1001585003535 HlyD family secretion protein; Region: HlyD_3; pfam13437 1001585003536 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1001585003537 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1001585003538 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1001585003539 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1001585003540 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1001585003541 hypothetical protein; Validated; Region: PRK02101 1001585003542 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1001585003543 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1001585003544 putative active site [active] 1001585003545 PhoH-like protein; Region: PhoH; pfam02562 1001585003546 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 1001585003547 trimer interface [polypeptide binding]; other site 1001585003548 dimer interface [polypeptide binding]; other site 1001585003549 putative active site [active] 1001585003550 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1001585003551 MoaE interaction surface [polypeptide binding]; other site 1001585003552 MoeB interaction surface [polypeptide binding]; other site 1001585003553 thiocarboxylated glycine; other site 1001585003554 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 1001585003555 MoaE homodimer interface [polypeptide binding]; other site 1001585003556 MoaD interaction [polypeptide binding]; other site 1001585003557 active site residues [active] 1001585003558 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1001585003559 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 1001585003560 active site 1001585003561 metal binding site [ion binding]; metal-binding site 1001585003562 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1001585003563 EamA-like transporter family; Region: EamA; pfam00892 1001585003564 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1001585003565 EamA-like transporter family; Region: EamA; pfam00892 1001585003566 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 1001585003567 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1001585003568 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 1001585003569 catalytic residues [active] 1001585003570 integrase; Provisional; Region: int; PHA02601 1001585003571 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 1001585003572 active site 1001585003573 DNA binding site [nucleotide binding] 1001585003574 Int/Topo IB signature motif; other site 1001585003575 Zonular occludens toxin (Zot); Region: Zot; cl17485 1001585003576 Protein of unknown function (DUF2523); Region: DUF2523; cl10291 1001585003577 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 1001585003578 active site 1001585003579 8-oxo-dGMP binding site [chemical binding]; other site 1001585003580 nudix motif; other site 1001585003581 metal binding site [ion binding]; metal-binding site 1001585003582 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 1001585003583 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1001585003584 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 1001585003585 active site 1001585003586 AAA ATPase domain; Region: AAA_15; pfam13175 1001585003587 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585003588 Q-loop/lid; other site 1001585003589 ABC transporter signature motif; other site 1001585003590 Walker B; other site 1001585003591 D-loop; other site 1001585003592 H-loop/switch region; other site 1001585003593 GTP-binding protein YchF; Reviewed; Region: PRK09601 1001585003594 YchF GTPase; Region: YchF; cd01900 1001585003595 G1 box; other site 1001585003596 GTP/Mg2+ binding site [chemical binding]; other site 1001585003597 Switch I region; other site 1001585003598 G2 box; other site 1001585003599 Switch II region; other site 1001585003600 G3 box; other site 1001585003601 G4 box; other site 1001585003602 G5 box; other site 1001585003603 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 1001585003604 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 1001585003605 putative active site [active] 1001585003606 catalytic residue [active] 1001585003607 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1001585003608 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1001585003609 5S rRNA interface [nucleotide binding]; other site 1001585003610 CTC domain interface [polypeptide binding]; other site 1001585003611 L16 interface [polypeptide binding]; other site 1001585003612 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1001585003613 ribose-phosphate pyrophosphokinase; Region: PLN02369 1001585003614 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1001585003615 active site 1001585003616 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1001585003617 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1001585003618 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1001585003619 outer membrane lipoprotein LolB; Region: lolB; TIGR00548 1001585003620 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1001585003621 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 1001585003622 binding surface 1001585003623 TPR motif; other site 1001585003624 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 1001585003625 TPR motif; other site 1001585003626 binding surface 1001585003627 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1001585003628 TPR repeat; Region: TPR_11; pfam13414 1001585003629 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 1001585003630 binding surface 1001585003631 TPR motif; other site 1001585003632 TPR repeat; Region: TPR_11; pfam13414 1001585003633 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1001585003634 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1001585003635 tRNA; other site 1001585003636 putative tRNA binding site [nucleotide binding]; other site 1001585003637 putative NADP binding site [chemical binding]; other site 1001585003638 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1001585003639 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1001585003640 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1001585003641 RF-1 domain; Region: RF-1; pfam00472 1001585003642 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1001585003643 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 1001585003644 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1001585003645 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 1001585003646 ATP binding site [chemical binding]; other site 1001585003647 substrate interface [chemical binding]; other site 1001585003648 glutamate racemase; Provisional; Region: PRK00865 1001585003649 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1001585003650 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585003651 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585003652 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1001585003653 dimerization interface [polypeptide binding]; other site 1001585003654 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 1001585003655 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 1001585003656 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 1001585003657 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 1001585003658 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1001585003659 Low-spin heme binding site [chemical binding]; other site 1001585003660 Putative water exit pathway; other site 1001585003661 Binuclear center (active site) [active] 1001585003662 Putative proton exit pathway; other site 1001585003663 Flagellin N-methylase; Region: FliB; pfam03692 1001585003664 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 1001585003665 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1001585003666 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 1001585003667 S-adenosylmethionine binding site [chemical binding]; other site 1001585003668 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 1001585003669 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 1001585003670 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1001585003671 short chain dehydrogenase; Provisional; Region: PRK06101 1001585003672 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585003673 NAD(P) binding site [chemical binding]; other site 1001585003674 active site 1001585003675 SnoaL-like domain; Region: SnoaL_2; pfam12680 1001585003676 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 1001585003677 DNA photolyase; Region: DNA_photolyase; pfam00875 1001585003678 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 1001585003679 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 1001585003680 DNA binding residues [nucleotide binding] 1001585003681 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1001585003682 B12 binding domain; Region: B12-binding_2; pfam02607 1001585003683 Protein of unknown function (DUF523); Region: DUF523; pfam04463 1001585003684 Uncharacterized conserved protein [Function unknown]; Region: COG3272 1001585003685 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 1001585003686 Tryptophan-rich protein (DUF2389); Region: DUF2389; pfam09493 1001585003687 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1001585003688 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 1001585003689 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1001585003690 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585003691 NAD(P) binding site [chemical binding]; other site 1001585003692 active site 1001585003693 ferrochelatase; Reviewed; Region: hemH; PRK00035 1001585003694 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 1001585003695 C-terminal domain interface [polypeptide binding]; other site 1001585003696 active site 1001585003697 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 1001585003698 active site 1001585003699 N-terminal domain interface [polypeptide binding]; other site 1001585003700 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 1001585003701 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1001585003702 putative substrate translocation pore; other site 1001585003703 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 1001585003704 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585003705 substrate binding pocket [chemical binding]; other site 1001585003706 membrane-bound complex binding site; other site 1001585003707 hinge residues; other site 1001585003708 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1001585003709 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1001585003710 PhnA protein; Region: PhnA; pfam03831 1001585003711 Peptidase C26; Region: Peptidase_C26; pfam07722 1001585003712 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1001585003713 catalytic triad [active] 1001585003714 Water Stress and Hypersensitive response; Region: WHy; smart00769 1001585003715 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 1001585003716 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1001585003717 classical (c) SDRs; Region: SDR_c; cd05233 1001585003718 NAD(P) binding site [chemical binding]; other site 1001585003719 active site 1001585003720 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585003721 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585003722 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 1001585003723 CoenzymeA binding site [chemical binding]; other site 1001585003724 subunit interaction site [polypeptide binding]; other site 1001585003725 PHB binding site; other site 1001585003726 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1001585003727 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 1001585003728 putative substrate translocation pore; other site 1001585003729 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 1001585003730 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1001585003731 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585003732 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1001585003733 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 1001585003734 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1001585003735 putative substrate binding site [chemical binding]; other site 1001585003736 nucleotide binding site [chemical binding]; other site 1001585003737 nucleotide binding site [chemical binding]; other site 1001585003738 homodimer interface [polypeptide binding]; other site 1001585003739 ornithine carbamoyltransferase; Validated; Region: PRK02102 1001585003740 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1001585003741 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1001585003742 arginine deiminase; Provisional; Region: PRK01388 1001585003743 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1001585003744 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 1001585003745 Predicted transcriptional regulator [Transcription]; Region: COG3905 1001585003746 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1001585003747 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1001585003748 Glutamate binding site [chemical binding]; other site 1001585003749 NAD binding site [chemical binding]; other site 1001585003750 catalytic residues [active] 1001585003751 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1001585003752 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585003753 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585003754 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 1001585003755 putative effector binding pocket; other site 1001585003756 dimerization interface [polypeptide binding]; other site 1001585003757 LysE type translocator; Region: LysE; cl00565 1001585003758 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 1001585003759 ACT domain; Region: ACT_3; pfam10000 1001585003760 Family description; Region: ACT_7; pfam13840 1001585003761 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1001585003762 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585003763 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 1001585003764 dimerization interface [polypeptide binding]; other site 1001585003765 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1001585003766 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585003767 NAD(P) binding site [chemical binding]; other site 1001585003768 active site 1001585003769 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 1001585003770 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1001585003771 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 1001585003772 FMN binding site [chemical binding]; other site 1001585003773 active site 1001585003774 substrate binding site [chemical binding]; other site 1001585003775 catalytic residue [active] 1001585003776 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 1001585003777 dimerization interface [polypeptide binding]; other site 1001585003778 putative DNA binding site [nucleotide binding]; other site 1001585003779 putative Zn2+ binding site [ion binding]; other site 1001585003780 Protein of unknown function, DUF479; Region: DUF479; cl01203 1001585003781 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1001585003782 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1001585003783 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1001585003784 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1001585003785 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1001585003786 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1001585003787 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 1001585003788 Ligand Binding Site [chemical binding]; other site 1001585003789 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 1001585003790 Ligand Binding Site [chemical binding]; other site 1001585003791 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1001585003792 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1001585003793 putative acyl-acceptor binding pocket; other site 1001585003794 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1001585003795 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585003796 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 1001585003797 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1001585003798 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1001585003799 Beta-lactamase; Region: Beta-lactamase; pfam00144 1001585003800 YceI-like domain; Region: YceI; pfam04264 1001585003801 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1001585003802 PLD-like domain; Region: PLDc_2; pfam13091 1001585003803 putative active site [active] 1001585003804 catalytic site [active] 1001585003805 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1001585003806 PLD-like domain; Region: PLDc_2; pfam13091 1001585003807 putative active site [active] 1001585003808 catalytic site [active] 1001585003809 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1001585003810 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1001585003811 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1001585003812 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1001585003813 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1001585003814 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1001585003815 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 1001585003816 DNA binding residues [nucleotide binding] 1001585003817 dimerization interface [polypeptide binding]; other site 1001585003818 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 1001585003819 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 1001585003820 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 1001585003821 dimer interface [polypeptide binding]; other site 1001585003822 active site 1001585003823 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1001585003824 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1001585003825 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585003826 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585003827 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1001585003828 putative dimerization interface [polypeptide binding]; other site 1001585003829 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585003830 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1001585003831 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 1001585003832 active sites [active] 1001585003833 tetramer interface [polypeptide binding]; other site 1001585003834 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1001585003835 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1001585003836 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585003837 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585003838 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 1001585003839 putative dimerization interface [polypeptide binding]; other site 1001585003840 putative substrate binding pocket [chemical binding]; other site 1001585003841 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1001585003842 Ligand binding site; other site 1001585003843 metal-binding site 1001585003844 YcaO domain protein; Region: TIGR03549 1001585003845 OsmC-like protein; Region: OsmC; pfam02566 1001585003846 YcaO-like family; Region: YcaO; pfam02624 1001585003847 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585003848 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585003849 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1001585003850 putative dimerization interface [polypeptide binding]; other site 1001585003851 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 1001585003852 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585003853 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1001585003854 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1001585003855 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1001585003856 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1001585003857 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 1001585003858 dimerization interface [polypeptide binding]; other site 1001585003859 NAD binding site [chemical binding]; other site 1001585003860 ligand binding site [chemical binding]; other site 1001585003861 catalytic site [active] 1001585003862 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585003863 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 1001585003864 dimerization interface [polypeptide binding]; other site 1001585003865 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 1001585003866 dimer interface [polypeptide binding]; other site 1001585003867 phosphorylation site [posttranslational modification] 1001585003868 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585003869 ATP binding site [chemical binding]; other site 1001585003870 Mg2+ binding site [ion binding]; other site 1001585003871 G-X-G motif; other site 1001585003872 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1001585003873 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585003874 active site 1001585003875 phosphorylation site [posttranslational modification] 1001585003876 intermolecular recognition site; other site 1001585003877 dimerization interface [polypeptide binding]; other site 1001585003878 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 1001585003879 DNA binding site [nucleotide binding] 1001585003880 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1001585003881 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1001585003882 HlyD family secretion protein; Region: HlyD_3; pfam13437 1001585003883 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1001585003884 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1001585003885 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 1001585003886 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 1001585003887 putative substrate translocation pore; other site 1001585003888 Secretin and TonB N terminus short domain; Region: STN; smart00965 1001585003889 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1001585003890 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 1001585003891 N-terminal plug; other site 1001585003892 ligand-binding site [chemical binding]; other site 1001585003893 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1001585003894 FecR protein; Region: FecR; pfam04773 1001585003895 RNA polymerase sigma factor; Reviewed; Region: PRK12523 1001585003896 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585003897 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 1001585003898 DNA binding residues [nucleotide binding] 1001585003899 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1001585003900 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 1001585003901 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 1001585003902 active site 1001585003903 DNA binding site [nucleotide binding] 1001585003904 Int/Topo IB signature motif; other site 1001585003905 Arc-like DNA binding domain; Region: Arc; pfam03869 1001585003906 integrase; Provisional; Region: int; PHA02601 1001585003907 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 1001585003908 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 1001585003909 active site 1001585003910 DNA binding site [nucleotide binding] 1001585003911 Int/Topo IB signature motif; other site 1001585003912 Cache domain; Region: Cache_1; pfam02743 1001585003913 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 1001585003914 PAS fold; Region: PAS_3; pfam08447 1001585003915 putative active site [active] 1001585003916 heme pocket [chemical binding]; other site 1001585003917 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585003918 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 1001585003919 dimer interface [polypeptide binding]; other site 1001585003920 phosphorylation site [posttranslational modification] 1001585003921 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585003922 ATP binding site [chemical binding]; other site 1001585003923 Mg2+ binding site [ion binding]; other site 1001585003924 G-X-G motif; other site 1001585003925 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585003926 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585003927 active site 1001585003928 phosphorylation site [posttranslational modification] 1001585003929 intermolecular recognition site; other site 1001585003930 dimerization interface [polypeptide binding]; other site 1001585003931 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 1001585003932 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1001585003933 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1001585003934 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1001585003935 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 1001585003936 Divalent cation transporter; Region: MgtE; cl00786 1001585003937 AAA domain; Region: AAA_32; pfam13654 1001585003938 ATP-dependent protease Lon; Provisional; Region: PRK13765 1001585003939 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1001585003940 hypothetical protein; Provisional; Region: PRK05208 1001585003941 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 1001585003942 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 1001585003943 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 1001585003944 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1001585003945 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 1001585003946 dimerization interface [polypeptide binding]; other site 1001585003947 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585003948 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585003949 dimer interface [polypeptide binding]; other site 1001585003950 putative CheW interface [polypeptide binding]; other site 1001585003951 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1001585003952 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585003953 active site 1001585003954 phosphorylation site [posttranslational modification] 1001585003955 intermolecular recognition site; other site 1001585003956 dimerization interface [polypeptide binding]; other site 1001585003957 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1001585003958 Zn2+ binding site [ion binding]; other site 1001585003959 Mg2+ binding site [ion binding]; other site 1001585003960 Cache domain; Region: Cache_1; pfam02743 1001585003961 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585003962 HAMP domain; Region: HAMP; pfam00672 1001585003963 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 1001585003964 dimer interface [polypeptide binding]; other site 1001585003965 phosphorylation site [posttranslational modification] 1001585003966 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585003967 ATP binding site [chemical binding]; other site 1001585003968 Mg2+ binding site [ion binding]; other site 1001585003969 G-X-G motif; other site 1001585003970 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1001585003971 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1001585003972 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1001585003973 multidrug efflux protein; Reviewed; Region: PRK09579 1001585003974 Protein export membrane protein; Region: SecD_SecF; cl14618 1001585003975 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1001585003976 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1001585003977 HlyD family secretion protein; Region: HlyD_3; pfam13437 1001585003978 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 1001585003979 dimerization interface [polypeptide binding]; other site 1001585003980 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585003981 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585003982 dimer interface [polypeptide binding]; other site 1001585003983 putative CheW interface [polypeptide binding]; other site 1001585003984 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 1001585003985 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1001585003986 active site pocket [active] 1001585003987 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1001585003988 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585003989 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_1; cd08447 1001585003990 putative dimerization interface [polypeptide binding]; other site 1001585003991 putative substrate binding pocket [chemical binding]; other site 1001585003992 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 1001585003993 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1001585003994 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1001585003995 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1001585003996 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 1001585003997 active site 1001585003998 tetramer interface [polypeptide binding]; other site 1001585003999 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 1001585004000 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1001585004001 putative active site [active] 1001585004002 catalytic residue [active] 1001585004003 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1001585004004 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 1001585004005 active site 1001585004006 tetramer interface [polypeptide binding]; other site 1001585004007 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 1001585004008 D-galactonate transporter; Region: 2A0114; TIGR00893 1001585004009 putative substrate translocation pore; other site 1001585004010 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1001585004011 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1001585004012 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1001585004013 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1001585004014 FAD binding domain; Region: FAD_binding_4; pfam01565 1001585004015 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1001585004016 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1001585004017 putative ligand binding site [chemical binding]; other site 1001585004018 NAD binding site [chemical binding]; other site 1001585004019 catalytic site [active] 1001585004020 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1001585004021 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1001585004022 Walker A/P-loop; other site 1001585004023 ATP binding site [chemical binding]; other site 1001585004024 Q-loop/lid; other site 1001585004025 ABC transporter signature motif; other site 1001585004026 Walker B; other site 1001585004027 D-loop; other site 1001585004028 H-loop/switch region; other site 1001585004029 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1001585004030 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1001585004031 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 1001585004032 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1001585004033 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 1001585004034 Walker A motif; other site 1001585004035 ATP binding site [chemical binding]; other site 1001585004036 Walker B motif; other site 1001585004037 arginine finger; other site 1001585004038 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1001585004039 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1001585004040 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585004041 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585004042 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 1001585004043 dimer interface [polypeptide binding]; other site 1001585004044 active site 1001585004045 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 1001585004046 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1001585004047 active site 1001585004048 metal binding site [ion binding]; metal-binding site 1001585004049 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1001585004050 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1001585004051 active site 1001585004052 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1001585004053 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1001585004054 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 1001585004055 Switch I; other site 1001585004056 Switch II; other site 1001585004057 septum formation inhibitor; Reviewed; Region: minC; PRK00339 1001585004058 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1001585004059 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1001585004060 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1001585004061 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1001585004062 putative acyl-acceptor binding pocket; other site 1001585004063 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1001585004064 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1001585004065 active site 1001585004066 nucleophile elbow; other site 1001585004067 Pirin-related protein [General function prediction only]; Region: COG1741 1001585004068 Pirin; Region: Pirin; pfam02678 1001585004069 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1001585004070 VacJ like lipoprotein; Region: VacJ; cl01073 1001585004071 Predicted membrane protein [Function unknown]; Region: COG3205 1001585004072 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 1001585004073 short chain dehydrogenase; Provisional; Region: PRK05650 1001585004074 classical (c) SDRs; Region: SDR_c; cd05233 1001585004075 NAD(P) binding site [chemical binding]; other site 1001585004076 active site 1001585004077 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1001585004078 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 1001585004079 putative substrate translocation pore; other site 1001585004080 hypothetical protein; Provisional; Region: PRK02237 1001585004081 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 1001585004082 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1001585004083 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 1001585004084 dimer interface [polypeptide binding]; other site 1001585004085 substrate binding site [chemical binding]; other site 1001585004086 metal binding sites [ion binding]; metal-binding site 1001585004087 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1001585004088 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1001585004089 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1001585004090 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1001585004091 Na binding site [ion binding]; other site 1001585004092 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 1001585004093 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1001585004094 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1001585004095 Transglycosylase; Region: Transgly; cl17702 1001585004096 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1001585004097 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 1001585004098 S-adenosylmethionine binding site [chemical binding]; other site 1001585004099 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 1001585004100 active site 1001585004101 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 1001585004102 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1001585004103 active site 1001585004104 catalytic tetrad [active] 1001585004105 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1001585004106 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 1001585004107 dimer interface [polypeptide binding]; other site 1001585004108 motif 1; other site 1001585004109 active site 1001585004110 motif 2; other site 1001585004111 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 1001585004112 putative deacylase active site [active] 1001585004113 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 1001585004114 active site 1001585004115 motif 3; other site 1001585004116 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 1001585004117 anticodon binding site; other site 1001585004118 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 1001585004119 CoenzymeA binding site [chemical binding]; other site 1001585004120 subunit interaction site [polypeptide binding]; other site 1001585004121 PHB binding site; other site 1001585004122 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585004123 HIT domain; Region: HIT; pfam01230 1001585004124 nucleotide binding site/active site [active] 1001585004125 HIT family signature motif; other site 1001585004126 catalytic residue [active] 1001585004127 hypothetical protein; Provisional; Region: PRK00295 1001585004128 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 1001585004129 DNA-binding site [nucleotide binding]; DNA binding site 1001585004130 RNA-binding motif; other site 1001585004131 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585004132 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585004133 metal binding site [ion binding]; metal-binding site 1001585004134 active site 1001585004135 I-site; other site 1001585004136 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1001585004137 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1001585004138 dimerization interface [polypeptide binding]; other site 1001585004139 DPS ferroxidase diiron center [ion binding]; other site 1001585004140 ion pore; other site 1001585004141 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1001585004142 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 1001585004143 dimer interface [polypeptide binding]; other site 1001585004144 anticodon binding site; other site 1001585004145 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 1001585004146 homodimer interface [polypeptide binding]; other site 1001585004147 motif 1; other site 1001585004148 active site 1001585004149 motif 2; other site 1001585004150 GAD domain; Region: GAD; pfam02938 1001585004151 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 1001585004152 active site 1001585004153 motif 3; other site 1001585004154 hypothetical protein; Validated; Region: PRK00110 1001585004155 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 1001585004156 active site 1001585004157 putative DNA-binding cleft [nucleotide binding]; other site 1001585004158 dimer interface [polypeptide binding]; other site 1001585004159 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1001585004160 RuvA N terminal domain; Region: RuvA_N; pfam01330 1001585004161 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1001585004162 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1001585004163 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 1001585004164 Walker A motif; other site 1001585004165 ATP binding site [chemical binding]; other site 1001585004166 Walker B motif; other site 1001585004167 arginine finger; other site 1001585004168 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1001585004169 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 1001585004170 active site 1001585004171 TolQ protein; Region: tolQ; TIGR02796 1001585004172 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1001585004173 TolR protein; Region: tolR; TIGR02801 1001585004174 TolA protein; Region: tolA_full; TIGR02794 1001585004175 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 1001585004176 translocation protein TolB; Provisional; Region: tolB; PRK00178 1001585004177 TolB amino-terminal domain; Region: TolB_N; pfam04052 1001585004178 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1001585004179 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1001585004180 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1001585004181 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1001585004182 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585004183 ligand binding site [chemical binding]; other site 1001585004184 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1001585004185 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1001585004186 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 1001585004187 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 1001585004188 FeS/SAM binding site; other site 1001585004189 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 1001585004190 Ligand Binding Site [chemical binding]; other site 1001585004191 quinolinate synthetase; Provisional; Region: PRK09375 1001585004192 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1001585004193 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1001585004194 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1001585004195 Beta-Casp domain; Region: Beta-Casp; smart01027 1001585004196 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1001585004197 Domain of unknown function (DUF4146); Region: DUF4146; pfam13652 1001585004198 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 1001585004199 Uncharacterized conserved protein [Function unknown]; Region: COG3148 1001585004200 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1001585004201 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585004202 active site 1001585004203 phosphorylation site [posttranslational modification] 1001585004204 intermolecular recognition site; other site 1001585004205 dimerization interface [polypeptide binding]; other site 1001585004206 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 1001585004207 DNA binding residues [nucleotide binding] 1001585004208 dimerization interface [polypeptide binding]; other site 1001585004209 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1001585004210 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1001585004211 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585004212 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 1001585004213 putative dimerization interface [polypeptide binding]; other site 1001585004214 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1001585004215 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 1001585004216 FAD binding pocket [chemical binding]; other site 1001585004217 FAD binding motif [chemical binding]; other site 1001585004218 phosphate binding motif [ion binding]; other site 1001585004219 beta-alpha-beta structure motif; other site 1001585004220 NAD binding pocket [chemical binding]; other site 1001585004221 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 1001585004222 substrate binding site [chemical binding]; other site 1001585004223 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1001585004224 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1001585004225 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585004226 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585004227 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1001585004228 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 1001585004229 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1001585004230 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1001585004231 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1001585004232 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; cl17426 1001585004233 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1001585004234 folate binding site [chemical binding]; other site 1001585004235 NADP+ binding site [chemical binding]; other site 1001585004236 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 1001585004237 helicase 45; Provisional; Region: PTZ00424 1001585004238 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 1001585004239 ATP binding site [chemical binding]; other site 1001585004240 Mg++ binding site [ion binding]; other site 1001585004241 motif III; other site 1001585004242 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 1001585004243 nucleotide binding region [chemical binding]; other site 1001585004244 ATP-binding site [chemical binding]; other site 1001585004245 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1001585004246 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1001585004247 Walker A/P-loop; other site 1001585004248 ATP binding site [chemical binding]; other site 1001585004249 Q-loop/lid; other site 1001585004250 ABC transporter signature motif; other site 1001585004251 Walker B; other site 1001585004252 D-loop; other site 1001585004253 H-loop/switch region; other site 1001585004254 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1001585004255 hypothetical protein; Provisional; Region: PRK09256 1001585004256 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1001585004257 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 1001585004258 active site 1001585004259 dimer interfaces [polypeptide binding]; other site 1001585004260 catalytic residues [active] 1001585004261 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1001585004262 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1001585004263 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1001585004264 phosphogluconate dehydratase; Validated; Region: PRK09054 1001585004265 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1001585004266 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1001585004267 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1001585004268 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1001585004269 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1001585004270 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 1001585004271 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 1001585004272 non-specific DNA binding site [nucleotide binding]; other site 1001585004273 salt bridge; other site 1001585004274 sequence-specific DNA binding site [nucleotide binding]; other site 1001585004275 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 1001585004276 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 1001585004277 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585004278 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585004279 metal binding site [ion binding]; metal-binding site 1001585004280 active site 1001585004281 I-site; other site 1001585004282 carboxy-terminal protease; Provisional; Region: PRK11186 1001585004283 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1001585004284 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 1001585004285 protein binding site [polypeptide binding]; other site 1001585004286 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1001585004287 Catalytic dyad [active] 1001585004288 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1001585004289 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1001585004290 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1001585004291 NAD(P) binding site [chemical binding]; other site 1001585004292 peroxiredoxin; Region: AhpC; TIGR03137 1001585004293 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 1001585004294 dimer interface [polypeptide binding]; other site 1001585004295 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1001585004296 catalytic triad [active] 1001585004297 peroxidatic and resolving cysteines [active] 1001585004298 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1001585004299 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 1001585004300 catalytic residue [active] 1001585004301 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 1001585004302 catalytic residues [active] 1001585004303 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1001585004304 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585004305 hypothetical protein; Provisional; Region: PRK11171 1001585004306 Cupin domain; Region: Cupin_2; pfam07883 1001585004307 Cupin domain; Region: Cupin_2; pfam07883 1001585004308 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585004309 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585004310 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 1001585004311 dimerization interface [polypeptide binding]; other site 1001585004312 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1001585004313 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1001585004314 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1001585004315 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585004316 Walker A/P-loop; other site 1001585004317 ATP binding site [chemical binding]; other site 1001585004318 Q-loop/lid; other site 1001585004319 ABC transporter signature motif; other site 1001585004320 Walker B; other site 1001585004321 D-loop; other site 1001585004322 H-loop/switch region; other site 1001585004323 TOBE domain; Region: TOBE_2; pfam08402 1001585004324 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1001585004325 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585004326 dimer interface [polypeptide binding]; other site 1001585004327 conserved gate region; other site 1001585004328 putative PBP binding loops; other site 1001585004329 ABC-ATPase subunit interface; other site 1001585004330 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1001585004331 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585004332 dimer interface [polypeptide binding]; other site 1001585004333 conserved gate region; other site 1001585004334 putative PBP binding loops; other site 1001585004335 ABC-ATPase subunit interface; other site 1001585004336 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 1001585004337 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1001585004338 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1001585004339 transcriptional regulator protein; Region: phnR; TIGR03337 1001585004340 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585004341 DNA-binding site [nucleotide binding]; DNA binding site 1001585004342 UTRA domain; Region: UTRA; pfam07702 1001585004343 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1001585004344 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 1001585004345 SnoaL-like domain; Region: SnoaL_3; pfam13474 1001585004346 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1001585004347 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1001585004348 Sel1-like repeats; Region: SEL1; smart00671 1001585004349 Sel1-like repeats; Region: SEL1; smart00671 1001585004350 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 1001585004351 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1001585004352 active site 1001585004353 Zn binding site [ion binding]; other site 1001585004354 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585004355 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 1001585004356 putative substrate binding pocket [chemical binding]; other site 1001585004357 trimer interface [polypeptide binding]; other site 1001585004358 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1001585004359 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1001585004360 DNA binding residues [nucleotide binding] 1001585004361 dimer interface [polypeptide binding]; other site 1001585004362 [2Fe-2S] cluster binding site [ion binding]; other site 1001585004363 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1001585004364 Predicted flavoprotein [General function prediction only]; Region: COG0431 1001585004365 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 1001585004366 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1001585004367 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1001585004368 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 1001585004369 dimer interface [polypeptide binding]; other site 1001585004370 active site 1001585004371 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1001585004372 folate binding site [chemical binding]; other site 1001585004373 glycine dehydrogenase; Provisional; Region: PRK05367 1001585004374 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 1001585004375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585004376 tetramer interface [polypeptide binding]; other site 1001585004377 catalytic residue [active] 1001585004378 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 1001585004379 tetramer interface [polypeptide binding]; other site 1001585004380 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585004381 catalytic residue [active] 1001585004382 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 1001585004383 lipoyl attachment site [posttranslational modification]; other site 1001585004384 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1001585004385 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 1001585004386 E-class dimer interface [polypeptide binding]; other site 1001585004387 P-class dimer interface [polypeptide binding]; other site 1001585004388 active site 1001585004389 Cu2+ binding site [ion binding]; other site 1001585004390 Zn2+ binding site [ion binding]; other site 1001585004391 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1001585004392 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 1001585004393 putative aromatic amino acid binding site; other site 1001585004394 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 1001585004395 Walker A motif; other site 1001585004396 ATP binding site [chemical binding]; other site 1001585004397 Walker B motif; other site 1001585004398 arginine finger; other site 1001585004399 DNA-specific endonuclease I; Provisional; Region: PRK15137 1001585004400 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 1001585004401 Na(+)- and Cl(-)-dependent choline cotransporter CHT and related proteins; solute-binding domain; Region: SLC5sbd_CHT; cd11474 1001585004402 Na binding site [ion binding]; other site 1001585004403 putative glycosylation site [posttranslational modification]; other site 1001585004404 putative glycosylation site [posttranslational modification]; other site 1001585004405 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 1001585004406 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 1001585004407 catalytic residues [active] 1001585004408 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1001585004409 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1001585004410 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 1001585004411 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585004412 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 1001585004413 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 1001585004414 RNA binding surface [nucleotide binding]; other site 1001585004415 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1001585004416 active site 1001585004417 uracil binding [chemical binding]; other site 1001585004418 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 1001585004419 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585004420 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585004421 metal binding site [ion binding]; metal-binding site 1001585004422 active site 1001585004423 I-site; other site 1001585004424 urea carboxylase; Region: urea_carbox; TIGR02712 1001585004425 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1001585004426 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1001585004427 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 1001585004428 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 1001585004429 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 1001585004430 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 1001585004431 carboxyltransferase (CT) interaction site; other site 1001585004432 biotinylation site [posttranslational modification]; other site 1001585004433 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 1001585004434 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 1001585004435 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 1001585004436 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 1001585004437 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1001585004438 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 1001585004439 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1001585004440 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1001585004441 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1001585004442 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1001585004443 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 1001585004444 Walker A/P-loop; other site 1001585004445 ATP binding site [chemical binding]; other site 1001585004446 Q-loop/lid; other site 1001585004447 ABC transporter signature motif; other site 1001585004448 Walker B; other site 1001585004449 D-loop; other site 1001585004450 H-loop/switch region; other site 1001585004451 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1001585004452 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585004453 putative PBP binding loops; other site 1001585004454 dimer interface [polypeptide binding]; other site 1001585004455 ABC-ATPase subunit interface; other site 1001585004456 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 1001585004457 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 1001585004458 Hpr binding site; other site 1001585004459 active site 1001585004460 sulfotransferase; Region: PLN02164 1001585004461 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1001585004462 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 1001585004463 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 1001585004464 Walker A motif; other site 1001585004465 ATP binding site [chemical binding]; other site 1001585004466 Walker B motif; other site 1001585004467 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 1001585004468 metal ion-dependent adhesion site (MIDAS); other site 1001585004469 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 1001585004470 active site 1001585004471 dimer interface [polypeptide binding]; other site 1001585004472 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 1001585004473 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 1001585004474 Ligand Binding Site [chemical binding]; other site 1001585004475 Molecular Tunnel; other site 1001585004476 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1001585004477 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1001585004478 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1001585004479 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 1001585004480 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1001585004481 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585004482 NAD(P) binding site [chemical binding]; other site 1001585004483 active site 1001585004484 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 1001585004485 active site 1001585004486 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 1001585004487 dimer interface [polypeptide binding]; other site 1001585004488 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 1001585004489 Ligand Binding Site [chemical binding]; other site 1001585004490 Molecular Tunnel; other site 1001585004491 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1001585004492 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 1001585004493 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 1001585004494 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1001585004495 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1001585004496 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585004497 Walker A/P-loop; other site 1001585004498 ATP binding site [chemical binding]; other site 1001585004499 Q-loop/lid; other site 1001585004500 ABC transporter signature motif; other site 1001585004501 Walker B; other site 1001585004502 D-loop; other site 1001585004503 H-loop/switch region; other site 1001585004504 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 1001585004505 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 1001585004506 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 1001585004507 HAMP domain; Region: HAMP; pfam00672 1001585004508 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585004509 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585004510 metal binding site [ion binding]; metal-binding site 1001585004511 active site 1001585004512 I-site; other site 1001585004513 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 1001585004514 VCBS repeat; Region: VCBS_repeat; TIGR01965 1001585004515 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 1001585004516 Ca2+ binding site [ion binding]; other site 1001585004517 VCBS repeat; Region: VCBS_repeat; TIGR01965 1001585004518 VCBS repeat; Region: VCBS_repeat; TIGR01965 1001585004519 VCBS repeat; Region: VCBS_repeat; TIGR01965 1001585004520 VCBS repeat; Region: VCBS_repeat; TIGR01965 1001585004521 VCBS repeat; Region: VCBS_repeat; TIGR01965 1001585004522 VCBS repeat; Region: VCBS_repeat; TIGR01965 1001585004523 VCBS repeat; Region: VCBS_repeat; TIGR01965 1001585004524 VCBS repeat; Region: VCBS_repeat; TIGR01965 1001585004525 PA14 domain; Region: PA14; cl08459 1001585004526 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 1001585004527 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 1001585004528 Ca2+ binding site [ion binding]; other site 1001585004529 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 1001585004530 Ca2+ binding site [ion binding]; other site 1001585004531 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 1001585004532 Ca2+ binding site [ion binding]; other site 1001585004533 PA14 domain; Region: PA14; cl08459 1001585004534 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 1001585004535 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1001585004536 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1001585004537 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 1001585004538 putative active site [active] 1001585004539 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1001585004540 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 1001585004541 Walker A/P-loop; other site 1001585004542 ATP binding site [chemical binding]; other site 1001585004543 Q-loop/lid; other site 1001585004544 ABC transporter signature motif; other site 1001585004545 Walker B; other site 1001585004546 D-loop; other site 1001585004547 H-loop/switch region; other site 1001585004548 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1001585004549 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1001585004550 HlyD family secretion protein; Region: HlyD_3; pfam13437 1001585004551 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1001585004552 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1001585004553 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1001585004554 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 1001585004555 substrate binding site [chemical binding]; other site 1001585004556 oxyanion hole (OAH) forming residues; other site 1001585004557 trimer interface [polypeptide binding]; other site 1001585004558 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1001585004559 enoyl-CoA hydratase; Provisional; Region: PRK09076 1001585004560 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 1001585004561 substrate binding site [chemical binding]; other site 1001585004562 oxyanion hole (OAH) forming residues; other site 1001585004563 trimer interface [polypeptide binding]; other site 1001585004564 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585004565 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 1001585004566 substrate binding pocket [chemical binding]; other site 1001585004567 FAD binding site [chemical binding]; other site 1001585004568 catalytic base [active] 1001585004569 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1001585004570 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 1001585004571 putative ligand binding site [chemical binding]; other site 1001585004572 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1001585004573 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1001585004574 tetrameric interface [polypeptide binding]; other site 1001585004575 NAD binding site [chemical binding]; other site 1001585004576 catalytic residues [active] 1001585004577 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1001585004578 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1001585004579 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585004580 HDOD domain; Region: HDOD; pfam08668 1001585004581 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1001585004582 ligand binding site [chemical binding]; other site 1001585004583 active site 1001585004584 UGI interface [polypeptide binding]; other site 1001585004585 catalytic site [active] 1001585004586 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 1001585004587 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1001585004588 Walker A/P-loop; other site 1001585004589 ATP binding site [chemical binding]; other site 1001585004590 Q-loop/lid; other site 1001585004591 ABC transporter signature motif; other site 1001585004592 Walker B; other site 1001585004593 D-loop; other site 1001585004594 H-loop/switch region; other site 1001585004595 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1001585004596 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1001585004597 Walker A/P-loop; other site 1001585004598 ATP binding site [chemical binding]; other site 1001585004599 Q-loop/lid; other site 1001585004600 ABC transporter signature motif; other site 1001585004601 Walker B; other site 1001585004602 D-loop; other site 1001585004603 H-loop/switch region; other site 1001585004604 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1001585004605 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1001585004606 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 1001585004607 TM-ABC transporter signature motif; other site 1001585004608 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1001585004609 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 1001585004610 TM-ABC transporter signature motif; other site 1001585004611 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1001585004612 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 1001585004613 dimerization interface [polypeptide binding]; other site 1001585004614 ligand binding site [chemical binding]; other site 1001585004615 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 1001585004616 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 1001585004617 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1001585004618 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1001585004619 dimer interface [polypeptide binding]; other site 1001585004620 catalytic site [active] 1001585004621 putative active site [active] 1001585004622 putative substrate binding site [chemical binding]; other site 1001585004623 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 1001585004624 active site 1001585004625 substrate binding pocket [chemical binding]; other site 1001585004626 dimer interface [polypeptide binding]; other site 1001585004627 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1001585004628 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585004629 ligand binding site [chemical binding]; other site 1001585004630 argininosuccinate synthase; Provisional; Region: PRK13820 1001585004631 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 1001585004632 ANP binding site [chemical binding]; other site 1001585004633 Substrate Binding Site II [chemical binding]; other site 1001585004634 Substrate Binding Site I [chemical binding]; other site 1001585004635 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1001585004636 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1001585004637 dimer interface [polypeptide binding]; other site 1001585004638 active site 1001585004639 glutathione binding site [chemical binding]; other site 1001585004640 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1001585004641 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1001585004642 minor groove reading motif; other site 1001585004643 helix-hairpin-helix signature motif; other site 1001585004644 substrate binding pocket [chemical binding]; other site 1001585004645 active site 1001585004646 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1001585004647 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1001585004648 FMN-binding domain; Region: FMN_bind; cl01081 1001585004649 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 1001585004650 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 1001585004651 SLBB domain; Region: SLBB; pfam10531 1001585004652 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 1001585004653 Membrane fusogenic activity; Region: BMFP; pfam04380 1001585004654 ferredoxin; Provisional; Region: PRK08764 1001585004655 Putative Fe-S cluster; Region: FeS; pfam04060 1001585004656 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1001585004657 electron transport complex protein RsxA; Provisional; Region: PRK05151 1001585004658 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 1001585004659 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 1001585004660 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1001585004661 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1001585004662 active site 1001585004663 HIGH motif; other site 1001585004664 KMSKS motif; other site 1001585004665 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1001585004666 tRNA binding surface [nucleotide binding]; other site 1001585004667 anticodon binding site; other site 1001585004668 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 1001585004669 dimer interface [polypeptide binding]; other site 1001585004670 putative tRNA-binding site [nucleotide binding]; other site 1001585004671 antiporter inner membrane protein; Provisional; Region: PRK11670 1001585004672 Domain of unknown function DUF59; Region: DUF59; pfam01883 1001585004673 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 1001585004674 Walker A motif; other site 1001585004675 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 1001585004676 DNA-binding site [nucleotide binding]; DNA binding site 1001585004677 RNA-binding motif; other site 1001585004678 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1001585004679 trimer interface [polypeptide binding]; other site 1001585004680 active site 1001585004681 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 1001585004682 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1001585004683 homodimer interface [polypeptide binding]; other site 1001585004684 NAD binding pocket [chemical binding]; other site 1001585004685 ATP binding pocket [chemical binding]; other site 1001585004686 Mg binding site [ion binding]; other site 1001585004687 active-site loop [active] 1001585004688 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1001585004689 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 1001585004690 active site 1001585004691 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 1001585004692 catalytic triad [active] 1001585004693 metal binding site [ion binding]; metal-binding site 1001585004694 conserved cis-peptide bond; other site 1001585004695 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1001585004696 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1001585004697 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 1001585004698 active site 1001585004699 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 1001585004700 SEC-C motif; Region: SEC-C; pfam02810 1001585004701 Water Stress and Hypersensitive response; Region: WHy; smart00769 1001585004702 hypothetical protein; Provisional; Region: PRK00183 1001585004703 SEC-C motif; Region: SEC-C; pfam02810 1001585004704 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585004705 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1001585004706 ligand binding site [chemical binding]; other site 1001585004707 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 1001585004708 Predicted integral membrane protein [Function unknown]; Region: COG5615 1001585004709 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 1001585004710 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 1001585004711 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1001585004712 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 1001585004713 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 1001585004714 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1001585004715 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 1001585004716 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 1001585004717 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1001585004718 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1001585004719 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1001585004720 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1001585004721 Beta-lactamase; Region: Beta-lactamase; pfam00144 1001585004722 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1001585004723 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585004724 ligand binding site [chemical binding]; other site 1001585004725 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1001585004726 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1001585004727 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1001585004728 putative kissing complex interaction region; other site 1001585004729 putative RNA binding sites [nucleotide binding]; other site 1001585004730 ProQ/FINO family; Region: ProQ; pfam04352 1001585004731 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 1001585004732 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1001585004733 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1001585004734 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1001585004735 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1001585004736 GntP family permease; Region: GntP_permease; pfam02447 1001585004737 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1001585004738 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1001585004739 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1001585004740 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1001585004741 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 1001585004742 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 1001585004743 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1001585004744 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1001585004745 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1001585004746 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1001585004747 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1001585004748 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 1001585004749 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1001585004750 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585004751 Coenzyme A binding pocket [chemical binding]; other site 1001585004752 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1001585004753 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1001585004754 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1001585004755 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 1001585004756 putative substrate translocation pore; other site 1001585004757 Predicted membrane protein [Function unknown]; Region: COG3650 1001585004758 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 1001585004759 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 1001585004760 probable active site [active] 1001585004761 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1001585004762 Putative ammonia monooxygenase; Region: AmoA; pfam05145 1001585004763 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1001585004764 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1001585004765 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1001585004766 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585004767 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1001585004768 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585004769 active site 1001585004770 phosphorylation site [posttranslational modification] 1001585004771 intermolecular recognition site; other site 1001585004772 dimerization interface [polypeptide binding]; other site 1001585004773 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 1001585004774 DNA binding site [nucleotide binding] 1001585004775 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1001585004776 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585004777 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 1001585004778 dimer interface [polypeptide binding]; other site 1001585004779 phosphorylation site [posttranslational modification] 1001585004780 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585004781 ATP binding site [chemical binding]; other site 1001585004782 G-X-G motif; other site 1001585004783 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585004784 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 1001585004785 substrate binding pocket [chemical binding]; other site 1001585004786 membrane-bound complex binding site; other site 1001585004787 hinge residues; other site 1001585004788 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1001585004789 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1001585004790 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1001585004791 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1001585004792 L-aspartate oxidase; Provisional; Region: PRK09077 1001585004793 L-aspartate oxidase; Provisional; Region: PRK06175 1001585004794 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1001585004795 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 1001585004796 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585004797 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 1001585004798 DNA binding residues [nucleotide binding] 1001585004799 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 1001585004800 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1001585004801 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 1001585004802 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1001585004803 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 1001585004804 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1001585004805 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1001585004806 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 1001585004807 protein binding site [polypeptide binding]; other site 1001585004808 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 1001585004809 protein binding site [polypeptide binding]; other site 1001585004810 GTP-binding protein LepA; Provisional; Region: PRK05433 1001585004811 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1001585004812 G1 box; other site 1001585004813 putative GEF interaction site [polypeptide binding]; other site 1001585004814 GTP/Mg2+ binding site [chemical binding]; other site 1001585004815 Switch I region; other site 1001585004816 G2 box; other site 1001585004817 G3 box; other site 1001585004818 Switch II region; other site 1001585004819 G4 box; other site 1001585004820 G5 box; other site 1001585004821 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 1001585004822 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 1001585004823 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1001585004824 signal peptidase I; Provisional; Region: PRK10861 1001585004825 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 1001585004826 Catalytic site [active] 1001585004827 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 1001585004828 ribonuclease III; Reviewed; Region: rnc; PRK00102 1001585004829 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 1001585004830 dimerization interface [polypeptide binding]; other site 1001585004831 active site 1001585004832 metal binding site [ion binding]; metal-binding site 1001585004833 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 1001585004834 dsRNA binding site [nucleotide binding]; other site 1001585004835 GTPase Era; Reviewed; Region: era; PRK00089 1001585004836 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1001585004837 G1 box; other site 1001585004838 GTP/Mg2+ binding site [chemical binding]; other site 1001585004839 Switch I region; other site 1001585004840 G2 box; other site 1001585004841 Switch II region; other site 1001585004842 G3 box; other site 1001585004843 G4 box; other site 1001585004844 G5 box; other site 1001585004845 KH domain; Region: KH_2; pfam07650 1001585004846 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1001585004847 Recombination protein O N terminal; Region: RecO_N; pfam11967 1001585004848 Recombination protein O C terminal; Region: RecO_C; pfam02565 1001585004849 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 1001585004850 active site 1001585004851 hydrophilic channel; other site 1001585004852 dimerization interface [polypeptide binding]; other site 1001585004853 catalytic residues [active] 1001585004854 active site lid [active] 1001585004855 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1001585004856 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585004857 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 1001585004858 dimerization interface [polypeptide binding]; other site 1001585004859 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1001585004860 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 1001585004861 S-adenosylmethionine binding site [chemical binding]; other site 1001585004862 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 1001585004863 S-adenosylmethionine binding site [chemical binding]; other site 1001585004864 YhhN-like protein; Region: YhhN; pfam07947 1001585004865 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1001585004866 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585004867 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1001585004868 DNA binding residues [nucleotide binding] 1001585004869 ATP-dependent helicase HepA; Validated; Region: PRK04914 1001585004870 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 1001585004871 ATP binding site [chemical binding]; other site 1001585004872 putative Mg++ binding site [ion binding]; other site 1001585004873 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 1001585004874 nucleotide binding region [chemical binding]; other site 1001585004875 ATP-binding site [chemical binding]; other site 1001585004876 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 1001585004877 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1001585004878 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1001585004879 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1001585004880 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1001585004881 HlyD family secretion protein; Region: HlyD_3; pfam13437 1001585004882 cytosine deaminase; Provisional; Region: PRK09230 1001585004883 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 1001585004884 active site 1001585004885 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 1001585004886 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1001585004887 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1001585004888 cytosine permease; Provisional; Region: codB; PRK11017 1001585004889 Na binding site [ion binding]; other site 1001585004890 (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 1001585004891 dimer interaction site [polypeptide binding]; other site 1001585004892 substrate-binding tunnel; other site 1001585004893 active site 1001585004894 catalytic site [active] 1001585004895 substrate binding site [chemical binding]; other site 1001585004896 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1001585004897 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1001585004898 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1001585004899 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 1001585004900 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1001585004901 acyl-activating enzyme (AAE) consensus motif; other site 1001585004902 putative AMP binding site [chemical binding]; other site 1001585004903 putative active site [active] 1001585004904 putative CoA binding site [chemical binding]; other site 1001585004905 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 1001585004906 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1001585004907 acyl-activating enzyme (AAE) consensus motif; other site 1001585004908 putative AMP binding site [chemical binding]; other site 1001585004909 putative active site [active] 1001585004910 putative CoA binding site [chemical binding]; other site 1001585004911 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 1001585004912 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585004913 DNA-binding site [nucleotide binding]; DNA binding site 1001585004914 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 1001585004915 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585004916 homodimer interface [polypeptide binding]; other site 1001585004917 catalytic residue [active] 1001585004918 benzoate transporter; Region: benE; TIGR00843 1001585004919 Benzoate membrane transport protein; Region: BenE; pfam03594 1001585004920 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1001585004921 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1001585004922 catalytic residue [active] 1001585004923 acetylornithine aminotransferase; Provisional; Region: PRK02627 1001585004924 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 1001585004925 inhibitor-cofactor binding pocket; inhibition site 1001585004926 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585004927 catalytic residue [active] 1001585004928 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1001585004929 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 1001585004930 dimer interface [polypeptide binding]; other site 1001585004931 active site 1001585004932 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1001585004933 folate binding site [chemical binding]; other site 1001585004934 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 1001585004935 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1001585004936 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 1001585004937 dimerization interface [polypeptide binding]; other site 1001585004938 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585004939 dimer interface [polypeptide binding]; other site 1001585004940 putative CheW interface [polypeptide binding]; other site 1001585004941 putative cyanate transporter; Provisional; Region: cynX; PRK09705 1001585004942 MarR family; Region: MarR_2; cl17246 1001585004943 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1001585004944 hypothetical protein; Provisional; Region: PRK06815 1001585004945 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 1001585004946 tetramer interface [polypeptide binding]; other site 1001585004947 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585004948 catalytic residue [active] 1001585004949 ornithine cyclodeaminase; Validated; Region: PRK06823 1001585004950 ectoine utilization protein EutC; Validated; Region: PRK08291 1001585004951 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1001585004952 YheO-like PAS domain; Region: PAS_6; pfam08348 1001585004953 HTH domain; Region: HTH_22; pfam13309 1001585004954 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585004955 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_10; cd08480 1001585004956 putative effector binding pocket; other site 1001585004957 putative dimerization interface [polypeptide binding]; other site 1001585004958 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 1001585004959 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1001585004960 putative substrate translocation pore; other site 1001585004961 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1001585004962 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1001585004963 trimer interface [polypeptide binding]; other site 1001585004964 active site 1001585004965 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 1001585004966 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 1001585004967 ATP binding site [chemical binding]; other site 1001585004968 putative Mg++ binding site [ion binding]; other site 1001585004969 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 1001585004970 nucleotide binding region [chemical binding]; other site 1001585004971 ATP-binding site [chemical binding]; other site 1001585004972 Helicase associated domain (HA2); Region: HA2; pfam04408 1001585004973 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1001585004974 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1001585004975 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 1001585004976 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1001585004977 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1001585004978 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1001585004979 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 1001585004980 D-pathway; other site 1001585004981 Putative ubiquinol binding site [chemical binding]; other site 1001585004982 Low-spin heme (heme b) binding site [chemical binding]; other site 1001585004983 Putative water exit pathway; other site 1001585004984 Binuclear center (heme o3/CuB) [ion binding]; other site 1001585004985 K-pathway; other site 1001585004986 Putative proton exit pathway; other site 1001585004987 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 1001585004988 Subunit I/III interface [polypeptide binding]; other site 1001585004989 Subunit III/IV interface [polypeptide binding]; other site 1001585004990 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 1001585004991 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 1001585004992 UbiA prenyltransferase family; Region: UbiA; pfam01040 1001585004993 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1001585004994 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1001585004995 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1001585004996 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1001585004997 active site 1001585004998 arsenical pump membrane protein; Provisional; Region: PRK15445 1001585004999 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 1001585005000 transmembrane helices; other site 1001585005001 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 1001585005002 dimerization interface [polypeptide binding]; other site 1001585005003 putative DNA binding site [nucleotide binding]; other site 1001585005004 putative Zn2+ binding site [ion binding]; other site 1001585005005 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1001585005006 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1001585005007 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1001585005008 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1001585005009 dimerization interface [polypeptide binding]; other site 1001585005010 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585005011 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585005012 dimer interface [polypeptide binding]; other site 1001585005013 putative CheW interface [polypeptide binding]; other site 1001585005014 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 1001585005015 GSH binding site [chemical binding]; other site 1001585005016 catalytic residues [active] 1001585005017 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1001585005018 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1001585005019 Cupin; Region: Cupin_6; pfam12852 1001585005020 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1001585005021 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585005022 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585005023 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 1001585005024 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1001585005025 classical (c) SDRs; Region: SDR_c; cd05233 1001585005026 NAD(P) binding site [chemical binding]; other site 1001585005027 active site 1001585005028 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 1001585005029 Citrate transporter; Region: CitMHS; pfam03600 1001585005030 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1001585005031 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585005032 DNA-binding site [nucleotide binding]; DNA binding site 1001585005033 UTRA domain; Region: UTRA; pfam07702 1001585005034 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 1001585005035 active site 1001585005036 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 1001585005037 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1001585005038 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 1001585005039 Predicted periplasmic protein [Function unknown]; Region: COG3904 1001585005040 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1001585005041 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 1001585005042 putative substrate translocation pore; other site 1001585005043 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585005044 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585005045 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 1001585005046 putative effector binding pocket; other site 1001585005047 putative dimerization interface [polypeptide binding]; other site 1001585005048 short chain dehydrogenase; Provisional; Region: PRK05854 1001585005049 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 1001585005050 putative NAD(P) binding site [chemical binding]; other site 1001585005051 active site 1001585005052 TLC ATP/ADP transporter; Region: TLC; cl03940 1001585005053 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1001585005054 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 1001585005055 C-terminal domain interface [polypeptide binding]; other site 1001585005056 GSH binding site (G-site) [chemical binding]; other site 1001585005057 dimer interface [polypeptide binding]; other site 1001585005058 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 1001585005059 dimer interface [polypeptide binding]; other site 1001585005060 N-terminal domain interface [polypeptide binding]; other site 1001585005061 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 1001585005062 HIT family signature motif; other site 1001585005063 catalytic residue [active] 1001585005064 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1001585005065 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 1001585005066 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1001585005067 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 1001585005068 Catalytic site [active] 1001585005069 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1001585005070 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 1001585005071 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 1001585005072 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1001585005073 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1001585005074 active site 1001585005075 nucleotide binding site [chemical binding]; other site 1001585005076 HIGH motif; other site 1001585005077 KMSKS motif; other site 1001585005078 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1001585005079 AAA domain; Region: AAA_28; pfam13521 1001585005080 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1001585005081 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 1001585005082 active site 1001585005083 FMN binding site [chemical binding]; other site 1001585005084 substrate binding site [chemical binding]; other site 1001585005085 3Fe-4S cluster binding site [ion binding]; other site 1001585005086 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 1001585005087 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 1001585005088 dimer interface [polypeptide binding]; other site 1001585005089 active site 1001585005090 CoA binding pocket [chemical binding]; other site 1001585005091 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1001585005092 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585005093 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 1001585005094 DNA binding residues [nucleotide binding] 1001585005095 Putative zinc-finger; Region: zf-HC2; pfam13490 1001585005096 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585005097 AAA domain; Region: AAA_21; pfam13304 1001585005098 Walker A/P-loop; other site 1001585005099 ATP binding site [chemical binding]; other site 1001585005100 hypothetical protein; Provisional; Region: PRK05409 1001585005101 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 1001585005102 Predicted membrane protein [Function unknown]; Region: COG2259 1001585005103 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585005104 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1001585005105 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585005106 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1001585005107 FAD binding domain; Region: FAD_binding_4; pfam01565 1001585005108 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1001585005109 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1001585005110 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1001585005111 uncharacterized ygcE-like proteins; Region: FGGY_ygcE_like; cd07779 1001585005112 putative N- and C-terminal domain interface [polypeptide binding]; other site 1001585005113 putative active site [active] 1001585005114 MgATP binding site [chemical binding]; other site 1001585005115 catalytic site [active] 1001585005116 metal binding site [ion binding]; metal-binding site 1001585005117 putative carbohydrate binding site [chemical binding]; other site 1001585005118 Pirin-related protein [General function prediction only]; Region: COG1741 1001585005119 Pirin; Region: Pirin; pfam02678 1001585005120 lipid kinase; Reviewed; Region: PRK13054 1001585005121 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1001585005122 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1001585005123 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1001585005124 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585005125 active site 1001585005126 phosphorylation site [posttranslational modification] 1001585005127 intermolecular recognition site; other site 1001585005128 dimerization interface [polypeptide binding]; other site 1001585005129 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1001585005130 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1001585005131 MOSC domain; Region: MOSC; pfam03473 1001585005132 lytic murein transglycosylase; Provisional; Region: PRK11619 1001585005133 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 1001585005134 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1001585005135 catalytic residue [active] 1001585005136 ABC transporter ATPase component; Reviewed; Region: PRK11147 1001585005137 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1001585005138 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1001585005139 ABC transporter; Region: ABC_tran_2; pfam12848 1001585005140 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1001585005141 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 1001585005142 Ligand Binding Site [chemical binding]; other site 1001585005143 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 1001585005144 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 1001585005145 substrate binding site [chemical binding]; other site 1001585005146 oxyanion hole (OAH) forming residues; other site 1001585005147 trimer interface [polypeptide binding]; other site 1001585005148 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1001585005149 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1001585005150 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 1001585005151 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 1001585005152 dimer interface [polypeptide binding]; other site 1001585005153 active site 1001585005154 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1001585005155 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1001585005156 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 1001585005157 active site 1001585005158 interdomain interaction site; other site 1001585005159 putative metal-binding site [ion binding]; other site 1001585005160 nucleotide binding site [chemical binding]; other site 1001585005161 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 1001585005162 domain I; other site 1001585005163 DNA binding groove [nucleotide binding] 1001585005164 phosphate binding site [ion binding]; other site 1001585005165 domain II; other site 1001585005166 domain III; other site 1001585005167 nucleotide binding site [chemical binding]; other site 1001585005168 catalytic site [active] 1001585005169 domain IV; other site 1001585005170 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1001585005171 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1001585005172 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1001585005173 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1001585005174 Cell division inhibitor SulA; Region: SulA; cl01880 1001585005175 LexA repressor; Validated; Region: PRK00215 1001585005176 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1001585005177 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 1001585005178 Catalytic site [active] 1001585005179 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585005180 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585005181 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1001585005182 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1001585005183 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1001585005184 beta-hexosaminidase; Provisional; Region: PRK05337 1001585005185 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1001585005186 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1001585005187 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1001585005188 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 1001585005189 ATP binding site [chemical binding]; other site 1001585005190 putative Mg++ binding site [ion binding]; other site 1001585005191 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 1001585005192 nucleotide binding region [chemical binding]; other site 1001585005193 ATP-binding site [chemical binding]; other site 1001585005194 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1001585005195 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 1001585005196 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1001585005197 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1001585005198 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 1001585005199 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 1001585005200 E3 interaction surface; other site 1001585005201 lipoyl attachment site [posttranslational modification]; other site 1001585005202 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1001585005203 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 1001585005204 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 1001585005205 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1001585005206 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 1001585005207 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 1001585005208 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1001585005209 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 1001585005210 catalytic loop [active] 1001585005211 iron binding site [ion binding]; other site 1001585005212 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 1001585005213 FAD binding pocket [chemical binding]; other site 1001585005214 FAD binding motif [chemical binding]; other site 1001585005215 phosphate binding motif [ion binding]; other site 1001585005216 beta-alpha-beta structure motif; other site 1001585005217 NAD binding pocket [chemical binding]; other site 1001585005218 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1001585005219 ApbE family; Region: ApbE; pfam02424 1001585005220 Protein of unknown function (DUF539); Region: DUF539; cl01129 1001585005221 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 1001585005222 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585005223 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1001585005224 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1001585005225 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 1001585005226 active site 1001585005227 catalytic site [active] 1001585005228 metal binding site [ion binding]; metal-binding site 1001585005229 PilZ domain; Region: PilZ; pfam07238 1001585005230 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1001585005231 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1001585005232 FtsX-like permease family; Region: FtsX; pfam02687 1001585005233 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1001585005234 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1001585005235 Walker A/P-loop; other site 1001585005236 ATP binding site [chemical binding]; other site 1001585005237 Q-loop/lid; other site 1001585005238 ABC transporter signature motif; other site 1001585005239 Walker B; other site 1001585005240 D-loop; other site 1001585005241 H-loop/switch region; other site 1001585005242 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1001585005243 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1001585005244 FtsX-like permease family; Region: FtsX; pfam02687 1001585005245 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 1001585005246 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1001585005247 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1001585005248 Competence protein; Region: Competence; pfam03772 1001585005249 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1001585005250 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1001585005251 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1001585005252 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1001585005253 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1001585005254 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1001585005255 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1001585005256 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1001585005257 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1001585005258 Ligand binding site; other site 1001585005259 oligomer interface; other site 1001585005260 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1001585005261 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1001585005262 active site 1001585005263 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1001585005264 FAD binding domain; Region: FAD_binding_4; pfam01565 1001585005265 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1001585005266 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1001585005267 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 1001585005268 homodimer interface [polypeptide binding]; other site 1001585005269 oligonucleotide binding site [chemical binding]; other site 1001585005270 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1001585005271 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 1001585005272 RNA binding surface [nucleotide binding]; other site 1001585005273 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1001585005274 active site 1001585005275 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1001585005276 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 1001585005277 motif II; other site 1001585005278 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1001585005279 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1001585005280 tandem repeat interface [polypeptide binding]; other site 1001585005281 oligomer interface [polypeptide binding]; other site 1001585005282 active site residues [active] 1001585005283 Maf-like protein; Region: Maf; pfam02545 1001585005284 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 1001585005285 active site 1001585005286 dimer interface [polypeptide binding]; other site 1001585005287 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1001585005288 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1001585005289 putative phosphate acyltransferase; Provisional; Region: PRK05331 1001585005290 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1001585005291 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1001585005292 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1001585005293 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1001585005294 NAD(P) binding site [chemical binding]; other site 1001585005295 homotetramer interface [polypeptide binding]; other site 1001585005296 homodimer interface [polypeptide binding]; other site 1001585005297 active site 1001585005298 acyl carrier protein; Provisional; Region: acpP; PRK00982 1001585005299 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1001585005300 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 1001585005301 dimer interface [polypeptide binding]; other site 1001585005302 active site 1001585005303 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1001585005304 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 1001585005305 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585005306 catalytic residue [active] 1001585005307 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1001585005308 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1001585005309 dimerization interface [polypeptide binding]; other site 1001585005310 thymidylate kinase; Validated; Region: tmk; PRK00698 1001585005311 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 1001585005312 TMP-binding site; other site 1001585005313 ATP-binding site [chemical binding]; other site 1001585005314 DNA polymerase III subunit delta'; Validated; Region: PRK05707 1001585005315 Tfp pilus assembly protein PilZ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilZ; COG3215 1001585005316 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1001585005317 active site 1001585005318 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1001585005319 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 1001585005320 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1001585005321 catalytic residue [active] 1001585005322 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585005323 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585005324 WHG domain; Region: WHG; pfam13305 1001585005325 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1001585005326 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 1001585005327 FeS/SAM binding site; other site 1001585005328 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1001585005329 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 1001585005330 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1001585005331 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1001585005332 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1001585005333 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1001585005334 Sel1-like repeats; Region: SEL1; smart00671 1001585005335 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 1001585005336 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 1001585005337 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1001585005338 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1001585005339 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 1001585005340 active site 1001585005341 catalytic residues [active] 1001585005342 Predicted membrane protein [Function unknown]; Region: COG3503 1001585005343 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1001585005344 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 1001585005345 N-terminal plug; other site 1001585005346 ligand-binding site [chemical binding]; other site 1001585005347 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 1001585005348 PAS fold; Region: PAS_3; pfam08447 1001585005349 putative active site [active] 1001585005350 heme pocket [chemical binding]; other site 1001585005351 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 1001585005352 PAS fold; Region: PAS_3; pfam08447 1001585005353 putative active site [active] 1001585005354 heme pocket [chemical binding]; other site 1001585005355 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585005356 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585005357 metal binding site [ion binding]; metal-binding site 1001585005358 active site 1001585005359 I-site; other site 1001585005360 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1001585005361 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1001585005362 proposed catalytic triad [active] 1001585005363 conserved cys residue [active] 1001585005364 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585005365 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1001585005366 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 1001585005367 dimerization interface [polypeptide binding]; other site 1001585005368 substrate binding pocket [chemical binding]; other site 1001585005369 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 1001585005370 TPP-binding site [chemical binding]; other site 1001585005371 dimer interface [polypeptide binding]; other site 1001585005372 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1001585005373 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 1001585005374 PYR/PP interface [polypeptide binding]; other site 1001585005375 dimer interface [polypeptide binding]; other site 1001585005376 TPP binding site [chemical binding]; other site 1001585005377 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1001585005378 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1001585005379 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585005380 NAD(P) binding site [chemical binding]; other site 1001585005381 active site 1001585005382 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585005383 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1001585005384 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1001585005385 DctM-like transporters; Region: DctM; pfam06808 1001585005386 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1001585005387 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1001585005388 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1001585005389 Predicted permeases [General function prediction only]; Region: COG0679 1001585005390 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1001585005391 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 1001585005392 dimerization interface [polypeptide binding]; other site 1001585005393 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585005394 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585005395 dimer interface [polypeptide binding]; other site 1001585005396 putative CheW interface [polypeptide binding]; other site 1001585005397 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 1001585005398 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1001585005399 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 1001585005400 DNA binding residues [nucleotide binding] 1001585005401 putative dimer interface [polypeptide binding]; other site 1001585005402 putative metal binding residues [ion binding]; other site 1001585005403 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1001585005404 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585005405 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1001585005406 active site 1001585005407 Cupin; Region: Cupin_6; pfam12852 1001585005408 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585005409 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585005410 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585005411 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1001585005412 classical (c) SDRs; Region: SDR_c; cd05233 1001585005413 NAD(P) binding site [chemical binding]; other site 1001585005414 active site 1001585005415 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1001585005416 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1001585005417 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 1001585005418 S-adenosylmethionine binding site [chemical binding]; other site 1001585005419 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1001585005420 LysE type translocator; Region: LysE; cl00565 1001585005421 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1001585005422 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585005423 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 1001585005424 dimerization interface [polypeptide binding]; other site 1001585005425 amidase; Validated; Region: PRK06565 1001585005426 Amidase; Region: Amidase; cl11426 1001585005427 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1001585005428 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1001585005429 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1001585005430 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1001585005431 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1001585005432 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1001585005433 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1001585005434 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1001585005435 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 1001585005436 Walker A motif; other site 1001585005437 ATP binding site [chemical binding]; other site 1001585005438 Walker B motif; other site 1001585005439 type II secretion system protein F; Region: GspF; TIGR02120 1001585005440 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1001585005441 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1001585005442 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1001585005443 type II secretion system protein I; Region: gspI; TIGR01707 1001585005444 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1001585005445 type II secretion system protein J; Region: gspJ; TIGR01711 1001585005446 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1001585005447 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1001585005448 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1001585005449 GspL periplasmic domain; Region: GspL_C; pfam12693 1001585005450 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 1001585005451 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1001585005452 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 1001585005453 substrate binding pocket [chemical binding]; other site 1001585005454 membrane-bound complex binding site; other site 1001585005455 hinge residues; other site 1001585005456 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1001585005457 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585005458 dimer interface [polypeptide binding]; other site 1001585005459 conserved gate region; other site 1001585005460 putative PBP binding loops; other site 1001585005461 ABC-ATPase subunit interface; other site 1001585005462 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585005463 dimer interface [polypeptide binding]; other site 1001585005464 conserved gate region; other site 1001585005465 putative PBP binding loops; other site 1001585005466 ABC-ATPase subunit interface; other site 1001585005467 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1001585005468 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1001585005469 Walker A/P-loop; other site 1001585005470 ATP binding site [chemical binding]; other site 1001585005471 Q-loop/lid; other site 1001585005472 ABC transporter signature motif; other site 1001585005473 Walker B; other site 1001585005474 D-loop; other site 1001585005475 H-loop/switch region; other site 1001585005476 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1001585005477 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1001585005478 conserved cys residue [active] 1001585005479 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585005480 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585005481 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1001585005482 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 1001585005483 inhibitor-cofactor binding pocket; inhibition site 1001585005484 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585005485 catalytic residue [active] 1001585005486 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1001585005487 arginine/ornithine succinyltransferase, alpha subunit; Region: arg_AOST_alph; TIGR03245 1001585005488 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1001585005489 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 1001585005490 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 1001585005491 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 1001585005492 NAD(P) binding site [chemical binding]; other site 1001585005493 catalytic residues [active] 1001585005494 succinylarginine dihydrolase; Provisional; Region: PRK13281 1001585005495 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 1001585005496 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1001585005497 putative active site [active] 1001585005498 Zn binding site [ion binding]; other site 1001585005499 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1001585005500 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 1001585005501 tetramer interface [polypeptide binding]; other site 1001585005502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585005503 catalytic residue [active] 1001585005504 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1001585005505 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 1001585005506 motif 1; other site 1001585005507 active site 1001585005508 motif 2; other site 1001585005509 motif 3; other site 1001585005510 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1001585005511 DHHA1 domain; Region: DHHA1; pfam02272 1001585005512 aspartate kinase; Reviewed; Region: PRK06635 1001585005513 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 1001585005514 putative nucleotide binding site [chemical binding]; other site 1001585005515 putative catalytic residues [active] 1001585005516 putative Mg ion binding site [ion binding]; other site 1001585005517 putative aspartate binding site [chemical binding]; other site 1001585005518 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 1001585005519 putative allosteric regulatory site; other site 1001585005520 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 1001585005521 putative allosteric regulatory residue; other site 1001585005522 carbon storage regulator; Provisional; Region: PRK01712 1001585005523 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1001585005524 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1001585005525 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1001585005526 MgtE intracellular N domain; Region: MgtE_N; smart00924 1001585005527 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 1001585005528 Divalent cation transporter; Region: MgtE; cl00786 1001585005529 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 1001585005530 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1001585005531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585005532 NAD(P) binding site [chemical binding]; other site 1001585005533 active site 1001585005534 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1001585005535 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585005536 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585005537 oxaloacetate decarboxylase; Provisional; Region: PRK14040 1001585005538 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1001585005539 active site 1001585005540 catalytic residues [active] 1001585005541 metal binding site [ion binding]; metal-binding site 1001585005542 homodimer binding site [polypeptide binding]; other site 1001585005543 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 1001585005544 carboxyltransferase (CT) interaction site; other site 1001585005545 biotinylation site [posttranslational modification]; other site 1001585005546 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 1001585005547 Arc-like DNA binding domain; Region: Arc; pfam03869 1001585005548 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1001585005549 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1001585005550 Walker A/P-loop; other site 1001585005551 ATP binding site [chemical binding]; other site 1001585005552 Q-loop/lid; other site 1001585005553 ABC transporter signature motif; other site 1001585005554 Walker B; other site 1001585005555 D-loop; other site 1001585005556 H-loop/switch region; other site 1001585005557 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 1001585005558 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1001585005559 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585005560 dimer interface [polypeptide binding]; other site 1001585005561 conserved gate region; other site 1001585005562 ABC-ATPase subunit interface; other site 1001585005563 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1001585005564 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585005565 DNA-binding site [nucleotide binding]; DNA binding site 1001585005566 UTRA domain; Region: UTRA; pfam07702 1001585005567 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 1001585005568 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 1001585005569 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 1001585005570 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 1001585005571 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 1001585005572 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585005573 Walker A/P-loop; other site 1001585005574 ATP binding site [chemical binding]; other site 1001585005575 Q-loop/lid; other site 1001585005576 ABC transporter signature motif; other site 1001585005577 Walker B; other site 1001585005578 D-loop; other site 1001585005579 H-loop/switch region; other site 1001585005580 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1001585005581 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 1001585005582 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585005583 Walker A/P-loop; other site 1001585005584 ATP binding site [chemical binding]; other site 1001585005585 Q-loop/lid; other site 1001585005586 ABC transporter signature motif; other site 1001585005587 Walker B; other site 1001585005588 D-loop; other site 1001585005589 H-loop/switch region; other site 1001585005590 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 1001585005591 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 1001585005592 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 1001585005593 active site 1001585005594 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 1001585005595 active site 1001585005596 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 1001585005597 putative hydrolase; Provisional; Region: PRK02113 1001585005598 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 1001585005599 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1001585005600 putative substrate translocation pore; other site 1001585005601 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1001585005602 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 1001585005603 putative DNA binding site [nucleotide binding]; other site 1001585005604 putative Zn2+ binding site [ion binding]; other site 1001585005605 AsnC family; Region: AsnC_trans_reg; pfam01037 1001585005606 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 1001585005607 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 1001585005608 dimer interface [polypeptide binding]; other site 1001585005609 PYR/PP interface [polypeptide binding]; other site 1001585005610 TPP binding site [chemical binding]; other site 1001585005611 substrate binding site [chemical binding]; other site 1001585005612 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 1001585005613 TPP-binding site; other site 1001585005614 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1001585005615 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1001585005616 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1001585005617 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 1001585005618 NAD binding site [chemical binding]; other site 1001585005619 Phe binding site; other site 1001585005620 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1001585005621 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1001585005622 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1001585005623 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 1001585005624 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1001585005625 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1001585005626 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1001585005627 Walker A/P-loop; other site 1001585005628 ATP binding site [chemical binding]; other site 1001585005629 Q-loop/lid; other site 1001585005630 ABC transporter signature motif; other site 1001585005631 Walker B; other site 1001585005632 D-loop; other site 1001585005633 H-loop/switch region; other site 1001585005634 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1001585005635 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 1001585005636 N-terminal plug; other site 1001585005637 ligand-binding site [chemical binding]; other site 1001585005638 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 1001585005639 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585005640 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 1001585005641 DNA binding residues [nucleotide binding] 1001585005642 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 1001585005643 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585005644 Walker A/P-loop; other site 1001585005645 ATP binding site [chemical binding]; other site 1001585005646 Q-loop/lid; other site 1001585005647 ABC transporter signature motif; other site 1001585005648 Walker B; other site 1001585005649 D-loop; other site 1001585005650 H-loop/switch region; other site 1001585005651 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 1001585005652 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1001585005653 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1001585005654 acyl-CoA synthetase; Validated; Region: PRK05850 1001585005655 acyl-activating enzyme (AAE) consensus motif; other site 1001585005656 active site 1001585005657 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1001585005658 Condensation domain; Region: Condensation; pfam00668 1001585005659 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1001585005660 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1001585005661 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1001585005662 acyl-activating enzyme (AAE) consensus motif; other site 1001585005663 AMP binding site [chemical binding]; other site 1001585005664 Condensation domain; Region: Condensation; pfam00668 1001585005665 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1001585005666 Condensation domain; Region: Condensation; pfam00668 1001585005667 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1001585005668 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1001585005669 acyl-activating enzyme (AAE) consensus motif; other site 1001585005670 AMP binding site [chemical binding]; other site 1001585005671 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1001585005672 Condensation domain; Region: Condensation; pfam00668 1001585005673 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1001585005674 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1001585005675 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1001585005676 acyl-activating enzyme (AAE) consensus motif; other site 1001585005677 AMP binding site [chemical binding]; other site 1001585005678 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1001585005679 Condensation domain; Region: Condensation; pfam00668 1001585005680 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1001585005681 Condensation domain; Region: Condensation; pfam00668 1001585005682 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1001585005683 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1001585005684 acyl-activating enzyme (AAE) consensus motif; other site 1001585005685 AMP binding site [chemical binding]; other site 1001585005686 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1001585005687 Condensation domain; Region: Condensation; pfam00668 1001585005688 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1001585005689 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1001585005690 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1001585005691 acyl-activating enzyme (AAE) consensus motif; other site 1001585005692 AMP binding site [chemical binding]; other site 1001585005693 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1001585005694 Condensation domain; Region: Condensation; pfam00668 1001585005695 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1001585005696 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1001585005697 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1001585005698 acyl-activating enzyme (AAE) consensus motif; other site 1001585005699 AMP binding site [chemical binding]; other site 1001585005700 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1001585005701 Condensation domain; Region: Condensation; pfam00668 1001585005702 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1001585005703 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 1001585005704 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 1001585005705 inhibitor-cofactor binding pocket; inhibition site 1001585005706 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585005707 catalytic residue [active] 1001585005708 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1001585005709 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 1001585005710 N-terminal plug; other site 1001585005711 ligand-binding site [chemical binding]; other site 1001585005712 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1001585005713 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 1001585005714 ABC-ATPase subunit interface; other site 1001585005715 dimer interface [polypeptide binding]; other site 1001585005716 putative PBP binding regions; other site 1001585005717 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 1001585005718 ABC-ATPase subunit interface; other site 1001585005719 dimer interface [polypeptide binding]; other site 1001585005720 putative PBP binding regions; other site 1001585005721 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1001585005722 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1001585005723 siderophore binding site; other site 1001585005724 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 1001585005725 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1001585005726 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1001585005727 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 1001585005728 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 1001585005729 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1001585005730 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 1001585005731 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585005732 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1001585005733 DNA binding residues [nucleotide binding] 1001585005734 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1001585005735 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 1001585005736 ABC-ATPase subunit interface; other site 1001585005737 dimer interface [polypeptide binding]; other site 1001585005738 putative PBP binding regions; other site 1001585005739 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 1001585005740 ABC-ATPase subunit interface; other site 1001585005741 dimer interface [polypeptide binding]; other site 1001585005742 putative PBP binding regions; other site 1001585005743 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 1001585005744 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1001585005745 intersubunit interface [polypeptide binding]; other site 1001585005746 Secretin and TonB N terminus short domain; Region: STN; smart00965 1001585005747 ferrioxamine B receptor precursor protein; Provisional; Region: PRK14049 1001585005748 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 1001585005749 N-terminal plug; other site 1001585005750 ligand-binding site [chemical binding]; other site 1001585005751 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 1001585005752 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1001585005753 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1001585005754 Walker A/P-loop; other site 1001585005755 ATP binding site [chemical binding]; other site 1001585005756 Q-loop/lid; other site 1001585005757 ABC transporter signature motif; other site 1001585005758 Walker B; other site 1001585005759 D-loop; other site 1001585005760 H-loop/switch region; other site 1001585005761 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1001585005762 FecR protein; Region: FecR; pfam04773 1001585005763 RNA polymerase sigma factor; Reviewed; Region: PRK12527 1001585005764 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585005765 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 1001585005766 DNA binding residues [nucleotide binding] 1001585005767 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 1001585005768 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1001585005769 Walker A/P-loop; other site 1001585005770 ATP binding site [chemical binding]; other site 1001585005771 Q-loop/lid; other site 1001585005772 ABC transporter signature motif; other site 1001585005773 Walker B; other site 1001585005774 D-loop; other site 1001585005775 H-loop/switch region; other site 1001585005776 serine/threonine transporter SstT; Provisional; Region: PRK13628 1001585005777 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1001585005778 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 1001585005779 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1001585005780 putative substrate translocation pore; other site 1001585005781 Flagellar regulator YcgR; Region: YcgR; pfam07317 1001585005782 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 1001585005783 PilZ domain; Region: PilZ; pfam07238 1001585005784 FlgN protein; Region: FlgN; cl09176 1001585005785 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 1001585005786 SAF-like; Region: SAF_2; pfam13144 1001585005787 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1001585005788 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 1001585005789 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1001585005790 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585005791 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585005792 active site 1001585005793 phosphorylation site [posttranslational modification] 1001585005794 intermolecular recognition site; other site 1001585005795 dimerization interface [polypeptide binding]; other site 1001585005796 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1001585005797 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1001585005798 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 1001585005799 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1001585005800 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1001585005801 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1001585005802 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1001585005803 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1001585005804 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1001585005805 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1001585005806 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1001585005807 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1001585005808 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1001585005809 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1001585005810 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1001585005811 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1001585005812 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1001585005813 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1001585005814 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1001585005815 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1001585005816 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 1001585005817 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1001585005818 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1001585005819 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1001585005820 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 1001585005821 flagellar rod assembly protein/muramidase FlgJ; Region: flagell_FlgJ; TIGR02541 1001585005822 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1001585005823 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 1001585005824 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1001585005825 flagellar hook-associated protein FlgL; Provisional; Region: flgL; PRK12717 1001585005826 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1001585005827 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1001585005828 hypothetical protein; Provisional; Region: PRK05849 1001585005829 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1001585005830 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1001585005831 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1001585005832 catalytic triad [active] 1001585005833 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 1001585005834 active site 1001585005835 metal-binding site 1001585005836 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1001585005837 active site 1001585005838 cosubstrate binding site; other site 1001585005839 substrate binding site [chemical binding]; other site 1001585005840 catalytic site [active] 1001585005841 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 1001585005842 active site 1001585005843 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1001585005844 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1001585005845 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 1001585005846 putative trimer interface [polypeptide binding]; other site 1001585005847 putative active site [active] 1001585005848 putative substrate binding site [chemical binding]; other site 1001585005849 putative CoA binding site [chemical binding]; other site 1001585005850 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 1001585005851 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 1001585005852 inhibitor-cofactor binding pocket; inhibition site 1001585005853 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585005854 catalytic residue [active] 1001585005855 WxcM-like, C-terminal; Region: FdtA; pfam05523 1001585005856 Protein of unknown function (DUF563); Region: DUF563; pfam04577 1001585005857 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1001585005858 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 1001585005859 active site 1001585005860 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1001585005861 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1001585005862 active site 1001585005863 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 1001585005864 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1001585005865 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 1001585005866 active site 1001585005867 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1001585005868 flagellin B; Provisional; Region: PRK13588 1001585005869 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1001585005870 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1001585005871 FlaG protein; Region: FlaG; pfam03646 1001585005872 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 1001585005873 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1001585005874 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1001585005875 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1001585005876 Flagellar protein FliS; Region: FliS; cl00654 1001585005877 flagellar protein FliS; Validated; Region: fliS; PRK05685 1001585005878 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1001585005879 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 1001585005880 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 1001585005881 Walker A motif; other site 1001585005882 ATP binding site [chemical binding]; other site 1001585005883 Walker B motif; other site 1001585005884 arginine finger; other site 1001585005885 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1001585005886 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585005887 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 1001585005888 dimer interface [polypeptide binding]; other site 1001585005889 phosphorylation site [posttranslational modification] 1001585005890 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585005891 ATP binding site [chemical binding]; other site 1001585005892 Mg2+ binding site [ion binding]; other site 1001585005893 G-X-G motif; other site 1001585005894 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1001585005895 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585005896 active site 1001585005897 phosphorylation site [posttranslational modification] 1001585005898 intermolecular recognition site; other site 1001585005899 dimerization interface [polypeptide binding]; other site 1001585005900 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 1001585005901 Walker A motif; other site 1001585005902 ATP binding site [chemical binding]; other site 1001585005903 Walker B motif; other site 1001585005904 arginine finger; other site 1001585005905 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1001585005906 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 1001585005907 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1001585005908 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1001585005909 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1001585005910 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1001585005911 MgtE intracellular N domain; Region: MgtE_N; smart00924 1001585005912 FliG C-terminal domain; Region: FliG_C; pfam01706 1001585005913 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1001585005914 Flagellar assembly protein FliH; Region: FliH; pfam02108 1001585005915 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 1001585005916 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 1001585005917 Walker A motif/ATP binding site; other site 1001585005918 Walker B motif; other site 1001585005919 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1001585005920 Flagellar FliJ protein; Region: FliJ; pfam02050 1001585005921 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 1001585005922 anti sigma factor interaction site; other site 1001585005923 regulatory phosphorylation site [posttranslational modification]; other site 1001585005924 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585005925 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585005926 active site 1001585005927 phosphorylation site [posttranslational modification] 1001585005928 intermolecular recognition site; other site 1001585005929 dimerization interface [polypeptide binding]; other site 1001585005930 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1001585005931 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1001585005932 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1001585005933 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 1001585005934 putative binding surface; other site 1001585005935 active site 1001585005936 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1001585005937 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 1001585005938 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1001585005939 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1001585005940 flagellar motor switch protein; Validated; Region: fliN; PRK05698 1001585005941 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1001585005942 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1001585005943 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1001585005944 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1001585005945 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1001585005946 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1001585005947 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1001585005948 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1001585005949 FHIPEP family; Region: FHIPEP; pfam00771 1001585005950 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1001585005951 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 1001585005952 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1001585005953 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 1001585005954 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 1001585005955 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1001585005956 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585005957 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1001585005958 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 1001585005959 DNA binding residues [nucleotide binding] 1001585005960 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1001585005961 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585005962 active site 1001585005963 phosphorylation site [posttranslational modification] 1001585005964 intermolecular recognition site; other site 1001585005965 dimerization interface [polypeptide binding]; other site 1001585005966 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 1001585005967 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 1001585005968 putative binding surface; other site 1001585005969 active site 1001585005970 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1001585005971 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1001585005972 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585005973 ATP binding site [chemical binding]; other site 1001585005974 Mg2+ binding site [ion binding]; other site 1001585005975 G-X-G motif; other site 1001585005976 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 1001585005977 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1001585005978 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585005979 active site 1001585005980 phosphorylation site [posttranslational modification] 1001585005981 intermolecular recognition site; other site 1001585005982 dimerization interface [polypeptide binding]; other site 1001585005983 CheB methylesterase; Region: CheB_methylest; pfam01339 1001585005984 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1001585005985 flagellar motor protein; Reviewed; Region: motC; PRK09109 1001585005986 flagellar motor protein MotD; Reviewed; Region: PRK09038 1001585005987 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1001585005988 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585005989 ligand binding site [chemical binding]; other site 1001585005990 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1001585005991 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 1001585005992 P-loop; other site 1001585005993 Magnesium ion binding site [ion binding]; other site 1001585005994 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 1001585005995 Magnesium ion binding site [ion binding]; other site 1001585005996 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 1001585005997 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 1001585005998 putative CheA interaction surface; other site 1001585005999 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 1001585006000 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1001585006001 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1001585006002 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 1001585006003 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1001585006004 Walker A/P-loop; other site 1001585006005 ATP binding site [chemical binding]; other site 1001585006006 Q-loop/lid; other site 1001585006007 ABC transporter signature motif; other site 1001585006008 Walker B; other site 1001585006009 D-loop; other site 1001585006010 H-loop/switch region; other site 1001585006011 CcmB protein; Region: CcmB; cl17444 1001585006012 heme exporter protein CcmC; Region: ccmC; TIGR01191 1001585006013 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1001585006014 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1001585006015 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1001585006016 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 1001585006017 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1001585006018 catalytic residues [active] 1001585006019 central insert; other site 1001585006020 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1001585006021 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1001585006022 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1001585006023 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 1001585006024 binding surface 1001585006025 TPR motif; other site 1001585006026 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 1001585006027 transmembrane helices; other site 1001585006028 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1001585006029 Ion transport protein; Region: Ion_trans; pfam00520 1001585006030 Ion channel; Region: Ion_trans_2; pfam07885 1001585006031 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1001585006032 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1001585006033 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1001585006034 Cupin domain; Region: Cupin_2; cl17218 1001585006035 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1001585006036 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 1001585006037 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 1001585006038 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 1001585006039 active site 1001585006040 DNA binding site [nucleotide binding] 1001585006041 Int/Topo IB signature motif; other site 1001585006042 catalytic residues [active] 1001585006043 Urea transporter; Region: UT; pfam03253 1001585006044 pyruvate kinase; Provisional; Region: PRK06247 1001585006045 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 1001585006046 domain interfaces; other site 1001585006047 active site 1001585006048 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1001585006049 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1001585006050 MOFRL family; Region: MOFRL; pfam05161 1001585006051 tartronate semialdehyde reductase; Provisional; Region: PRK15059 1001585006052 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1001585006053 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1001585006054 glyoxylate carboligase; Provisional; Region: PRK11269 1001585006055 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1001585006056 PYR/PP interface [polypeptide binding]; other site 1001585006057 dimer interface [polypeptide binding]; other site 1001585006058 TPP binding site [chemical binding]; other site 1001585006059 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1001585006060 Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the...; Region: TPP_Gcl; cd02006 1001585006061 TPP-binding site [chemical binding]; other site 1001585006062 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585006063 transcriptional activator TtdR; Provisional; Region: PRK09801 1001585006064 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 1001585006065 putative effector binding pocket; other site 1001585006066 dimerization interface [polypeptide binding]; other site 1001585006067 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 1001585006068 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1001585006069 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585006070 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1001585006071 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 1001585006072 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 1001585006073 FeS/SAM binding site; other site 1001585006074 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1001585006075 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585006076 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 1001585006077 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 1001585006078 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1001585006079 Na binding site [ion binding]; other site 1001585006080 putative substrate binding site [chemical binding]; other site 1001585006081 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 1001585006082 xanthine permease; Region: pbuX; TIGR03173 1001585006083 Predicted membrane protein [Function unknown]; Region: COG3748 1001585006084 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1001585006085 Cytochrome c; Region: Cytochrom_C; pfam00034 1001585006086 ureidoglycolate hydrolase; Provisional; Region: PRK03606 1001585006087 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1001585006088 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 1001585006089 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1001585006090 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1001585006091 active site 1001585006092 catalytic site [active] 1001585006093 tetramer interface [polypeptide binding]; other site 1001585006094 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 1001585006095 active site 1001585006096 homotetramer interface [polypeptide binding]; other site 1001585006097 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1001585006098 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1001585006099 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585006100 DNA-binding site [nucleotide binding]; DNA binding site 1001585006101 FCD domain; Region: FCD; pfam07729 1001585006102 guanine deaminase; Provisional; Region: PRK09228 1001585006103 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 1001585006104 active site 1001585006105 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1001585006106 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1001585006107 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1001585006108 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 1001585006109 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1001585006110 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1001585006111 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 1001585006112 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1001585006113 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1001585006114 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 1001585006115 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1001585006116 Di-iron ligands [ion binding]; other site 1001585006117 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1001585006118 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585006119 DNA-binding site [nucleotide binding]; DNA binding site 1001585006120 FCD domain; Region: FCD; pfam07729 1001585006121 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1001585006122 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1001585006123 Walker A/P-loop; other site 1001585006124 ATP binding site [chemical binding]; other site 1001585006125 Q-loop/lid; other site 1001585006126 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1001585006127 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1001585006128 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1001585006129 ABC transporter signature motif; other site 1001585006130 Walker B; other site 1001585006131 D-loop; other site 1001585006132 H-loop/switch region; other site 1001585006133 cell division protein ZipA; Reviewed; Region: zipA; PRK00269 1001585006134 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 1001585006135 FtsZ protein binding site [polypeptide binding]; other site 1001585006136 Ligase N family; Region: LIGANc; smart00532 1001585006137 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 1001585006138 nucleotide binding pocket [chemical binding]; other site 1001585006139 K-X-D-G motif; other site 1001585006140 catalytic site [active] 1001585006141 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1001585006142 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 1001585006143 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 1001585006144 Dimer interface [polypeptide binding]; other site 1001585006145 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 1001585006146 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1001585006147 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 1001585006148 homodecamer interface [polypeptide binding]; other site 1001585006149 GTP cyclohydrolase I; Provisional; Region: PLN03044 1001585006150 active site 1001585006151 putative catalytic site residues [active] 1001585006152 zinc binding site [ion binding]; other site 1001585006153 GTP-CH-I/GFRP interaction surface; other site 1001585006154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1001585006155 Smr domain; Region: Smr; pfam01713 1001585006156 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 1001585006157 Isochorismatase family; Region: Isochorismatase; pfam00857 1001585006158 catalytic triad [active] 1001585006159 conserved cis-peptide bond; other site 1001585006160 HemK family putative methylases; Region: hemK_fam; TIGR00536 1001585006161 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 1001585006162 S-adenosylmethionine binding site [chemical binding]; other site 1001585006163 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1001585006164 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1001585006165 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1001585006166 Tetramer interface [polypeptide binding]; other site 1001585006167 active site 1001585006168 FMN-binding site [chemical binding]; other site 1001585006169 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 1001585006170 putative substrate translocation pore; other site 1001585006171 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1001585006172 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 1001585006173 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1001585006174 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1001585006175 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 1001585006176 DNA binding site [nucleotide binding] 1001585006177 active site 1001585006178 AlkA N-terminal domain; Region: AlkA_N; pfam06029 1001585006179 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 1001585006180 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1001585006181 minor groove reading motif; other site 1001585006182 helix-hairpin-helix signature motif; other site 1001585006183 substrate binding pocket [chemical binding]; other site 1001585006184 active site 1001585006185 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1001585006186 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 1001585006187 RNA binding surface [nucleotide binding]; other site 1001585006188 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1001585006189 probable active site [active] 1001585006190 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585006191 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585006192 metal binding site [ion binding]; metal-binding site 1001585006193 active site 1001585006194 I-site; other site 1001585006195 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1001585006196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585006197 NAD(P) binding site [chemical binding]; other site 1001585006198 active site 1001585006199 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1001585006200 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 1001585006201 active site 1001585006202 motif I; other site 1001585006203 motif II; other site 1001585006204 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1001585006205 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 1001585006206 S-adenosylmethionine binding site [chemical binding]; other site 1001585006207 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 1001585006208 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 1001585006209 active site 1001585006210 putative substrate binding pocket [chemical binding]; other site 1001585006211 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1001585006212 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 1001585006213 DNA gyrase subunit A; Validated; Region: PRK05560 1001585006214 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 1001585006215 CAP-like domain; other site 1001585006216 active site 1001585006217 primary dimer interface [polypeptide binding]; other site 1001585006218 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1001585006219 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1001585006220 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1001585006221 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1001585006222 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1001585006223 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1001585006224 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 1001585006225 homodimer interface [polypeptide binding]; other site 1001585006226 substrate-cofactor binding pocket; other site 1001585006227 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585006228 catalytic residue [active] 1001585006229 Chorismate mutase type II; Region: CM_2; cl00693 1001585006230 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1001585006231 Prephenate dehydratase; Region: PDT; pfam00800 1001585006232 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 1001585006233 putative L-Phe binding site [chemical binding]; other site 1001585006234 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1001585006235 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 1001585006236 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585006237 homodimer interface [polypeptide binding]; other site 1001585006238 catalytic residue [active] 1001585006239 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 1001585006240 prephenate dehydrogenase; Validated; Region: PRK08507 1001585006241 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 1001585006242 hinge; other site 1001585006243 active site 1001585006244 cytidylate kinase; Provisional; Region: cmk; PRK00023 1001585006245 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 1001585006246 CMP-binding site; other site 1001585006247 The sites determining sugar specificity; other site 1001585006248 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1001585006249 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 1001585006250 RNA binding site [nucleotide binding]; other site 1001585006251 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 1001585006252 RNA binding site [nucleotide binding]; other site 1001585006253 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 1001585006254 RNA binding site [nucleotide binding]; other site 1001585006255 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 1001585006256 RNA binding site [nucleotide binding]; other site 1001585006257 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 1001585006258 RNA binding site [nucleotide binding]; other site 1001585006259 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 1001585006260 RNA binding site [nucleotide binding]; other site 1001585006261 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 1001585006262 IHF dimer interface [polypeptide binding]; other site 1001585006263 IHF - DNA interface [nucleotide binding]; other site 1001585006264 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1001585006265 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1001585006266 Beta-Casp domain; Region: Beta-Casp; smart01027 1001585006267 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1001585006268 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 1001585006269 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 1001585006270 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1001585006271 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1001585006272 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 1001585006273 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1001585006274 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1001585006275 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 1001585006276 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1001585006277 NAD(P) binding site [chemical binding]; other site 1001585006278 homodimer interface [polypeptide binding]; other site 1001585006279 substrate binding site [chemical binding]; other site 1001585006280 active site 1001585006281 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1001585006282 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 1001585006283 inhibitor-cofactor binding pocket; inhibition site 1001585006284 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585006285 catalytic residue [active] 1001585006286 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 1001585006287 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 1001585006288 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 1001585006289 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 1001585006290 pseudaminic acid synthase; Region: PseI; TIGR03586 1001585006291 NeuB family; Region: NeuB; pfam03102 1001585006292 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1001585006293 NeuB binding interface [polypeptide binding]; other site 1001585006294 putative substrate binding site [chemical binding]; other site 1001585006295 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 1001585006296 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 1001585006297 putative glycosyl transferase; Provisional; Region: PRK10307 1001585006298 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 1001585006299 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1001585006300 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 1001585006301 NAD(P) binding site [chemical binding]; other site 1001585006302 homodimer interface [polypeptide binding]; other site 1001585006303 substrate binding site [chemical binding]; other site 1001585006304 active site 1001585006305 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1001585006306 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 1001585006307 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585006308 homodimer interface [polypeptide binding]; other site 1001585006309 catalytic residue [active] 1001585006310 excinuclease ABC subunit B; Provisional; Region: PRK05298 1001585006311 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 1001585006312 ATP binding site [chemical binding]; other site 1001585006313 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 1001585006314 nucleotide binding region [chemical binding]; other site 1001585006315 ATP-binding site [chemical binding]; other site 1001585006316 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1001585006317 UvrB/uvrC motif; Region: UVR; pfam02151 1001585006318 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1001585006319 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 1001585006320 putative substrate translocation pore; other site 1001585006321 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1001585006322 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1001585006323 HlyD family secretion protein; Region: HlyD_3; pfam13437 1001585006324 LysR family transcriptional regulator; Provisional; Region: PRK14997 1001585006325 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585006326 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 1001585006327 putative effector binding pocket; other site 1001585006328 dimerization interface [polypeptide binding]; other site 1001585006329 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1001585006330 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1001585006331 HIGH motif; other site 1001585006332 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1001585006333 active site 1001585006334 KMSKS motif; other site 1001585006335 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585006336 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585006337 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1001585006338 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585006339 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1001585006340 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1001585006341 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585006342 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585006343 metal binding site [ion binding]; metal-binding site 1001585006344 active site 1001585006345 I-site; other site 1001585006346 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 1001585006347 active site 1001585006348 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 1001585006349 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 1001585006350 FMN binding site [chemical binding]; other site 1001585006351 active site 1001585006352 catalytic residues [active] 1001585006353 substrate binding site [chemical binding]; other site 1001585006354 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1001585006355 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 1001585006356 putative dimer interface [polypeptide binding]; other site 1001585006357 PAS fold; Region: PAS; pfam00989 1001585006358 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 1001585006359 putative active site [active] 1001585006360 heme pocket [chemical binding]; other site 1001585006361 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 1001585006362 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1001585006363 putative active site [active] 1001585006364 heme pocket [chemical binding]; other site 1001585006365 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 1001585006366 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 1001585006367 putative active site [active] 1001585006368 heme pocket [chemical binding]; other site 1001585006369 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 1001585006370 putative active site [active] 1001585006371 heme pocket [chemical binding]; other site 1001585006372 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 1001585006373 putative active site [active] 1001585006374 heme pocket [chemical binding]; other site 1001585006375 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585006376 metal binding site [ion binding]; metal-binding site 1001585006377 active site 1001585006378 I-site; other site 1001585006379 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 1001585006380 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585006381 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585006382 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 1001585006383 dimerization interface [polypeptide binding]; other site 1001585006384 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1001585006385 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1001585006386 substrate binding site [chemical binding]; other site 1001585006387 ligand binding site [chemical binding]; other site 1001585006388 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1001585006389 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 1001585006390 substrate binding site [chemical binding]; other site 1001585006391 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1001585006392 tartrate dehydrogenase; Region: TTC; TIGR02089 1001585006393 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1001585006394 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1001585006395 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK05671 1001585006396 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1001585006397 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 1001585006398 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1001585006399 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1001585006400 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1001585006401 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1001585006402 dimerization interface 3.5A [polypeptide binding]; other site 1001585006403 active site 1001585006404 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 1001585006405 active site 1001585006406 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1001585006407 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1001585006408 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 1001585006409 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1001585006410 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 1001585006411 Sporulation related domain; Region: SPOR; pfam05036 1001585006412 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1001585006413 Colicin V production protein; Region: Colicin_V; cl00567 1001585006414 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1001585006415 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 1001585006416 active site 1001585006417 tetramer interface [polypeptide binding]; other site 1001585006418 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1001585006419 active site 1001585006420 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 1001585006421 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 1001585006422 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 1001585006423 homodimer interface [polypeptide binding]; other site 1001585006424 substrate-cofactor binding pocket; other site 1001585006425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585006426 catalytic residue [active] 1001585006427 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585006428 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1001585006429 NAD(P) binding site [chemical binding]; other site 1001585006430 active site 1001585006431 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1001585006432 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1001585006433 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1001585006434 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 1001585006435 Ligand binding site [chemical binding]; other site 1001585006436 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1001585006437 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 1001585006438 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1001585006439 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585006440 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1001585006441 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 1001585006442 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585006443 substrate binding pocket [chemical binding]; other site 1001585006444 membrane-bound complex binding site; other site 1001585006445 hinge residues; other site 1001585006446 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 1001585006447 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1001585006448 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585006449 ligand binding site [chemical binding]; other site 1001585006450 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 1001585006451 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585006452 DNA-binding site [nucleotide binding]; DNA binding site 1001585006453 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 1001585006454 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585006455 homodimer interface [polypeptide binding]; other site 1001585006456 catalytic residue [active] 1001585006457 von Willebrand factor; Region: vWF_A; pfam12450 1001585006458 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 1001585006459 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 1001585006460 metal ion-dependent adhesion site (MIDAS); other site 1001585006461 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 1001585006462 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1001585006463 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585006464 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 1001585006465 DNA binding residues [nucleotide binding] 1001585006466 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 1001585006467 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1001585006468 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1001585006469 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 1001585006470 acyl-activating enzyme (AAE) consensus motif; other site 1001585006471 acyl-activating enzyme (AAE) consensus motif; other site 1001585006472 putative AMP binding site [chemical binding]; other site 1001585006473 putative active site [active] 1001585006474 putative CoA binding site [chemical binding]; other site 1001585006475 short chain dehydrogenase; Provisional; Region: PRK08278 1001585006476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585006477 NAD(P) binding site [chemical binding]; other site 1001585006478 active site 1001585006479 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1001585006480 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1001585006481 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1001585006482 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 1001585006483 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 1001585006484 carboxyltransferase (CT) interaction site; other site 1001585006485 biotinylation site [posttranslational modification]; other site 1001585006486 enoyl-CoA hydratase; Provisional; Region: PRK05995 1001585006487 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 1001585006488 substrate binding site [chemical binding]; other site 1001585006489 oxyanion hole (OAH) forming residues; other site 1001585006490 trimer interface [polypeptide binding]; other site 1001585006491 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585006492 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585006493 active site 1001585006494 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1001585006495 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1001585006496 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1001585006497 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1001585006498 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 1001585006499 NAD(P) binding site [chemical binding]; other site 1001585006500 substrate binding site [chemical binding]; other site 1001585006501 homotetramer interface [polypeptide binding]; other site 1001585006502 active site 1001585006503 homodimer interface [polypeptide binding]; other site 1001585006504 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1001585006505 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585006506 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585006507 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1001585006508 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 1001585006509 substrate binding pocket [chemical binding]; other site 1001585006510 membrane-bound complex binding site; other site 1001585006511 hinge residues; other site 1001585006512 CAAX protease self-immunity; Region: Abi; pfam02517 1001585006513 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 1001585006514 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; pfam05985 1001585006515 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1001585006516 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1001585006517 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 1001585006518 FOG: CBS domain [General function prediction only]; Region: COG0517 1001585006519 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 1001585006520 dimer interface [polypeptide binding]; other site 1001585006521 phosphorylation site [posttranslational modification] 1001585006522 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585006523 ATP binding site [chemical binding]; other site 1001585006524 Mg2+ binding site [ion binding]; other site 1001585006525 G-X-G motif; other site 1001585006526 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585006527 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585006528 active site 1001585006529 phosphorylation site [posttranslational modification] 1001585006530 intermolecular recognition site; other site 1001585006531 dimerization interface [polypeptide binding]; other site 1001585006532 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 1001585006533 active site 1001585006534 phosphorylation site [posttranslational modification] 1001585006535 intermolecular recognition site; other site 1001585006536 dimerization interface [polypeptide binding]; other site 1001585006537 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 1001585006538 active site 1001585006539 dimer interface [polypeptide binding]; other site 1001585006540 short chain dehydrogenase; Provisional; Region: PRK06172 1001585006541 classical (c) SDRs; Region: SDR_c; cd05233 1001585006542 NAD(P) binding site [chemical binding]; other site 1001585006543 active site 1001585006544 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1001585006545 Sodium Bile acid symporter family; Region: SBF; cl17470 1001585006546 benzoate transporter; Region: benE; TIGR00843 1001585006547 Benzoate membrane transport protein; Region: BenE; pfam03594 1001585006548 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1001585006549 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1001585006550 MarR family; Region: MarR_2; pfam12802 1001585006551 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1001585006552 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 1001585006553 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585006554 homodimer interface [polypeptide binding]; other site 1001585006555 catalytic residue [active] 1001585006556 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1001585006557 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 1001585006558 putative C-terminal domain interface [polypeptide binding]; other site 1001585006559 putative GSH binding site (G-site) [chemical binding]; other site 1001585006560 putative dimer interface [polypeptide binding]; other site 1001585006561 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1001585006562 N-terminal domain interface [polypeptide binding]; other site 1001585006563 dimer interface [polypeptide binding]; other site 1001585006564 substrate binding pocket (H-site) [chemical binding]; other site 1001585006565 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1001585006566 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1001585006567 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1001585006568 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1001585006569 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1001585006570 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 1001585006571 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1001585006572 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 1001585006573 IHF - DNA interface [nucleotide binding]; other site 1001585006574 IHF dimer interface [polypeptide binding]; other site 1001585006575 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1001585006576 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 1001585006577 dimerization interface [polypeptide binding]; other site 1001585006578 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585006579 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585006580 dimer interface [polypeptide binding]; other site 1001585006581 putative CheW interface [polypeptide binding]; other site 1001585006582 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 1001585006583 putative active site [active] 1001585006584 putative NTP binding site [chemical binding]; other site 1001585006585 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1001585006586 putative nucleic acid binding site [nucleotide binding]; other site 1001585006587 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1001585006588 Superfamily II helicase [General function prediction only]; Region: COG1204 1001585006589 ATP binding site [chemical binding]; other site 1001585006590 putative Mg++ binding site [ion binding]; other site 1001585006591 nucleotide binding region [chemical binding]; other site 1001585006592 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1001585006593 ATP-binding site [chemical binding]; other site 1001585006594 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 1001585006595 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1001585006596 catalytic residues [active] 1001585006597 catalytic nucleophile [active] 1001585006598 Presynaptic Site I dimer interface [polypeptide binding]; other site 1001585006599 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1001585006600 Synaptic Flat tetramer interface [polypeptide binding]; other site 1001585006601 Synaptic Site I dimer interface [polypeptide binding]; other site 1001585006602 DNA binding site [nucleotide binding] 1001585006603 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 1001585006604 DNA-binding interface [nucleotide binding]; DNA binding site 1001585006605 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1001585006606 Winged helix-turn helix; Region: HTH_29; pfam13551 1001585006607 Homeodomain-like domain; Region: HTH_23; pfam13384 1001585006608 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 1001585006609 Int/Topo IB signature motif; other site 1001585006610 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1001585006611 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1001585006612 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 1001585006613 Walker A motif; other site 1001585006614 ATP binding site [chemical binding]; other site 1001585006615 Walker B motif; other site 1001585006616 arginine finger; other site 1001585006617 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1001585006618 hypothetical protein; Validated; Region: PRK00153 1001585006619 recombination protein RecR; Reviewed; Region: recR; PRK00076 1001585006620 RecR protein; Region: RecR; pfam02132 1001585006621 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 1001585006622 putative active site [active] 1001585006623 putative metal-binding site [ion binding]; other site 1001585006624 tetramer interface [polypeptide binding]; other site 1001585006625 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 1001585006626 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585006627 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585006628 active site 1001585006629 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1001585006630 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1001585006631 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585006632 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1001585006633 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1001585006634 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1001585006635 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1001585006636 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 1001585006637 non-specific DNA binding site [nucleotide binding]; other site 1001585006638 salt bridge; other site 1001585006639 sequence-specific DNA binding site [nucleotide binding]; other site 1001585006640 Cupin domain; Region: Cupin_2; pfam07883 1001585006641 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1001585006642 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1001585006643 putative aminotransferase; Validated; Region: PRK07480 1001585006644 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 1001585006645 inhibitor-cofactor binding pocket; inhibition site 1001585006646 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585006647 catalytic residue [active] 1001585006648 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1001585006649 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1001585006650 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1001585006651 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1001585006652 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1001585006653 MarR family; Region: MarR; pfam01047 1001585006654 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 1001585006655 Protein of unknown function, DUF480; Region: DUF480; pfam04337 1001585006656 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585006657 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585006658 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1001585006659 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 1001585006660 putative NAD(P) binding site [chemical binding]; other site 1001585006661 active site 1001585006662 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1001585006663 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 1001585006664 putative catalytic residue [active] 1001585006665 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 1001585006666 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585006667 short chain dehydrogenase; Provisional; Region: PRK05650 1001585006668 NAD(P) binding site [chemical binding]; other site 1001585006669 active site 1001585006670 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1001585006671 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1001585006672 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1001585006673 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1001585006674 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1001585006675 Ion transport protein; Region: Ion_trans; pfam00520 1001585006676 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1001585006677 active site 1001585006678 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1001585006679 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 1001585006680 ligand binding site [chemical binding]; other site 1001585006681 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 1001585006682 putative switch regulator; other site 1001585006683 non-specific DNA interactions [nucleotide binding]; other site 1001585006684 DNA binding site [nucleotide binding] 1001585006685 sequence specific DNA binding site [nucleotide binding]; other site 1001585006686 putative cAMP binding site [chemical binding]; other site 1001585006687 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1001585006688 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 1001585006689 FeS/SAM binding site; other site 1001585006690 HemN C-terminal domain; Region: HemN_C; pfam06969 1001585006691 Uncharacterized conserved protein [Function unknown]; Region: COG2836 1001585006692 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 1001585006693 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1001585006694 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1001585006695 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 1001585006696 metal-binding site [ion binding] 1001585006697 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1001585006698 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 1001585006699 motif II; other site 1001585006700 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 1001585006701 FixH; Region: FixH; pfam05751 1001585006702 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1001585006703 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1001585006704 4Fe-4S binding domain; Region: Fer4; pfam00037 1001585006705 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1001585006706 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1001585006707 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1001585006708 Cytochrome c; Region: Cytochrom_C; pfam00034 1001585006709 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 1001585006710 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1001585006711 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1001585006712 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 1001585006713 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1001585006714 Low-spin heme binding site [chemical binding]; other site 1001585006715 Putative water exit pathway; other site 1001585006716 Binuclear center (active site) [active] 1001585006717 Putative proton exit pathway; other site 1001585006718 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1001585006719 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1001585006720 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1001585006721 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 1001585006722 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1001585006723 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1001585006724 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 1001585006725 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1001585006726 Low-spin heme binding site [chemical binding]; other site 1001585006727 Putative water exit pathway; other site 1001585006728 Binuclear center (active site) [active] 1001585006729 Putative proton exit pathway; other site 1001585006730 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 1001585006731 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1001585006732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1001585006733 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1001585006734 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1001585006735 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1001585006736 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1001585006737 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 1001585006738 active site 1001585006739 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1001585006740 Cytochrome c; Region: Cytochrom_C; pfam00034 1001585006741 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 1001585006742 active site residue [active] 1001585006743 Predicted permeases [General function prediction only]; Region: COG0679 1001585006744 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 1001585006745 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 1001585006746 dimer interface [polypeptide binding]; other site 1001585006747 active site 1001585006748 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1001585006749 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 1001585006750 substrate binding site [chemical binding]; other site 1001585006751 oxyanion hole (OAH) forming residues; other site 1001585006752 trimer interface [polypeptide binding]; other site 1001585006753 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1001585006754 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1001585006755 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1001585006756 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1001585006757 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1001585006758 catalytic triad [active] 1001585006759 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 1001585006760 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1001585006761 putative acyl-acceptor binding pocket; other site 1001585006762 aminotransferase; Validated; Region: PRK08175 1001585006763 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 1001585006764 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585006765 homodimer interface [polypeptide binding]; other site 1001585006766 catalytic residue [active] 1001585006767 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 1001585006768 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1001585006769 catalytic residue [active] 1001585006770 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1001585006771 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585006772 active site 1001585006773 phosphorylation site [posttranslational modification] 1001585006774 intermolecular recognition site; other site 1001585006775 dimerization interface [polypeptide binding]; other site 1001585006776 ANTAR domain; Region: ANTAR; pfam03861 1001585006777 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1001585006778 NMT1-like family; Region: NMT1_2; pfam13379 1001585006779 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1001585006780 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 1001585006781 substrate binding site [chemical binding]; other site 1001585006782 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1001585006783 substrate binding site [chemical binding]; other site 1001585006784 ligand binding site [chemical binding]; other site 1001585006785 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 1001585006786 universal stress protein UspE; Provisional; Region: PRK11175 1001585006787 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 1001585006788 Ligand Binding Site [chemical binding]; other site 1001585006789 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 1001585006790 Ligand Binding Site [chemical binding]; other site 1001585006791 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 1001585006792 active site 1001585006793 dinuclear metal binding site [ion binding]; other site 1001585006794 dimerization interface [polypeptide binding]; other site 1001585006795 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1001585006796 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1001585006797 putative active site [active] 1001585006798 putative metal binding site [ion binding]; other site 1001585006799 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 1001585006800 substrate binding site [chemical binding]; other site 1001585006801 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1001585006802 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1001585006803 active site 1001585006804 HIGH motif; other site 1001585006805 nucleotide binding site [chemical binding]; other site 1001585006806 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1001585006807 KMSKS motif; other site 1001585006808 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1001585006809 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1001585006810 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1001585006811 active site 1001585006812 HIGH motif; other site 1001585006813 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1001585006814 KMSKS motif; other site 1001585006815 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1001585006816 tRNA binding surface [nucleotide binding]; other site 1001585006817 anticodon binding site; other site 1001585006818 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585006819 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585006820 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 1001585006821 putative effector binding pocket; other site 1001585006822 dimerization interface [polypeptide binding]; other site 1001585006823 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1001585006824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585006825 NAD(P) binding site [chemical binding]; other site 1001585006826 active site 1001585006827 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 1001585006828 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1001585006829 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 1001585006830 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1001585006831 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 1001585006832 Walker A motif; other site 1001585006833 ATP binding site [chemical binding]; other site 1001585006834 Walker B motif; other site 1001585006835 arginine finger; other site 1001585006836 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1001585006837 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1001585006838 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1001585006839 Walker A/P-loop; other site 1001585006840 ATP binding site [chemical binding]; other site 1001585006841 Q-loop/lid; other site 1001585006842 ABC transporter signature motif; other site 1001585006843 Walker B; other site 1001585006844 D-loop; other site 1001585006845 H-loop/switch region; other site 1001585006846 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1001585006847 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1001585006848 Walker A/P-loop; other site 1001585006849 ATP binding site [chemical binding]; other site 1001585006850 Q-loop/lid; other site 1001585006851 ABC transporter signature motif; other site 1001585006852 Walker B; other site 1001585006853 D-loop; other site 1001585006854 H-loop/switch region; other site 1001585006855 TOBE domain; Region: TOBE_2; pfam08402 1001585006856 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1001585006857 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585006858 dimer interface [polypeptide binding]; other site 1001585006859 conserved gate region; other site 1001585006860 putative PBP binding loops; other site 1001585006861 ABC-ATPase subunit interface; other site 1001585006862 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1001585006863 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585006864 dimer interface [polypeptide binding]; other site 1001585006865 conserved gate region; other site 1001585006866 putative PBP binding loops; other site 1001585006867 ABC-ATPase subunit interface; other site 1001585006868 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 1001585006869 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1001585006870 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1001585006871 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1001585006872 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1001585006873 homodimer interface [polypeptide binding]; other site 1001585006874 NADP binding site [chemical binding]; other site 1001585006875 substrate binding site [chemical binding]; other site 1001585006876 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1001585006877 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 1001585006878 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 1001585006879 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1001585006880 phiCTX phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various phage and bacterial integrases, including those similar to phage integrases: Bordetella and...; Region: INT_phiCTX_C; cd01191 1001585006881 Int/Topo IB signature motif; other site 1001585006882 YcfA-like protein; Region: YcfA; cl00752 1001585006883 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 1001585006884 Active Sites [active] 1001585006885 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 1001585006886 active site 1001585006887 metal binding site [ion binding]; metal-binding site 1001585006888 interdomain interaction site; other site 1001585006889 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 1001585006890 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 1001585006891 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 1001585006892 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 1001585006893 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1001585006894 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 1001585006895 Catalytic site [active] 1001585006896 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 1001585006897 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1001585006898 active site 1001585006899 DNA binding site [nucleotide binding] 1001585006900 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1001585006901 tail protein; Provisional; Region: D; PHA02561 1001585006902 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1001585006903 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 1001585006904 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 1001585006905 linker region; other site 1001585006906 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1001585006907 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1001585006908 Phage tail tube protein FII; Region: Phage_tube; cl01390 1001585006909 major tail sheath protein; Provisional; Region: FI; PHA02560 1001585006910 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 1001585006911 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 1001585006912 Baseplate J-like protein; Region: Baseplate_J; cl01294 1001585006913 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1001585006914 PAAR motif; Region: PAAR_motif; cl15808 1001585006915 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 1001585006916 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 1001585006917 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 1001585006918 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 1001585006919 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1001585006920 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1001585006921 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 1001585006922 Phage holin family (Lysis protein S); Region: Phage_holin_3; pfam05106 1001585006923 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 1001585006924 Phage Tail Protein X; Region: Phage_tail_X; cl02088 1001585006925 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 1001585006926 terminase endonuclease subunit; Provisional; Region: M; PHA02537 1001585006927 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 1001585006928 capsid protein; Provisional; Region: N; PHA02538 1001585006929 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 1001585006930 terminase ATPase subunit; Provisional; Region: P; PHA02535 1001585006931 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 1001585006932 portal vertex protein; Provisional; Region: Q; PHA02536 1001585006933 Phage portal protein; Region: Phage_portal; pfam04860 1001585006934 trigger factor; Provisional; Region: tig; PRK01490 1001585006935 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1001585006936 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1001585006937 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1001585006938 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1001585006939 oligomer interface [polypeptide binding]; other site 1001585006940 active site residues [active] 1001585006941 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1001585006942 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1001585006943 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 1001585006944 Walker A motif; other site 1001585006945 ATP binding site [chemical binding]; other site 1001585006946 Walker B motif; other site 1001585006947 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1001585006948 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1001585006949 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1001585006950 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 1001585006951 Walker A motif; other site 1001585006952 ATP binding site [chemical binding]; other site 1001585006953 Walker B motif; other site 1001585006954 arginine finger; other site 1001585006955 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1001585006956 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 1001585006957 IHF dimer interface [polypeptide binding]; other site 1001585006958 IHF - DNA interface [nucleotide binding]; other site 1001585006959 periplasmic folding chaperone; Provisional; Region: PRK10788 1001585006960 SurA N-terminal domain; Region: SurA_N_3; pfam13624 1001585006961 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1001585006962 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1001585006963 putative active site [active] 1001585006964 catalytic site [active] 1001585006965 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1001585006966 PLD-like domain; Region: PLDc_2; pfam13091 1001585006967 putative active site [active] 1001585006968 catalytic site [active] 1001585006969 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 1001585006970 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1001585006971 NAD binding site [chemical binding]; other site 1001585006972 homotetramer interface [polypeptide binding]; other site 1001585006973 homodimer interface [polypeptide binding]; other site 1001585006974 substrate binding site [chemical binding]; other site 1001585006975 active site 1001585006976 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1001585006977 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1001585006978 Walker A/P-loop; other site 1001585006979 ATP binding site [chemical binding]; other site 1001585006980 Q-loop/lid; other site 1001585006981 ABC transporter signature motif; other site 1001585006982 Walker B; other site 1001585006983 D-loop; other site 1001585006984 H-loop/switch region; other site 1001585006985 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1001585006986 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1001585006987 Walker A/P-loop; other site 1001585006988 ATP binding site [chemical binding]; other site 1001585006989 Q-loop/lid; other site 1001585006990 ABC transporter signature motif; other site 1001585006991 Walker B; other site 1001585006992 D-loop; other site 1001585006993 H-loop/switch region; other site 1001585006994 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1001585006995 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1001585006996 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585006997 dimer interface [polypeptide binding]; other site 1001585006998 conserved gate region; other site 1001585006999 putative PBP binding loops; other site 1001585007000 ABC-ATPase subunit interface; other site 1001585007001 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1001585007002 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585007003 dimer interface [polypeptide binding]; other site 1001585007004 conserved gate region; other site 1001585007005 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 1001585007006 ABC-ATPase subunit interface; other site 1001585007007 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1001585007008 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 1001585007009 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1001585007010 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1001585007011 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 1001585007012 HDOD domain; Region: HDOD; pfam08668 1001585007013 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 1001585007014 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 1001585007015 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1001585007016 catalytic residue [active] 1001585007017 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1001585007018 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1001585007019 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1001585007020 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1001585007021 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1001585007022 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1001585007023 RNA/DNA hybrid binding site [nucleotide binding]; other site 1001585007024 active site 1001585007025 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1001585007026 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 1001585007027 active site 1001585007028 catalytic site [active] 1001585007029 substrate binding site [chemical binding]; other site 1001585007030 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1001585007031 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1001585007032 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 1001585007033 homodimer interface [polypeptide binding]; other site 1001585007034 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585007035 catalytic residue [active] 1001585007036 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1001585007037 enoyl-CoA hydratase; Provisional; Region: PRK06142 1001585007038 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 1001585007039 substrate binding site [chemical binding]; other site 1001585007040 oxyanion hole (OAH) forming residues; other site 1001585007041 trimer interface [polypeptide binding]; other site 1001585007042 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1001585007043 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1001585007044 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1001585007045 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 1001585007046 putative NADH binding site [chemical binding]; other site 1001585007047 putative active site [active] 1001585007048 nudix motif; other site 1001585007049 putative metal binding site [ion binding]; other site 1001585007050 hypothetical protein; Provisional; Region: PRK10621 1001585007051 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1001585007052 short chain dehydrogenase; Provisional; Region: PRK07035 1001585007053 classical (c) SDRs; Region: SDR_c; cd05233 1001585007054 NAD(P) binding site [chemical binding]; other site 1001585007055 active site 1001585007056 Phosphotransferase enzyme family; Region: APH; pfam01636 1001585007057 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 1001585007058 putative active site [active] 1001585007059 putative substrate binding site [chemical binding]; other site 1001585007060 ATP binding site [chemical binding]; other site 1001585007061 Putative sterol carrier protein [Lipid metabolism]; Region: COG3255 1001585007062 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 1001585007063 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1001585007064 putative inner membrane peptidase; Provisional; Region: PRK11778 1001585007065 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1001585007066 tandem repeat interface [polypeptide binding]; other site 1001585007067 oligomer interface [polypeptide binding]; other site 1001585007068 active site residues [active] 1001585007069 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 1001585007070 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1001585007071 NADP binding site [chemical binding]; other site 1001585007072 dimer interface [polypeptide binding]; other site 1001585007073 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 1001585007074 CoenzymeA binding site [chemical binding]; other site 1001585007075 subunit interaction site [polypeptide binding]; other site 1001585007076 PHB binding site; other site 1001585007077 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585007078 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585007079 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 1001585007080 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1001585007081 putative active site [active] 1001585007082 metal binding site [ion binding]; metal-binding site 1001585007083 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 1001585007084 membrane-bound complex binding site; other site 1001585007085 hinge residues; other site 1001585007086 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 1001585007087 heat shock protein HtpX; Provisional; Region: PRK05457 1001585007088 aminotransferase AlaT; Validated; Region: PRK09265 1001585007089 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 1001585007090 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585007091 homodimer interface [polypeptide binding]; other site 1001585007092 catalytic residue [active] 1001585007093 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1001585007094 SelR domain; Region: SelR; pfam01641 1001585007095 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 1001585007096 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1001585007097 Domain of unknown function (DUF1287); Region: DUF1287; pfam06940 1001585007098 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 1001585007099 DoxX-like family; Region: DoxX_3; pfam13781 1001585007100 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1001585007101 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1001585007102 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585007103 Walker A/P-loop; other site 1001585007104 ATP binding site [chemical binding]; other site 1001585007105 Q-loop/lid; other site 1001585007106 ABC transporter signature motif; other site 1001585007107 Walker B; other site 1001585007108 D-loop; other site 1001585007109 H-loop/switch region; other site 1001585007110 threonine and homoserine efflux system; Provisional; Region: PRK10532 1001585007111 EamA-like transporter family; Region: EamA; pfam00892 1001585007112 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 1001585007113 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 1001585007114 active site 1001585007115 catalytic site [active] 1001585007116 substrate binding site [chemical binding]; other site 1001585007117 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1001585007118 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1001585007119 Flagellin N-methylase; Region: FliB; cl00497 1001585007120 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 1001585007121 putative lipid binding site [chemical binding]; other site 1001585007122 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 1001585007123 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1001585007124 dimer interface [polypeptide binding]; other site 1001585007125 active site 1001585007126 citrylCoA binding site [chemical binding]; other site 1001585007127 NADH binding [chemical binding]; other site 1001585007128 cationic pore residues; other site 1001585007129 oxalacetate/citrate binding site [chemical binding]; other site 1001585007130 coenzyme A binding site [chemical binding]; other site 1001585007131 catalytic triad [active] 1001585007132 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 1001585007133 Iron-sulfur protein interface; other site 1001585007134 proximal quinone binding site [chemical binding]; other site 1001585007135 SdhD (CybS) interface [polypeptide binding]; other site 1001585007136 proximal heme binding site [chemical binding]; other site 1001585007137 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 1001585007138 SdhC subunit interface [polypeptide binding]; other site 1001585007139 proximal heme binding site [chemical binding]; other site 1001585007140 cardiolipin binding site; other site 1001585007141 Iron-sulfur protein interface; other site 1001585007142 proximal quinone binding site [chemical binding]; other site 1001585007143 L-aspartate oxidase; Provisional; Region: PRK06175 1001585007144 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 1001585007145 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1001585007146 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1001585007147 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1001585007148 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1001585007149 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 1001585007150 TPP-binding site [chemical binding]; other site 1001585007151 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1001585007152 dimer interface [polypeptide binding]; other site 1001585007153 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1001585007154 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 1001585007155 E3 interaction surface; other site 1001585007156 lipoyl attachment site [posttranslational modification]; other site 1001585007157 e3 binding domain; Region: E3_binding; pfam02817 1001585007158 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1001585007159 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1001585007160 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1001585007161 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585007162 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1001585007163 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1001585007164 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1001585007165 CoA-ligase; Region: Ligase_CoA; pfam00549 1001585007166 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1001585007167 CoA binding domain; Region: CoA_binding; smart00881 1001585007168 CoA-ligase; Region: Ligase_CoA; pfam00549 1001585007169 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 1001585007170 Predicted membrane protein [Function unknown]; Region: COG3821 1001585007171 MAPEG family; Region: MAPEG; cl09190 1001585007172 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 1001585007173 CoenzymeA binding site [chemical binding]; other site 1001585007174 subunit interaction site [polypeptide binding]; other site 1001585007175 PHB binding site; other site 1001585007176 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 1001585007177 CoenzymeA binding site [chemical binding]; other site 1001585007178 subunit interaction site [polypeptide binding]; other site 1001585007179 PHB binding site; other site 1001585007180 heat shock protein 90; Provisional; Region: PRK05218 1001585007181 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585007182 ATP binding site [chemical binding]; other site 1001585007183 Mg2+ binding site [ion binding]; other site 1001585007184 G-X-G motif; other site 1001585007185 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1001585007186 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1001585007187 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1001585007188 PAS domain S-box; Region: sensory_box; TIGR00229 1001585007189 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 1001585007190 putative active site [active] 1001585007191 heme pocket [chemical binding]; other site 1001585007192 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 1001585007193 PAS fold; Region: PAS_3; pfam08447 1001585007194 putative active site [active] 1001585007195 heme pocket [chemical binding]; other site 1001585007196 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 1001585007197 PAS domain; Region: PAS_9; pfam13426 1001585007198 putative active site [active] 1001585007199 heme pocket [chemical binding]; other site 1001585007200 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585007201 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 1001585007202 dimer interface [polypeptide binding]; other site 1001585007203 phosphorylation site [posttranslational modification] 1001585007204 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585007205 ATP binding site [chemical binding]; other site 1001585007206 Mg2+ binding site [ion binding]; other site 1001585007207 G-X-G motif; other site 1001585007208 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585007209 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585007210 active site 1001585007211 phosphorylation site [posttranslational modification] 1001585007212 intermolecular recognition site; other site 1001585007213 dimerization interface [polypeptide binding]; other site 1001585007214 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 1001585007215 putative binding surface; other site 1001585007216 active site 1001585007217 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1001585007218 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585007219 active site 1001585007220 phosphorylation site [posttranslational modification] 1001585007221 intermolecular recognition site; other site 1001585007222 dimerization interface [polypeptide binding]; other site 1001585007223 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1001585007224 Zn2+ binding site [ion binding]; other site 1001585007225 Mg2+ binding site [ion binding]; other site 1001585007226 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1001585007227 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1001585007228 Domain of unknown function (DUF4394); Region: DUF4394; pfam14339 1001585007229 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 1001585007230 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1001585007231 RNA polymerase sigma factor; Provisional; Region: PRK12537 1001585007232 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585007233 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 1001585007234 DNA binding residues [nucleotide binding] 1001585007235 Pirin-related protein [General function prediction only]; Region: COG1741 1001585007236 Pirin; Region: Pirin; pfam02678 1001585007237 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1001585007238 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 1001585007239 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585007240 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585007241 dimer interface [polypeptide binding]; other site 1001585007242 putative CheW interface [polypeptide binding]; other site 1001585007243 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 1001585007244 Cache domain; Region: Cache_1; pfam02743 1001585007245 Amidohydrolase; Region: Amidohydro_2; pfam04909 1001585007246 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 1001585007247 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1001585007248 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1001585007249 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1001585007250 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 1001585007251 S-adenosylmethionine binding site [chemical binding]; other site 1001585007252 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585007253 HAMP domain; Region: HAMP; pfam00672 1001585007254 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 1001585007255 dimer interface [polypeptide binding]; other site 1001585007256 phosphorylation site [posttranslational modification] 1001585007257 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585007258 ATP binding site [chemical binding]; other site 1001585007259 Mg2+ binding site [ion binding]; other site 1001585007260 G-X-G motif; other site 1001585007261 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1001585007262 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585007263 active site 1001585007264 phosphorylation site [posttranslational modification] 1001585007265 intermolecular recognition site; other site 1001585007266 dimerization interface [polypeptide binding]; other site 1001585007267 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 1001585007268 DNA binding site [nucleotide binding] 1001585007269 Sulfatase; Region: Sulfatase; pfam00884 1001585007270 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 1001585007271 active site 1001585007272 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 1001585007273 active site 1001585007274 catalytic residues [active] 1001585007275 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1001585007276 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 1001585007277 dimerization interface [polypeptide binding]; other site 1001585007278 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585007279 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585007280 dimer interface [polypeptide binding]; other site 1001585007281 putative CheW interface [polypeptide binding]; other site 1001585007282 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1001585007283 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 1001585007284 dimer interface [polypeptide binding]; other site 1001585007285 active site 1001585007286 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 1001585007287 active site 1 [active] 1001585007288 dimer interface [polypeptide binding]; other site 1001585007289 active site 2 [active] 1001585007290 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 1001585007291 dimerization interface [polypeptide binding]; other site 1001585007292 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 1001585007293 dimer interface [polypeptide binding]; other site 1001585007294 phosphorylation site [posttranslational modification] 1001585007295 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585007296 ATP binding site [chemical binding]; other site 1001585007297 Mg2+ binding site [ion binding]; other site 1001585007298 G-X-G motif; other site 1001585007299 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585007300 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585007301 active site 1001585007302 phosphorylation site [posttranslational modification] 1001585007303 intermolecular recognition site; other site 1001585007304 dimerization interface [polypeptide binding]; other site 1001585007305 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1001585007306 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1001585007307 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1001585007308 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 1001585007309 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 1001585007310 catalytic core [active] 1001585007311 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1001585007312 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 1001585007313 acyl-activating enzyme (AAE) consensus motif; other site 1001585007314 putative AMP binding site [chemical binding]; other site 1001585007315 putative active site [active] 1001585007316 putative CoA binding site [chemical binding]; other site 1001585007317 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 1001585007318 CoenzymeA binding site [chemical binding]; other site 1001585007319 subunit interaction site [polypeptide binding]; other site 1001585007320 PHB binding site; other site 1001585007321 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1001585007322 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585007323 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585007324 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1001585007325 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 1001585007326 active site 1001585007327 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 1001585007328 Ligand Binding Site [chemical binding]; other site 1001585007329 Molecular Tunnel; other site 1001585007330 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 1001585007331 active site 1001585007332 metal-binding site [ion binding] 1001585007333 nucleotide-binding site [chemical binding]; other site 1001585007334 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1001585007335 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1001585007336 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1001585007337 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1001585007338 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1001585007339 hypothetical protein; Provisional; Region: PRK10279 1001585007340 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1001585007341 active site 1001585007342 nucleophile elbow; other site 1001585007343 selenophosphate synthetase; Provisional; Region: PRK00943 1001585007344 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 1001585007345 dimerization interface [polypeptide binding]; other site 1001585007346 putative ATP binding site [chemical binding]; other site 1001585007347 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1001585007348 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 1001585007349 active site residue [active] 1001585007350 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1001585007351 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 1001585007352 dimerization interface [polypeptide binding]; other site 1001585007353 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585007354 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585007355 dimer interface [polypeptide binding]; other site 1001585007356 putative CheW interface [polypeptide binding]; other site 1001585007357 MoxR-like ATPases [General function prediction only]; Region: COG0714 1001585007358 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 1001585007359 Walker A motif; other site 1001585007360 ATP binding site [chemical binding]; other site 1001585007361 Walker B motif; other site 1001585007362 arginine finger; other site 1001585007363 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1001585007364 Protein of unknown function DUF58; Region: DUF58; pfam01882 1001585007365 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 1001585007366 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1001585007367 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1001585007368 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 1001585007369 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 1001585007370 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1001585007371 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 1001585007372 active site 1001585007373 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 1001585007374 active site 2 [active] 1001585007375 active site 1 [active] 1001585007376 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 1001585007377 dimerization interface [polypeptide binding]; other site 1001585007378 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585007379 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585007380 dimer interface [polypeptide binding]; other site 1001585007381 putative CheW interface [polypeptide binding]; other site 1001585007382 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1001585007383 active site 1001585007384 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 1001585007385 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 1001585007386 substrate binding pocket [chemical binding]; other site 1001585007387 membrane-bound complex binding site; other site 1001585007388 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 1001585007389 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1001585007390 catalytic residue [active] 1001585007391 Predicted membrane protein [Function unknown]; Region: COG2259 1001585007392 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1001585007393 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585007394 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 1001585007395 substrate binding pocket [chemical binding]; other site 1001585007396 dimerization interface [polypeptide binding]; other site 1001585007397 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585007398 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 1001585007399 FAD binding site [chemical binding]; other site 1001585007400 substrate binding site [chemical binding]; other site 1001585007401 catalytic base [active] 1001585007402 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1001585007403 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 1001585007404 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1001585007405 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585007406 ligand binding site [chemical binding]; other site 1001585007407 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 1001585007408 putative catalytic site [active] 1001585007409 putative phosphate binding site [ion binding]; other site 1001585007410 active site 1001585007411 metal binding site A [ion binding]; metal-binding site 1001585007412 DNA binding site [nucleotide binding] 1001585007413 putative AP binding site [nucleotide binding]; other site 1001585007414 putative metal binding site B [ion binding]; other site 1001585007415 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1001585007416 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1001585007417 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1001585007418 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1001585007419 Surface antigen; Region: Bac_surface_Ag; pfam01103 1001585007420 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1001585007421 Family of unknown function (DUF490); Region: DUF490; pfam04357 1001585007422 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 1001585007423 dimer interface [polypeptide binding]; other site 1001585007424 catalytic triad [active] 1001585007425 peroxidatic and resolving cysteines [active] 1001585007426 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1001585007427 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1001585007428 HlyD family secretion protein; Region: HlyD_3; pfam13437 1001585007429 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1001585007430 Protein export membrane protein; Region: SecD_SecF; cl14618 1001585007431 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1001585007432 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 1001585007433 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1001585007434 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585007435 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1001585007436 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 1001585007437 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 1001585007438 S-adenosylmethionine binding site [chemical binding]; other site 1001585007439 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1001585007440 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1001585007441 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1001585007442 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1001585007443 proton-translocating NADH-quinone oxidoreductase, chain L; Region: NDH_I_L; TIGR01974 1001585007444 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1001585007445 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1001585007446 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1001585007447 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1001585007448 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1001585007449 4Fe-4S binding domain; Region: Fer4; pfam00037 1001585007450 4Fe-4S binding domain; Region: Fer4; pfam00037 1001585007451 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1001585007452 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 1001585007453 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 1001585007454 catalytic loop [active] 1001585007455 iron binding site [ion binding]; other site 1001585007456 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1001585007457 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 1001585007458 [4Fe-4S] binding site [ion binding]; other site 1001585007459 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 1001585007460 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 1001585007461 SLBB domain; Region: SLBB; pfam10531 1001585007462 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1001585007463 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1001585007464 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 1001585007465 putative dimer interface [polypeptide binding]; other site 1001585007466 [2Fe-2S] cluster binding site [ion binding]; other site 1001585007467 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 1001585007468 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1001585007469 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1001585007470 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 1001585007471 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1001585007472 Pectinacetylesterase; Region: PAE; pfam03283 1001585007473 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1001585007474 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 1001585007475 tetramer interface [polypeptide binding]; other site 1001585007476 active site 1001585007477 Mg2+/Mn2+ binding site [ion binding]; other site 1001585007478 isocitrate lyase; Region: PLN02892 1001585007479 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1001585007480 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1001585007481 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1001585007482 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585007483 Coenzyme A binding pocket [chemical binding]; other site 1001585007484 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1001585007485 adenylosuccinate lyase; Provisional; Region: PRK09285 1001585007486 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1001585007487 tetramer interface [polypeptide binding]; other site 1001585007488 active site 1001585007489 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1001585007490 EamA-like transporter family; Region: EamA; pfam00892 1001585007491 EamA-like transporter family; Region: EamA; pfam00892 1001585007492 putative lysogenization regulator; Reviewed; Region: PRK00218 1001585007493 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1001585007494 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 1001585007495 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 1001585007496 nudix motif; other site 1001585007497 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 1001585007498 Monomeric isocitrate dehydrogenase; Region: IDH; pfam03971 1001585007499 isocitrate dehydrogenase; Validated; Region: PRK07362 1001585007500 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1001585007501 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 1001585007502 DNA-binding site [nucleotide binding]; DNA binding site 1001585007503 RNA-binding motif; other site 1001585007504 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 1001585007505 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 1001585007506 Clp amino terminal domain; Region: Clp_N; pfam02861 1001585007507 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 1001585007508 Walker A motif; other site 1001585007509 ATP binding site [chemical binding]; other site 1001585007510 Walker B motif; other site 1001585007511 arginine finger; other site 1001585007512 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 1001585007513 Walker A motif; other site 1001585007514 ATP binding site [chemical binding]; other site 1001585007515 Walker B motif; other site 1001585007516 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1001585007517 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 1001585007518 rRNA binding site [nucleotide binding]; other site 1001585007519 predicted 30S ribosome binding site; other site 1001585007520 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1001585007521 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1001585007522 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1001585007523 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1001585007524 thioredoxin reductase; Provisional; Region: PRK10262 1001585007525 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1001585007526 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585007527 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1001585007528 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1001585007529 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1001585007530 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1001585007531 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1001585007532 recombination factor protein RarA; Reviewed; Region: PRK13342 1001585007533 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 1001585007534 Walker A motif; other site 1001585007535 ATP binding site [chemical binding]; other site 1001585007536 Walker B motif; other site 1001585007537 arginine finger; other site 1001585007538 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1001585007539 camphor resistance protein CrcB; Provisional; Region: PRK14234 1001585007540 seryl-tRNA synthetase; Provisional; Region: PRK05431 1001585007541 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1001585007542 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 1001585007543 dimer interface [polypeptide binding]; other site 1001585007544 active site 1001585007545 motif 1; other site 1001585007546 motif 2; other site 1001585007547 motif 3; other site 1001585007548 siroheme synthase; Provisional; Region: cysG; PRK10637 1001585007549 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1001585007550 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1001585007551 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1001585007552 active site 1001585007553 SAM binding site [chemical binding]; other site 1001585007554 homodimer interface [polypeptide binding]; other site 1001585007555 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1001585007556 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1001585007557 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1001585007558 putative dimer interface [polypeptide binding]; other site 1001585007559 N-terminal domain interface [polypeptide binding]; other site 1001585007560 putative substrate binding pocket (H-site) [chemical binding]; other site 1001585007561 hypothetical protein; Validated; Region: PRK09071 1001585007562 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1001585007563 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 1001585007564 DsrH like protein; Region: DsrH; pfam04077 1001585007565 sulfur relay protein TusC; Validated; Region: PRK00211 1001585007566 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 1001585007567 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1001585007568 YccA-like proteins; Region: YccA_like; cd10433 1001585007569 response regulator; Provisional; Region: PRK09483 1001585007570 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585007571 active site 1001585007572 phosphorylation site [posttranslational modification] 1001585007573 intermolecular recognition site; other site 1001585007574 dimerization interface [polypeptide binding]; other site 1001585007575 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 1001585007576 DNA binding residues [nucleotide binding] 1001585007577 dimerization interface [polypeptide binding]; other site 1001585007578 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1001585007579 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1001585007580 GIY-YIG motif/motif A; other site 1001585007581 active site 1001585007582 catalytic site [active] 1001585007583 putative DNA binding site [nucleotide binding]; other site 1001585007584 metal binding site [ion binding]; metal-binding site 1001585007585 UvrB/uvrC motif; Region: UVR; pfam02151 1001585007586 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1001585007587 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 1001585007588 DNA binding site [nucleotide binding] 1001585007589 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1001585007590 RES domain; Region: RES; pfam08808 1001585007591 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 1001585007592 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 1001585007593 ATP cone domain; Region: ATP-cone; pfam03477 1001585007594 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1001585007595 effector binding site; other site 1001585007596 active site 1001585007597 Zn binding site [ion binding]; other site 1001585007598 glycine loop; other site 1001585007599 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 1001585007600 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 1001585007601 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 1001585007602 FeS/SAM binding site; other site 1001585007603 NnrS protein; Region: NnrS; pfam05940 1001585007604 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 1001585007605 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 1001585007606 Hemerythrin-like domain; Region: Hr-like; cd12108 1001585007607 Fe binding site [ion binding]; other site 1001585007608 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 1001585007609 GAF domain; Region: GAF; pfam01590 1001585007610 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 1001585007611 Walker A motif; other site 1001585007612 ATP binding site [chemical binding]; other site 1001585007613 Walker B motif; other site 1001585007614 arginine finger; other site 1001585007615 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 1001585007616 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1001585007617 Peptidase family U32; Region: Peptidase_U32; pfam01136 1001585007618 putative protease; Provisional; Region: PRK15447 1001585007619 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1001585007620 SCP-2 sterol transfer family; Region: SCP2; cl01225 1001585007621 Protein of unknown function DUF72; Region: DUF72; pfam01904 1001585007622 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1001585007623 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1001585007624 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 1001585007625 putative DNA binding site [nucleotide binding]; other site 1001585007626 putative homodimer interface [polypeptide binding]; other site 1001585007627 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1001585007628 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 1001585007629 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1001585007630 active site 1001585007631 DNA binding site [nucleotide binding] 1001585007632 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 1001585007633 DNA binding site [nucleotide binding] 1001585007634 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 1001585007635 nucleotide binding site [chemical binding]; other site 1001585007636 short chain dehydrogenase; Provisional; Region: PRK07109 1001585007637 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 1001585007638 putative NAD(P) binding site [chemical binding]; other site 1001585007639 active site 1001585007640 thiamine pyrophosphate protein; Provisional; Region: PRK08273 1001585007641 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1001585007642 PYR/PP interface [polypeptide binding]; other site 1001585007643 dimer interface [polypeptide binding]; other site 1001585007644 tetramer interface [polypeptide binding]; other site 1001585007645 TPP binding site [chemical binding]; other site 1001585007646 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1001585007647 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 1001585007648 TPP-binding site [chemical binding]; other site 1001585007649 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1001585007650 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1001585007651 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1001585007652 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1001585007653 active site 1001585007654 tetramer interface; other site 1001585007655 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1001585007656 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 1001585007657 active site 1001585007658 metal binding site [ion binding]; metal-binding site 1001585007659 glutathione reductase; Validated; Region: PRK06116 1001585007660 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1001585007661 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585007662 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1001585007663 Predicted membrane protein [Function unknown]; Region: COG2860 1001585007664 UPF0126 domain; Region: UPF0126; pfam03458 1001585007665 UPF0126 domain; Region: UPF0126; pfam03458 1001585007666 Predicted membrane protein [Function unknown]; Region: COG2323 1001585007667 General stress protein [General function prediction only]; Region: GsiB; COG3729 1001585007668 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1001585007669 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1001585007670 active site 1001585007671 tetramer interface; other site 1001585007672 short chain dehydrogenase; Provisional; Region: PRK06701 1001585007673 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1001585007674 NAD binding site [chemical binding]; other site 1001585007675 metal binding site [ion binding]; metal-binding site 1001585007676 active site 1001585007677 General stress protein [General function prediction only]; Region: GsiB; COG3729 1001585007678 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1001585007679 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 1001585007680 S-adenosylmethionine binding site [chemical binding]; other site 1001585007681 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 1001585007682 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 1001585007683 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1001585007684 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1001585007685 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1001585007686 NAD binding site [chemical binding]; other site 1001585007687 catalytic Zn binding site [ion binding]; other site 1001585007688 structural Zn binding site [ion binding]; other site 1001585007689 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1001585007690 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1001585007691 MgtC family; Region: MgtC; pfam02308 1001585007692 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 1001585007693 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 1001585007694 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1001585007695 active site 1001585007696 homodimer interface [polypeptide binding]; other site 1001585007697 catalytic site [active] 1001585007698 acceptor binding site [chemical binding]; other site 1001585007699 trehalose synthase; Region: treS_nterm; TIGR02456 1001585007700 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1001585007701 active site 1001585007702 catalytic site [active] 1001585007703 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 1001585007704 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 1001585007705 glycogen branching enzyme; Provisional; Region: PRK05402 1001585007706 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 1001585007707 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1001585007708 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1001585007709 active site 1001585007710 catalytic site [active] 1001585007711 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1001585007712 FOG: CBS domain [General function prediction only]; Region: COG0517 1001585007713 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_9; cd04622 1001585007714 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585007715 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1001585007716 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 1001585007717 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1001585007718 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 1001585007719 homodimer interface [polypeptide binding]; other site 1001585007720 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1001585007721 active site pocket [active] 1001585007722 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 1001585007723 Predicted integral membrane protein [Function unknown]; Region: COG0392 1001585007724 cardiolipin synthase 2; Provisional; Region: PRK11263 1001585007725 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1001585007726 putative active site [active] 1001585007727 catalytic site [active] 1001585007728 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1001585007729 putative active site [active] 1001585007730 catalytic site [active] 1001585007731 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1001585007732 putative catalytic site [active] 1001585007733 putative metal binding site [ion binding]; other site 1001585007734 putative phosphate binding site [ion binding]; other site 1001585007735 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1001585007736 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1001585007737 NAD binding site [chemical binding]; other site 1001585007738 catalytic Zn binding site [ion binding]; other site 1001585007739 structural Zn binding site [ion binding]; other site 1001585007740 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585007741 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585007742 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1001585007743 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 1001585007744 putative substrate translocation pore; other site 1001585007745 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1001585007746 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 1001585007747 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1001585007748 active site 1001585007749 catalytic site [active] 1001585007750 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 1001585007751 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 1001585007752 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1001585007753 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 1001585007754 active site 1001585007755 catalytic site [active] 1001585007756 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1001585007757 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1001585007758 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 1001585007759 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 1001585007760 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 1001585007761 catalytic site [active] 1001585007762 active site 1001585007763 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1001585007764 glycogen synthase; Provisional; Region: glgA; PRK00654 1001585007765 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 1001585007766 ADP-binding pocket [chemical binding]; other site 1001585007767 homodimer interface [polypeptide binding]; other site 1001585007768 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1001585007769 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1001585007770 hydroperoxidase II; Provisional; Region: katE; PRK11249 1001585007771 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 1001585007772 heme binding pocket [chemical binding]; other site 1001585007773 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 1001585007774 domain interactions; other site 1001585007775 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 1001585007776 dimerization interface [polypeptide binding]; other site 1001585007777 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 1001585007778 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1001585007779 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 1001585007780 D-pathway; other site 1001585007781 Putative ubiquinol binding site [chemical binding]; other site 1001585007782 Low-spin heme (heme b) binding site [chemical binding]; other site 1001585007783 Putative water exit pathway; other site 1001585007784 Binuclear center (heme o3/CuB) [ion binding]; other site 1001585007785 K-pathway; other site 1001585007786 Putative proton exit pathway; other site 1001585007787 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1001585007788 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1001585007789 Cytochrome c; Region: Cytochrom_C; cl11414 1001585007790 Predicted membrane protein (DUF2231); Region: DUF2231; pfam09990 1001585007791 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 1001585007792 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1001585007793 active site 1001585007794 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 1001585007795 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 1001585007796 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1001585007797 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1001585007798 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 1001585007799 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1001585007800 iron-sulfur cluster [ion binding]; other site 1001585007801 [2Fe-2S] cluster binding site [ion binding]; other site 1001585007802 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1001585007803 dinuclear metal binding motif [ion binding]; other site 1001585007804 Predicted membrane protein [Function unknown]; Region: COG3205 1001585007805 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1001585007806 dinuclear metal binding motif [ion binding]; other site 1001585007807 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1001585007808 dinuclear metal binding motif [ion binding]; other site 1001585007809 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1001585007810 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1001585007811 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1001585007812 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1001585007813 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 1001585007814 DNA-binding interface [nucleotide binding]; DNA binding site 1001585007815 Integrase core domain; Region: rve; pfam00665 1001585007816 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 1001585007817 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 1001585007818 DNA binding site [nucleotide binding] 1001585007819 dimer interface [polypeptide binding]; other site 1001585007820 active site 1001585007821 Int/Topo IB signature motif; other site 1001585007822 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1001585007823 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 1001585007824 substrate binding site [chemical binding]; other site 1001585007825 ATP binding site [chemical binding]; other site 1001585007826 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 1001585007827 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 1001585007828 non-specific DNA binding site [nucleotide binding]; other site 1001585007829 salt bridge; other site 1001585007830 sequence-specific DNA binding site [nucleotide binding]; other site 1001585007831 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1001585007832 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 1001585007833 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 1001585007834 dimerization interface [polypeptide binding]; other site 1001585007835 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 1001585007836 dimer interface [polypeptide binding]; other site 1001585007837 phosphorylation site [posttranslational modification] 1001585007838 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585007839 ATP binding site [chemical binding]; other site 1001585007840 Mg2+ binding site [ion binding]; other site 1001585007841 G-X-G motif; other site 1001585007842 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1001585007843 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585007844 active site 1001585007845 phosphorylation site [posttranslational modification] 1001585007846 intermolecular recognition site; other site 1001585007847 dimerization interface [polypeptide binding]; other site 1001585007848 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 1001585007849 DNA binding site [nucleotide binding] 1001585007850 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 1001585007851 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 1001585007852 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1001585007853 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1001585007854 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1001585007855 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585007856 AAA domain; Region: AAA_23; pfam13476 1001585007857 AAA domain; Region: AAA_21; pfam13304 1001585007858 Walker A/P-loop; other site 1001585007859 ATP binding site [chemical binding]; other site 1001585007860 AAA domain; Region: AAA_21; pfam13304 1001585007861 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1001585007862 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 1001585007863 metal-binding site [ion binding] 1001585007864 Class I aldolases; Region: Aldolase_Class_I; cl17187 1001585007865 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 1001585007866 hypothetical protein; Provisional; Region: PRK05409 1001585007867 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 1001585007868 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1001585007869 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1001585007870 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1001585007871 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1001585007872 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1001585007873 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1001585007874 Predicted metal-binding protein [General function prediction only]; Region: COG3019 1001585007875 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585007876 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1001585007877 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1001585007878 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1001585007879 HlyD family secretion protein; Region: HlyD_3; pfam13437 1001585007880 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1001585007881 Outer membrane efflux protein; Region: OEP; pfam02321 1001585007882 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1001585007883 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1001585007884 conserved cys residue [active] 1001585007885 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585007886 Uncharacterized membrane protein [Function unknown]; Region: COG3949 1001585007887 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 1001585007888 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1001585007889 ATP-dependent DNA ligase; Validated; Region: PRK09247 1001585007890 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 1001585007891 active site 1001585007892 DNA binding site [nucleotide binding] 1001585007893 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 1001585007894 DNA binding site [nucleotide binding] 1001585007895 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 1001585007896 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 1001585007897 ATP binding site [chemical binding]; other site 1001585007898 putative Mg++ binding site [ion binding]; other site 1001585007899 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 1001585007900 nucleotide binding region [chemical binding]; other site 1001585007901 ATP-binding site [chemical binding]; other site 1001585007902 DEAD/H associated; Region: DEAD_assoc; pfam08494 1001585007903 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 1001585007904 putative active site [active] 1001585007905 putative metal binding site [ion binding]; other site 1001585007906 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 1001585007907 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1001585007908 DNA Polymerase Y-family; Region: PolY_like; cd03468 1001585007909 active site 1001585007910 DNA binding site [nucleotide binding] 1001585007911 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1001585007912 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1001585007913 putative active site [active] 1001585007914 putative PHP Thumb interface [polypeptide binding]; other site 1001585007915 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 1001585007916 generic binding surface I; other site 1001585007917 generic binding surface II; other site 1001585007918 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585007919 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 1001585007920 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585007921 DNA-binding site [nucleotide binding]; DNA binding site 1001585007922 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 1001585007923 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585007924 homodimer interface [polypeptide binding]; other site 1001585007925 catalytic residue [active] 1001585007926 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1001585007927 Cupin; Region: Cupin_6; pfam12852 1001585007928 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585007929 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585007930 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585007931 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 1001585007932 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1001585007933 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585007934 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585007935 active site 1001585007936 phosphorylation site [posttranslational modification] 1001585007937 intermolecular recognition site; other site 1001585007938 dimerization interface [polypeptide binding]; other site 1001585007939 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1001585007940 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1001585007941 putative NAD(P) binding site [chemical binding]; other site 1001585007942 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1001585007943 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1001585007944 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585007945 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585007946 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 1001585007947 putative substrate binding pocket [chemical binding]; other site 1001585007948 putative dimerization interface [polypeptide binding]; other site 1001585007949 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1001585007950 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585007951 EamA-like transporter family; Region: EamA; pfam00892 1001585007952 aromatic amino acid exporter; Provisional; Region: PRK11689 1001585007953 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1001585007954 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1001585007955 HlyD family secretion protein; Region: HlyD_3; pfam13437 1001585007956 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1001585007957 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1001585007958 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1001585007959 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1001585007960 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585007961 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585007962 metal binding site [ion binding]; metal-binding site 1001585007963 active site 1001585007964 I-site; other site 1001585007965 MAPEG family; Region: MAPEG; pfam01124 1001585007966 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 1001585007967 sequence-specific DNA binding site [nucleotide binding]; other site 1001585007968 salt bridge; other site 1001585007969 aminoglycoside resistance protein; Provisional; Region: PRK13746 1001585007970 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 1001585007971 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 1001585007972 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 1001585007973 DNA-binding site [nucleotide binding]; DNA binding site 1001585007974 RNA-binding motif; other site 1001585007975 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1001585007976 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1001585007977 Cache domain; Region: Cache_2; pfam08269 1001585007978 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 1001585007979 dimerization interface [polypeptide binding]; other site 1001585007980 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585007981 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585007982 dimer interface [polypeptide binding]; other site 1001585007983 putative CheW interface [polypeptide binding]; other site 1001585007984 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1001585007985 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1001585007986 AAA domain; Region: AAA_28; pfam13521 1001585007987 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 1001585007988 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1001585007989 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 1001585007990 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1001585007991 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 1001585007992 putative heme binding pocket [chemical binding]; other site 1001585007993 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 1001585007994 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 1001585007995 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1001585007996 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 1001585007997 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1001585007998 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1001585007999 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 1001585008000 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1001585008001 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1001585008002 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 1001585008003 substrate binding pocket [chemical binding]; other site 1001585008004 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 1001585008005 B12 binding site [chemical binding]; other site 1001585008006 cobalt ligand [ion binding]; other site 1001585008007 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1001585008008 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 1001585008009 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 1001585008010 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 1001585008011 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585008012 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585008013 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585008014 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1001585008015 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 1001585008016 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 1001585008017 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14464 1001585008018 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 1001585008019 FeS/SAM binding site; other site 1001585008020 Cache domain; Region: Cache_1; pfam02743 1001585008021 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1001585008022 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 1001585008023 dimerization interface [polypeptide binding]; other site 1001585008024 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585008025 dimer interface [polypeptide binding]; other site 1001585008026 putative CheW interface [polypeptide binding]; other site 1001585008027 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1001585008028 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1001585008029 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1001585008030 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1001585008031 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1001585008032 SnoaL-like domain; Region: SnoaL_2; pfam12680 1001585008033 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585008034 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585008035 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1001585008036 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1001585008037 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1001585008038 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1001585008039 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1001585008040 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1001585008041 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 1001585008042 helicase 45; Provisional; Region: PTZ00424 1001585008043 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 1001585008044 ATP binding site [chemical binding]; other site 1001585008045 Mg++ binding site [ion binding]; other site 1001585008046 motif III; other site 1001585008047 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 1001585008048 nucleotide binding region [chemical binding]; other site 1001585008049 ATP-binding site [chemical binding]; other site 1001585008050 DbpA RNA binding domain; Region: DbpA; pfam03880 1001585008051 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 1001585008052 S-adenosylmethionine binding site [chemical binding]; other site 1001585008053 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 1001585008054 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1001585008055 bile acid transporter; Region: bass; TIGR00841 1001585008056 Sodium Bile acid symporter family; Region: SBF; cl17470 1001585008057 short chain dehydrogenase; Provisional; Region: PRK06181 1001585008058 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585008059 NAD(P) binding site [chemical binding]; other site 1001585008060 active site 1001585008061 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1001585008062 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1001585008063 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1001585008064 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 1001585008065 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1001585008066 Domain of unknown function (DUF3291); Region: DUF3291; pfam11695 1001585008067 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1001585008068 EamA-like transporter family; Region: EamA; pfam00892 1001585008069 EamA-like transporter family; Region: EamA; pfam00892 1001585008070 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1001585008071 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585008072 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585008073 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 1001585008074 dimerization interface [polypeptide binding]; other site 1001585008075 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1001585008076 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585008077 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585008078 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 1001585008079 putative effector binding pocket; other site 1001585008080 dimerization interface [polypeptide binding]; other site 1001585008081 RDD family; Region: RDD; pfam06271 1001585008082 elongation factor P; Validated; Region: PRK00529 1001585008083 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1001585008084 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 1001585008085 RNA binding site [nucleotide binding]; other site 1001585008086 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 1001585008087 RNA binding site [nucleotide binding]; other site 1001585008088 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 1001585008089 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 1001585008090 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585008091 Walker A/P-loop; other site 1001585008092 ATP binding site [chemical binding]; other site 1001585008093 Uncharacterized conserved protein [Function unknown]; Region: COG4938 1001585008094 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 1001585008095 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 1001585008096 PLD-like domain; Region: PLDc_2; pfam13091 1001585008097 putative homodimer interface [polypeptide binding]; other site 1001585008098 putative active site [active] 1001585008099 catalytic site [active] 1001585008100 Helix-turn-helix domain; Region: HTH_17; cl17695 1001585008101 Arc-like DNA binding domain; Region: Arc; pfam03869 1001585008102 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 1001585008103 Zonular occludens toxin (Zot); Region: Zot; cl17485 1001585008104 integrase; Provisional; Region: int; PHA02601 1001585008105 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 1001585008106 active site 1001585008107 DNA binding site [nucleotide binding] 1001585008108 Int/Topo IB signature motif; other site 1001585008109 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1001585008110 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 1001585008111 substrate binding site [chemical binding]; other site 1001585008112 oxyanion hole (OAH) forming residues; other site 1001585008113 trimer interface [polypeptide binding]; other site 1001585008114 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1001585008115 NMT1-like family; Region: NMT1_2; pfam13379 1001585008116 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1001585008117 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585008118 dimer interface [polypeptide binding]; other site 1001585008119 conserved gate region; other site 1001585008120 putative PBP binding loops; other site 1001585008121 ABC-ATPase subunit interface; other site 1001585008122 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1001585008123 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1001585008124 Walker A/P-loop; other site 1001585008125 ATP binding site [chemical binding]; other site 1001585008126 Q-loop/lid; other site 1001585008127 ABC transporter signature motif; other site 1001585008128 Walker B; other site 1001585008129 D-loop; other site 1001585008130 H-loop/switch region; other site 1001585008131 Alginate lyase; Region: Alginate_lyase2; pfam08787 1001585008132 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 1001585008133 active site 1001585008134 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1001585008135 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 1001585008136 putative substrate translocation pore; other site 1001585008137 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 1001585008138 active site 1001585008139 Protein kinase domain; Region: Pkinase; pfam00069 1001585008140 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1001585008141 active site 1001585008142 ATP binding site [chemical binding]; other site 1001585008143 substrate binding site [chemical binding]; other site 1001585008144 activation loop (A-loop); other site 1001585008145 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 1001585008146 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1001585008147 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585008148 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1001585008149 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1001585008150 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1001585008151 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 1001585008152 [2Fe-2S] cluster binding site [ion binding]; other site 1001585008153 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 1001585008154 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1001585008155 [4Fe-4S] binding site [ion binding]; other site 1001585008156 molybdopterin cofactor binding site; other site 1001585008157 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 1001585008158 molybdopterin cofactor binding site; other site 1001585008159 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1001585008160 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1001585008161 active site 1001585008162 SAM binding site [chemical binding]; other site 1001585008163 homodimer interface [polypeptide binding]; other site 1001585008164 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 1001585008165 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585008166 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1001585008167 ligand binding site [chemical binding]; other site 1001585008168 RNA polymerase sigma factor SigX; Reviewed; Region: PRK09640 1001585008169 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585008170 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 1001585008171 DNA binding residues [nucleotide binding] 1001585008172 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1001585008173 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 1001585008174 oligomer interface [polypeptide binding]; other site 1001585008175 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1001585008176 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1001585008177 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1001585008178 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1001585008179 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1001585008180 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1001585008181 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1001585008182 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1001585008183 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1001585008184 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1001585008185 substrate binding site [chemical binding]; other site 1001585008186 ligand binding site [chemical binding]; other site 1001585008187 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 1001585008188 substrate binding site [chemical binding]; other site 1001585008189 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1001585008190 Subgroup of 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)...; Region: Ec2MCS_like_1; cd06117 1001585008191 dimer interface [polypeptide binding]; other site 1001585008192 active site 1001585008193 citrylCoA binding site [chemical binding]; other site 1001585008194 oxalacetate/citrate binding site [chemical binding]; other site 1001585008195 coenzyme A binding site [chemical binding]; other site 1001585008196 catalytic triad [active] 1001585008197 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1001585008198 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 1001585008199 tetramer interface [polypeptide binding]; other site 1001585008200 active site 1001585008201 Mg2+/Mn2+ binding site [ion binding]; other site 1001585008202 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1001585008203 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585008204 DNA-binding site [nucleotide binding]; DNA binding site 1001585008205 FCD domain; Region: FCD; pfam07729 1001585008206 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1001585008207 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 1001585008208 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 1001585008209 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 1001585008210 Maltose operon periplasmic protein precursor (MalM); Region: MalM; pfam07148 1001585008211 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 1001585008212 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 1001585008213 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 1001585008214 putative active site [active] 1001585008215 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1001585008216 AAA ATPase domain; Region: AAA_16; pfam13191 1001585008217 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 1001585008218 DNA binding residues [nucleotide binding] 1001585008219 dimerization interface [polypeptide binding]; other site 1001585008220 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1001585008221 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 1001585008222 DNA binding residues [nucleotide binding] 1001585008223 dimerization interface [polypeptide binding]; other site 1001585008224 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1001585008225 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1001585008226 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1001585008227 phosphoserine phosphatase; Provisional; Region: thrH; PRK13582 1001585008228 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1001585008229 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1001585008230 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 1001585008231 Active Sites [active] 1001585008232 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1001585008233 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585008234 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1001585008235 substrate binding site [chemical binding]; other site 1001585008236 dimerization interface [polypeptide binding]; other site 1001585008237 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 1001585008238 Ligand Binding Site [chemical binding]; other site 1001585008239 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 1001585008240 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 1001585008241 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1001585008242 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1001585008243 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 1001585008244 catalytic residues [active] 1001585008245 PilZ domain; Region: PilZ; pfam07238 1001585008246 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1001585008247 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1001585008248 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1001585008249 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1001585008250 L,D-transpeptidase; Provisional; Region: PRK10190 1001585008251 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1001585008252 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 1001585008253 active site 1001585008254 catalytic triad [active] 1001585008255 oxyanion hole [active] 1001585008256 switch loop; other site 1001585008257 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1001585008258 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1001585008259 Walker A/P-loop; other site 1001585008260 ATP binding site [chemical binding]; other site 1001585008261 Q-loop/lid; other site 1001585008262 ABC transporter signature motif; other site 1001585008263 Walker B; other site 1001585008264 D-loop; other site 1001585008265 H-loop/switch region; other site 1001585008266 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1001585008267 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1001585008268 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1001585008269 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1001585008270 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1001585008271 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1001585008272 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1001585008273 lipase chaperone; Provisional; Region: PRK01294 1001585008274 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 1001585008275 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1001585008276 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1001585008277 DNA binding site [nucleotide binding] 1001585008278 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 1001585008279 putative ligand binding site [chemical binding]; other site 1001585008280 putative dimerization interface [polypeptide binding]; other site 1001585008281 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585008282 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1001585008283 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1001585008284 DctM-like transporters; Region: DctM; pfam06808 1001585008285 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 1001585008286 AAA domain; Region: AAA_33; pfam13671 1001585008287 ATP-binding site [chemical binding]; other site 1001585008288 Gluconate-6-phosphate binding site [chemical binding]; other site 1001585008289 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1001585008290 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1001585008291 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 1001585008292 Walker A motif; other site 1001585008293 ATP binding site [chemical binding]; other site 1001585008294 Walker B motif; other site 1001585008295 arginine finger; other site 1001585008296 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1001585008297 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 1001585008298 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1001585008299 NAD binding site [chemical binding]; other site 1001585008300 catalytic residues [active] 1001585008301 substrate binding site [chemical binding]; other site 1001585008302 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1001585008303 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 1001585008304 Trp docking motif [polypeptide binding]; other site 1001585008305 cytochrome domain interface [polypeptide binding]; other site 1001585008306 active site 1001585008307 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1001585008308 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1001585008309 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 1001585008310 N-terminal plug; other site 1001585008311 ligand-binding site [chemical binding]; other site 1001585008312 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585008313 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585008314 active site 1001585008315 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1001585008316 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 1001585008317 dimer interface [polypeptide binding]; other site 1001585008318 active site 1001585008319 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1001585008320 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 1001585008321 NAD binding site [chemical binding]; other site 1001585008322 homodimer interface [polypeptide binding]; other site 1001585008323 homotetramer interface [polypeptide binding]; other site 1001585008324 active site 1001585008325 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1001585008326 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 1001585008327 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1001585008328 acyl-activating enzyme (AAE) consensus motif; other site 1001585008329 AMP binding site [chemical binding]; other site 1001585008330 active site 1001585008331 CoA binding site [chemical binding]; other site 1001585008332 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585008333 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1001585008334 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585008335 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1001585008336 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1001585008337 DNA binding residues [nucleotide binding] 1001585008338 putative dimer interface [polypeptide binding]; other site 1001585008339 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1001585008340 isovaleryl-CoA dehydrogenase; Region: PLN02519 1001585008341 substrate binding site [chemical binding]; other site 1001585008342 FAD binding site [chemical binding]; other site 1001585008343 catalytic base [active] 1001585008344 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1001585008345 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1001585008346 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1001585008347 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 1001585008348 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 1001585008349 substrate binding site [chemical binding]; other site 1001585008350 oxyanion hole (OAH) forming residues; other site 1001585008351 trimer interface [polypeptide binding]; other site 1001585008352 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1001585008353 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1001585008354 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1001585008355 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1001585008356 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 1001585008357 carboxyltransferase (CT) interaction site; other site 1001585008358 biotinylation site [posttranslational modification]; other site 1001585008359 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1001585008360 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1001585008361 active site 1001585008362 catalytic residues [active] 1001585008363 metal binding site [ion binding]; metal-binding site 1001585008364 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 1001585008365 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 1001585008366 acyl-activating enzyme (AAE) consensus motif; other site 1001585008367 putative AMP binding site [chemical binding]; other site 1001585008368 putative active site [active] 1001585008369 putative CoA binding site [chemical binding]; other site 1001585008370 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1001585008371 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585008372 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 1001585008373 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 1001585008374 Walker A motif; other site 1001585008375 ATP binding site [chemical binding]; other site 1001585008376 Walker B motif; other site 1001585008377 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1001585008378 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585008379 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585008380 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 1001585008381 putative substrate binding pocket [chemical binding]; other site 1001585008382 putative dimerization interface [polypeptide binding]; other site 1001585008383 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 1001585008384 SnoaL-like domain; Region: SnoaL_2; pfam12680 1001585008385 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585008386 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585008387 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585008388 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585008389 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 1001585008390 putative effector binding pocket; other site 1001585008391 putative dimerization interface [polypeptide binding]; other site 1001585008392 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 1001585008393 homotrimer interaction site [polypeptide binding]; other site 1001585008394 putative active site [active] 1001585008395 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 1001585008396 FMN binding site [chemical binding]; other site 1001585008397 dimer interface [polypeptide binding]; other site 1001585008398 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1001585008399 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1001585008400 siderophore binding site; other site 1001585008401 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 1001585008402 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1001585008403 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 1001585008404 ABC-ATPase subunit interface; other site 1001585008405 dimer interface [polypeptide binding]; other site 1001585008406 putative PBP binding regions; other site 1001585008407 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1001585008408 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 1001585008409 ABC-ATPase subunit interface; other site 1001585008410 dimer interface [polypeptide binding]; other site 1001585008411 putative PBP binding regions; other site 1001585008412 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1001585008413 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1001585008414 Walker A/P-loop; other site 1001585008415 ATP binding site [chemical binding]; other site 1001585008416 Q-loop/lid; other site 1001585008417 ABC transporter signature motif; other site 1001585008418 Walker B; other site 1001585008419 D-loop; other site 1001585008420 H-loop/switch region; other site 1001585008421 Uncharacterized secreted protein [Function unknown]; Region: COG5430 1001585008422 Spore Coat Protein U domain; Region: SCPU; pfam05229 1001585008423 Spore Coat Protein U domain; Region: SCPU; pfam05229 1001585008424 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1001585008425 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1001585008426 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1001585008427 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1001585008428 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1001585008429 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1001585008430 PapC C-terminal domain; Region: PapC_C; pfam13953 1001585008431 Spore Coat Protein U domain; Region: SCPU; pfam05229 1001585008432 Uncharacterized secreted protein [Function unknown]; Region: COG5430 1001585008433 pyridoxamine kinase; Validated; Region: PRK05756 1001585008434 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 1001585008435 pyridoxal binding site [chemical binding]; other site 1001585008436 dimer interface [polypeptide binding]; other site 1001585008437 ATP binding site [chemical binding]; other site 1001585008438 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 1001585008439 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1001585008440 chaperone protein HchA; Provisional; Region: PRK04155 1001585008441 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1001585008442 conserved cys residue [active] 1001585008443 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585008444 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585008445 metal binding site [ion binding]; metal-binding site 1001585008446 active site 1001585008447 I-site; other site 1001585008448 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1001585008449 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1001585008450 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 1001585008451 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585008452 NAD(P) binding site [chemical binding]; other site 1001585008453 active site 1001585008454 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1001585008455 DNA binding residues [nucleotide binding] 1001585008456 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1001585008457 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1001585008458 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1001585008459 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 1001585008460 putative PBP binding regions; other site 1001585008461 ABC-ATPase subunit interface; other site 1001585008462 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1001585008463 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1001585008464 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1001585008465 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 1001585008466 metal binding site [ion binding]; metal-binding site 1001585008467 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1001585008468 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1001585008469 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1001585008470 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 1001585008471 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585008472 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 1001585008473 DNA binding residues [nucleotide binding] 1001585008474 fec operon regulator FecR; Reviewed; Region: PRK09774 1001585008475 FecR protein; Region: FecR; pfam04773 1001585008476 Secretin and TonB N terminus short domain; Region: STN; smart00965 1001585008477 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1001585008478 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 1001585008479 N-terminal plug; other site 1001585008480 ligand-binding site [chemical binding]; other site 1001585008481 RNA polymerase sigma factor; Provisional; Region: PRK12528 1001585008482 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585008483 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1001585008484 DNA binding residues [nucleotide binding] 1001585008485 fec operon regulator FecR; Reviewed; Region: PRK09774 1001585008486 FecR protein; Region: FecR; pfam04773 1001585008487 Secretin and TonB N terminus short domain; Region: STN; smart00965 1001585008488 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1001585008489 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 1001585008490 N-terminal plug; other site 1001585008491 ligand-binding site [chemical binding]; other site 1001585008492 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1001585008493 NMT1-like family; Region: NMT1_2; pfam13379 1001585008494 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1001585008495 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1001585008496 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585008497 putative PBP binding loops; other site 1001585008498 ABC-ATPase subunit interface; other site 1001585008499 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1001585008500 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1001585008501 Walker A/P-loop; other site 1001585008502 ATP binding site [chemical binding]; other site 1001585008503 Q-loop/lid; other site 1001585008504 ABC transporter signature motif; other site 1001585008505 Walker B; other site 1001585008506 D-loop; other site 1001585008507 H-loop/switch region; other site 1001585008508 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1001585008509 NMT1-like family; Region: NMT1_2; pfam13379 1001585008510 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1001585008511 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 1001585008512 active site 1001585008513 iron coordination sites [ion binding]; other site 1001585008514 substrate binding pocket [chemical binding]; other site 1001585008515 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1001585008516 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1001585008517 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1001585008518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1001585008519 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1001585008520 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585008521 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 1001585008522 dimerization interface [polypeptide binding]; other site 1001585008523 substrate binding pocket [chemical binding]; other site 1001585008524 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585008525 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1001585008526 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1001585008527 Bacterial transcriptional regulator; Region: IclR; pfam01614 1001585008528 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1001585008529 Putative ammonia monooxygenase; Region: AmoA; pfam05145 1001585008530 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1001585008531 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 1001585008532 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1001585008533 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 1001585008534 substrate binding site [chemical binding]; other site 1001585008535 oxyanion hole (OAH) forming residues; other site 1001585008536 trimer interface [polypeptide binding]; other site 1001585008537 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 1001585008538 CoA binding domain; Region: CoA_binding_2; pfam13380 1001585008539 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1001585008540 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1001585008541 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 1001585008542 substrate binding site [chemical binding]; other site 1001585008543 oxyanion hole (OAH) forming residues; other site 1001585008544 trimer interface [polypeptide binding]; other site 1001585008545 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1001585008546 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1001585008547 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1001585008548 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1001585008549 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 1001585008550 dimer interface [polypeptide binding]; other site 1001585008551 active site 1001585008552 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 1001585008553 active site 1001585008554 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1001585008555 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1001585008556 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585008557 Walker A/P-loop; other site 1001585008558 ATP binding site [chemical binding]; other site 1001585008559 ABC transporter signature motif; other site 1001585008560 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1001585008561 Walker B; other site 1001585008562 ABC transporter; Region: ABC_tran_2; pfam12848 1001585008563 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1001585008564 azoreductase; Reviewed; Region: PRK00170 1001585008565 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1001585008566 LysR family transcriptional regulator; Provisional; Region: PRK14997 1001585008567 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585008568 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 1001585008569 dimerization interface [polypeptide binding]; other site 1001585008570 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 1001585008571 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 1001585008572 dimerization interface [polypeptide binding]; other site 1001585008573 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585008574 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585008575 dimer interface [polypeptide binding]; other site 1001585008576 putative CheW interface [polypeptide binding]; other site 1001585008577 Predicted permease [General function prediction only]; Region: COG2056 1001585008578 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1001585008579 Cache domain; Region: Cache_1; pfam02743 1001585008580 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 1001585008581 dimerization interface [polypeptide binding]; other site 1001585008582 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585008583 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585008584 dimer interface [polypeptide binding]; other site 1001585008585 putative CheW interface [polypeptide binding]; other site 1001585008586 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1001585008587 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1001585008588 sensor protein PhoQ; Provisional; Region: PRK10815 1001585008589 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585008590 ATP binding site [chemical binding]; other site 1001585008591 G-X-G motif; other site 1001585008592 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1001585008593 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585008594 active site 1001585008595 phosphorylation site [posttranslational modification] 1001585008596 intermolecular recognition site; other site 1001585008597 dimerization interface [polypeptide binding]; other site 1001585008598 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 1001585008599 DNA binding site [nucleotide binding] 1001585008600 Predicted membrane protein [Function unknown]; Region: COG3212 1001585008601 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1001585008602 Predicted membrane protein [Function unknown]; Region: COG3212 1001585008603 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1001585008604 Patatin-like phospholipase; Region: Patatin; pfam01734 1001585008605 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1001585008606 active site 1001585008607 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 1001585008608 AAA domain; Region: AAA_30; pfam13604 1001585008609 Family description; Region: UvrD_C_2; pfam13538 1001585008610 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1001585008611 Part of AAA domain; Region: AAA_19; pfam13245 1001585008612 Family description; Region: UvrD_C_2; pfam13538 1001585008613 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1001585008614 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1001585008615 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 1001585008616 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1001585008617 phosphoethanolamine N-methyltransferase; Region: PLN02336 1001585008618 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 1001585008619 MFS transport protein AraJ; Provisional; Region: PRK10091 1001585008620 putative substrate translocation pore; other site 1001585008621 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 1001585008622 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 1001585008623 homodimer interface [polypeptide binding]; other site 1001585008624 chemical substrate binding site [chemical binding]; other site 1001585008625 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 1001585008626 Part of AAA domain; Region: AAA_19; pfam13245 1001585008627 Uncharacterized conserved protein [Function unknown]; Region: COG3410 1001585008628 His-Xaa-Ser system radical SAM maturase HxsB; Region: rSAM_paired_1; TIGR03978 1001585008629 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 1001585008630 FeS/SAM binding site; other site 1001585008631 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1001585008632 His-Xaa-Ser system radical SAM maturase HxsC; Region: rSAM_pair_HxsC; TIGR03977 1001585008633 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 1001585008634 FeS/SAM binding site; other site 1001585008635 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1001585008636 Endonuclease I; Region: Endonuclease_1; cl01003 1001585008637 Global regulator protein family; Region: CsrA; pfam02599 1001585008638 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 1001585008639 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1001585008640 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; cl17320 1001585008641 Putative glucoamylase; Region: Glycoamylase; pfam10091 1001585008642 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 1001585008643 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1001585008644 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 1001585008645 CsbD-like; Region: CsbD; cl17424 1001585008646 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1001585008647 CsbD-like; Region: CsbD; cl17424 1001585008648 BON domain; Region: BON; pfam04972 1001585008649 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1001585008650 BON domain; Region: BON; pfam04972 1001585008651 BON domain; Region: BON; pfam04972 1001585008652 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1001585008653 TAP-like protein; Region: Abhydrolase_4; pfam08386 1001585008654 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1001585008655 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 1001585008656 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1001585008657 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585008658 ligand binding site [chemical binding]; other site 1001585008659 PAS fold; Region: PAS_4; pfam08448 1001585008660 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 1001585008661 putative active site [active] 1001585008662 heme pocket [chemical binding]; other site 1001585008663 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585008664 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585008665 metal binding site [ion binding]; metal-binding site 1001585008666 active site 1001585008667 I-site; other site 1001585008668 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1001585008669 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 1001585008670 ligand binding site [chemical binding]; other site 1001585008671 flexible hinge region; other site 1001585008672 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1001585008673 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1001585008674 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 1001585008675 ligand binding site [chemical binding]; other site 1001585008676 flexible hinge region; other site 1001585008677 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 1001585008678 non-specific DNA interactions [nucleotide binding]; other site 1001585008679 DNA binding site [nucleotide binding] 1001585008680 sequence specific DNA binding site [nucleotide binding]; other site 1001585008681 putative cAMP binding site [chemical binding]; other site 1001585008682 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 1001585008683 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585008684 I-site; other site 1001585008685 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1001585008686 TAP-like protein; Region: Abhydrolase_4; pfam08386 1001585008687 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1001585008688 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1001585008689 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1001585008690 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1001585008691 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585008692 AAA domain; Region: AAA_23; pfam13476 1001585008693 Walker A/P-loop; other site 1001585008694 ATP binding site [chemical binding]; other site 1001585008695 AAA domain; Region: AAA_21; pfam13304 1001585008696 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585008697 Q-loop/lid; other site 1001585008698 ABC transporter signature motif; other site 1001585008699 Walker B; other site 1001585008700 D-loop; other site 1001585008701 H-loop/switch region; other site 1001585008702 MltA-interacting protein MipA; Region: MipA; cl01504 1001585008703 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1001585008704 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1001585008705 substrate binding site [chemical binding]; other site 1001585008706 ligand binding site [chemical binding]; other site 1001585008707 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1001585008708 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 1001585008709 substrate binding site [chemical binding]; other site 1001585008710 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585008711 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 1001585008712 putative effector binding pocket; other site 1001585008713 putative dimerization interface [polypeptide binding]; other site 1001585008714 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1001585008715 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 1001585008716 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1001585008717 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 1001585008718 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 1001585008719 putative ligand binding site [chemical binding]; other site 1001585008720 putative NAD binding site [chemical binding]; other site 1001585008721 catalytic site [active] 1001585008722 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585008723 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 1001585008724 Citrate transporter; Region: CitMHS; pfam03600 1001585008725 Helix-turn-helix domain; Region: HTH_17; pfam12728 1001585008726 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 1001585008727 Citrate synthase; Region: Citrate_synt; pfam00285 1001585008728 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 1001585008729 oxalacetate binding site [chemical binding]; other site 1001585008730 citrylCoA binding site [chemical binding]; other site 1001585008731 coenzyme A binding site [chemical binding]; other site 1001585008732 catalytic triad [active] 1001585008733 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 1001585008734 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1001585008735 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1001585008736 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585008737 NAD(P) binding site [chemical binding]; other site 1001585008738 active site 1001585008739 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1001585008740 MPN+ (JAMM) motif; other site 1001585008741 Zinc-binding site [ion binding]; other site 1001585008742 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 1001585008743 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1001585008744 Ligand Binding Site [chemical binding]; other site 1001585008745 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 1001585008746 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 1001585008747 Domain of unknown function (DUF4041); Region: DUF4041; pfam13250 1001585008748 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 1001585008749 hypothetical protein; Reviewed; Region: PRK00024 1001585008750 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1001585008751 MPN+ (JAMM) motif; other site 1001585008752 Zinc-binding site [ion binding]; other site 1001585008753 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 1001585008754 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1001585008755 putative metal binding site [ion binding]; other site 1001585008756 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 1001585008757 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 1001585008758 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1001585008759 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1001585008760 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1001585008761 substrate binding site [chemical binding]; other site 1001585008762 catalytic Zn binding site [ion binding]; other site 1001585008763 NAD binding site [chemical binding]; other site 1001585008764 structural Zn binding site [ion binding]; other site 1001585008765 dimer interface [polypeptide binding]; other site 1001585008766 amino acid transporter; Region: 2A0306; TIGR00909 1001585008767 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1001585008768 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 1001585008769 DNA binding residues [nucleotide binding] 1001585008770 dimerization interface [polypeptide binding]; other site 1001585008771 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 1001585008772 catalytic core [active] 1001585008773 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 1001585008774 Phosphotransferase enzyme family; Region: APH; pfam01636 1001585008775 active site 1001585008776 ATP binding site [chemical binding]; other site 1001585008777 substrate binding site [chemical binding]; other site 1001585008778 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 1001585008779 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1001585008780 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1001585008781 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1001585008782 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 1001585008783 inhibitor-cofactor binding pocket; inhibition site 1001585008784 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585008785 catalytic residue [active] 1001585008786 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 1001585008787 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cl00163 1001585008788 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585008789 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585008790 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1001585008791 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1001585008792 Cytochrome c; Region: Cytochrom_C; cl11414 1001585008793 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1001585008794 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1001585008795 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1001585008796 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1001585008797 NAD(P) binding site [chemical binding]; other site 1001585008798 catalytic residues [active] 1001585008799 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 1001585008800 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585008801 PaaX-like protein; Region: PaaX; pfam07848 1001585008802 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 1001585008803 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 1001585008804 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 1001585008805 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 1001585008806 putative trimer interface [polypeptide binding]; other site 1001585008807 putative metal binding site [ion binding]; other site 1001585008808 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 1001585008809 Phenylacetic acid degradation proteins PaaZ (Escherichia coli) and PaaN (Pseudomonas putida)-like; Region: ALDH_PAD-PaaZ; cd07127 1001585008810 NADP binding site [chemical binding]; other site 1001585008811 catalytic residues [active] 1001585008812 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 1001585008813 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 1001585008814 substrate binding site [chemical binding]; other site 1001585008815 oxyanion hole (OAH) forming residues; other site 1001585008816 trimer interface [polypeptide binding]; other site 1001585008817 enoyl-CoA hydratase; Provisional; Region: PRK08140 1001585008818 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 1001585008819 substrate binding site [chemical binding]; other site 1001585008820 oxyanion hole (OAH) forming residues; other site 1001585008821 trimer interface [polypeptide binding]; other site 1001585008822 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1001585008823 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1001585008824 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1001585008825 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1001585008826 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 1001585008827 CoenzymeA binding site [chemical binding]; other site 1001585008828 subunit interaction site [polypeptide binding]; other site 1001585008829 PHB binding site; other site 1001585008830 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1001585008831 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 1001585008832 dimer interface [polypeptide binding]; other site 1001585008833 active site 1001585008834 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 1001585008835 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1001585008836 active site 1001585008837 AMP binding site [chemical binding]; other site 1001585008838 homodimer interface [polypeptide binding]; other site 1001585008839 acyl-activating enzyme (AAE) consensus motif; other site 1001585008840 CoA binding site [chemical binding]; other site 1001585008841 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 1001585008842 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 1001585008843 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 1001585008844 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 1001585008845 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1001585008846 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 1001585008847 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1001585008848 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 1001585008849 FAD binding pocket [chemical binding]; other site 1001585008850 FAD binding motif [chemical binding]; other site 1001585008851 phosphate binding motif [ion binding]; other site 1001585008852 beta-alpha-beta structure motif; other site 1001585008853 NAD(p) ribose binding residues [chemical binding]; other site 1001585008854 NAD binding pocket [chemical binding]; other site 1001585008855 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1001585008856 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 1001585008857 catalytic loop [active] 1001585008858 iron binding site [ion binding]; other site 1001585008859 Protein of unknown function, DUF485; Region: DUF485; pfam04341 1001585008860 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1001585008861 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1001585008862 Na binding site [ion binding]; other site 1001585008863 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 1001585008864 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 1001585008865 substrate binding site [chemical binding]; other site 1001585008866 dimer interface [polypeptide binding]; other site 1001585008867 NADP binding site [chemical binding]; other site 1001585008868 catalytic residues [active] 1001585008869 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 1001585008870 substrate binding site [chemical binding]; other site 1001585008871 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 1001585008872 dimerization interface [polypeptide binding]; other site 1001585008873 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585008874 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585008875 dimer interface [polypeptide binding]; other site 1001585008876 putative CheW interface [polypeptide binding]; other site 1001585008877 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 1001585008878 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 1001585008879 Antirestriction protein (ArdA); Region: ArdA; pfam07275 1001585008880 Helix-turn-helix domain; Region: HTH_17; pfam12728 1001585008881 Replication initiator protein A; Region: RPA; pfam10134 1001585008882 ParA-like protein; Provisional; Region: PHA02518 1001585008883 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 1001585008884 P-loop; other site 1001585008885 Magnesium ion binding site [ion binding]; other site 1001585008886 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 1001585008887 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 1001585008888 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 1001585008889 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 1001585008890 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 1001585008891 salt bridge; other site 1001585008892 non-specific DNA binding site [nucleotide binding]; other site 1001585008893 sequence-specific DNA binding site [nucleotide binding]; other site 1001585008894 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1001585008895 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 1001585008896 substrate-cofactor binding pocket; other site 1001585008897 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585008898 catalytic residue [active] 1001585008899 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585008900 Coenzyme A binding pocket [chemical binding]; other site 1001585008901 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1001585008902 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1001585008903 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 1001585008904 active site 1001585008905 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 1001585008906 dimer interface [polypeptide binding]; other site 1001585008907 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 1001585008908 Ligand Binding Site [chemical binding]; other site 1001585008909 Molecular Tunnel; other site 1001585008910 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 1001585008911 MFS transport protein AraJ; Provisional; Region: PRK10091 1001585008912 putative substrate translocation pore; other site 1001585008913 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585008914 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585008915 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 1001585008916 dimerization interface [polypeptide binding]; other site 1001585008917 substrate binding pocket [chemical binding]; other site 1001585008918 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 1001585008919 non-specific DNA binding site [nucleotide binding]; other site 1001585008920 salt bridge; other site 1001585008921 sequence-specific DNA binding site [nucleotide binding]; other site 1001585008922 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 1001585008923 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 1001585008924 Walker A motif; other site 1001585008925 ATP binding site [chemical binding]; other site 1001585008926 Walker B motif; other site 1001585008927 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 1001585008928 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1001585008929 ATP binding site [chemical binding]; other site 1001585008930 Walker A motif; other site 1001585008931 hexamer interface [polypeptide binding]; other site 1001585008932 Walker B motif; other site 1001585008933 TrbC/VIRB2 family; Region: TrbC; pfam04956 1001585008934 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 1001585008935 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 1001585008936 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1001585008937 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585008938 Walker B; other site 1001585008939 D-loop; other site 1001585008940 H-loop/switch region; other site 1001585008941 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 1001585008942 conjugal transfer protein TrbL; Provisional; Region: PRK13875 1001585008943 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 1001585008944 conjugal transfer protein TrbF; Provisional; Region: PRK13872 1001585008945 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1001585008946 VirB7 interaction site; other site 1001585008947 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 1001585008948 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 1001585008949 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1001585008950 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1001585008951 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 1001585008952 sequence-specific DNA binding site [nucleotide binding]; other site 1001585008953 salt bridge; other site 1001585008954 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1001585008955 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1001585008956 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1001585008957 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1001585008958 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1001585008959 sequence-specific DNA binding site [nucleotide binding]; other site 1001585008960 salt bridge; other site 1001585008961 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 1001585008962 active site 1001585008963 DNA binding site [nucleotide binding] 1001585008964 Int/Topo IB signature motif; other site 1001585008965 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1001585008966 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1001585008967 DNA binding residues [nucleotide binding] 1001585008968 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 1001585008969 IHF dimer interface [polypeptide binding]; other site 1001585008970 IHF - DNA interface [nucleotide binding]; other site 1001585008971 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1001585008972 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 1001585008973 putative tRNA-binding site [nucleotide binding]; other site 1001585008974 B3/4 domain; Region: B3_4; pfam03483 1001585008975 tRNA synthetase B5 domain; Region: B5; smart00874 1001585008976 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 1001585008977 dimer interface [polypeptide binding]; other site 1001585008978 motif 1; other site 1001585008979 motif 3; other site 1001585008980 motif 2; other site 1001585008981 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1001585008982 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1001585008983 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1001585008984 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 1001585008985 dimer interface [polypeptide binding]; other site 1001585008986 motif 1; other site 1001585008987 active site 1001585008988 motif 2; other site 1001585008989 motif 3; other site 1001585008990 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1001585008991 23S rRNA binding site [nucleotide binding]; other site 1001585008992 L21 binding site [polypeptide binding]; other site 1001585008993 L13 binding site [polypeptide binding]; other site 1001585008994 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1001585008995 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1001585008996 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1001585008997 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1001585008998 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1001585008999 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 1001585009000 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1001585009001 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 1001585009002 active site 1001585009003 dimer interface [polypeptide binding]; other site 1001585009004 motif 1; other site 1001585009005 motif 2; other site 1001585009006 motif 3; other site 1001585009007 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 1001585009008 anticodon binding site; other site 1001585009009 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1001585009010 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1001585009011 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 1001585009012 putative active site [active] 1001585009013 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1001585009014 binding surface 1001585009015 TPR motif; other site 1001585009016 Dehydratase large subunit. This family contains the large (alpha) subunit of B12-dependent glycerol dehydratases (GDHs) and B12-dependent diol dehydratases (DDHs). GDH is isofunctional with DDH. These enzymes can each catalyze the conversion of 1; Region: Dehydratase_LU; cl12104 1001585009017 PAS domain S-box; Region: sensory_box; TIGR00229 1001585009018 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 1001585009019 putative active site [active] 1001585009020 heme pocket [chemical binding]; other site 1001585009021 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585009022 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 1001585009023 dimer interface [polypeptide binding]; other site 1001585009024 phosphorylation site [posttranslational modification] 1001585009025 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585009026 ATP binding site [chemical binding]; other site 1001585009027 Mg2+ binding site [ion binding]; other site 1001585009028 G-X-G motif; other site 1001585009029 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585009030 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585009031 active site 1001585009032 phosphorylation site [posttranslational modification] 1001585009033 intermolecular recognition site; other site 1001585009034 dimerization interface [polypeptide binding]; other site 1001585009035 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 1001585009036 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1001585009037 putative active site [active] 1001585009038 metal binding site [ion binding]; metal-binding site 1001585009039 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1001585009040 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1001585009041 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1001585009042 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 1001585009043 FeS/SAM binding site; other site 1001585009044 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1001585009045 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 1001585009046 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 1001585009047 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 1001585009048 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 1001585009049 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1001585009050 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1001585009051 NAD(P) binding site [chemical binding]; other site 1001585009052 catalytic residues [active] 1001585009053 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1001585009054 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 1001585009055 dimer interface [polypeptide binding]; other site 1001585009056 Trp docking motif [polypeptide binding]; other site 1001585009057 active site 1001585009058 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1001585009059 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1001585009060 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1001585009061 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 1001585009062 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 1001585009063 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585009064 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 1001585009065 membrane-bound complex binding site; other site 1001585009066 hinge residues; other site 1001585009067 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1001585009068 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1001585009069 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 1001585009070 dimer interface [polypeptide binding]; other site 1001585009071 Trp docking motif [polypeptide binding]; other site 1001585009072 active site 1001585009073 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1001585009074 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1001585009075 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1001585009076 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1001585009077 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1001585009078 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1001585009079 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 1001585009080 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1001585009081 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1001585009082 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585009083 active site 1001585009084 phosphorylation site [posttranslational modification] 1001585009085 intermolecular recognition site; other site 1001585009086 dimerization interface [polypeptide binding]; other site 1001585009087 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 1001585009088 DNA binding residues [nucleotide binding] 1001585009089 dimerization interface [polypeptide binding]; other site 1001585009090 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 1001585009091 dimerization interface [polypeptide binding]; other site 1001585009092 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1001585009093 Histidine kinase; Region: HisKA_3; pfam07730 1001585009094 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1001585009095 ATP binding site [chemical binding]; other site 1001585009096 Mg2+ binding site [ion binding]; other site 1001585009097 G-X-G motif; other site 1001585009098 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1001585009099 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 1001585009100 ligand binding site [chemical binding]; other site 1001585009101 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1001585009102 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1001585009103 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1001585009104 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 1001585009105 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585009106 Walker A/P-loop; other site 1001585009107 ATP binding site [chemical binding]; other site 1001585009108 Q-loop/lid; other site 1001585009109 ABC transporter signature motif; other site 1001585009110 Walker B; other site 1001585009111 D-loop; other site 1001585009112 H-loop/switch region; other site 1001585009113 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1001585009114 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1001585009115 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 1001585009116 active site residue [active] 1001585009117 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1001585009118 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585009119 active site 1001585009120 phosphorylation site [posttranslational modification] 1001585009121 intermolecular recognition site; other site 1001585009122 dimerization interface [polypeptide binding]; other site 1001585009123 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 1001585009124 DNA binding residues [nucleotide binding] 1001585009125 dimerization interface [polypeptide binding]; other site 1001585009126 putative acetyltransferase; Provisional; Region: PRK03624 1001585009127 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585009128 Coenzyme A binding pocket [chemical binding]; other site 1001585009129 PAS fold; Region: PAS_7; pfam12860 1001585009130 PAS fold; Region: PAS_7; pfam12860 1001585009131 PAS fold; Region: PAS_4; pfam08448 1001585009132 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 1001585009133 putative active site [active] 1001585009134 heme pocket [chemical binding]; other site 1001585009135 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585009136 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 1001585009137 dimer interface [polypeptide binding]; other site 1001585009138 phosphorylation site [posttranslational modification] 1001585009139 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585009140 ATP binding site [chemical binding]; other site 1001585009141 Mg2+ binding site [ion binding]; other site 1001585009142 G-X-G motif; other site 1001585009143 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1001585009144 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585009145 active site 1001585009146 phosphorylation site [posttranslational modification] 1001585009147 intermolecular recognition site; other site 1001585009148 dimerization interface [polypeptide binding]; other site 1001585009149 Uncharacterized conserved protein [Function unknown]; Region: COG3287 1001585009150 FIST N domain; Region: FIST; pfam08495 1001585009151 FIST C domain; Region: FIST_C; pfam10442 1001585009152 Gram-negative porin; Region: Porin_4; pfam13609 1001585009153 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 1001585009154 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1001585009155 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1001585009156 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1001585009157 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1001585009158 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 1001585009159 FMN binding site [chemical binding]; other site 1001585009160 active site 1001585009161 catalytic residues [active] 1001585009162 substrate binding site [chemical binding]; other site 1001585009163 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 1001585009164 putative DNA binding helix; other site 1001585009165 transaldolase-like protein; Provisional; Region: PTZ00411 1001585009166 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1001585009167 active site 1001585009168 dimer interface [polypeptide binding]; other site 1001585009169 catalytic residue [active] 1001585009170 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 1001585009171 anti sigma factor interaction site; other site 1001585009172 regulatory phosphorylation site [posttranslational modification]; other site 1001585009173 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585009174 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585009175 active site 1001585009176 phosphorylation site [posttranslational modification] 1001585009177 intermolecular recognition site; other site 1001585009178 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1001585009179 dimerization interface [polypeptide binding]; other site 1001585009180 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1001585009181 PilZ domain; Region: PilZ; pfam07238 1001585009182 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 1001585009183 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 1001585009184 active site 1001585009185 phosphonoacetaldehyde hydrolase; Region: phosphonatase; TIGR01422 1001585009186 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 1001585009187 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1001585009188 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1001585009189 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1001585009190 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1001585009191 Protein export membrane protein; Region: SecD_SecF; cl14618 1001585009192 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1001585009193 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1001585009194 HlyD family secretion protein; Region: HlyD_3; pfam13437 1001585009195 inner membrane transport permease; Provisional; Region: PRK15066 1001585009196 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1001585009197 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1001585009198 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585009199 Walker A/P-loop; other site 1001585009200 ATP binding site [chemical binding]; other site 1001585009201 Q-loop/lid; other site 1001585009202 ABC transporter signature motif; other site 1001585009203 Walker B; other site 1001585009204 D-loop; other site 1001585009205 H-loop/switch region; other site 1001585009206 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1001585009207 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 1001585009208 putative C-terminal domain interface [polypeptide binding]; other site 1001585009209 putative GSH binding site (G-site) [chemical binding]; other site 1001585009210 putative dimer interface [polypeptide binding]; other site 1001585009211 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1001585009212 putative N-terminal domain interface [polypeptide binding]; other site 1001585009213 putative dimer interface [polypeptide binding]; other site 1001585009214 putative substrate binding pocket (H-site) [chemical binding]; other site 1001585009215 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1001585009216 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1001585009217 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1001585009218 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1001585009219 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1001585009220 active site 1001585009221 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1001585009222 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 1001585009223 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1001585009224 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 1001585009225 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1001585009226 N-terminal domain interface [polypeptide binding]; other site 1001585009227 dimer interface [polypeptide binding]; other site 1001585009228 substrate binding pocket (H-site) [chemical binding]; other site 1001585009229 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1001585009230 GAF domain; Region: GAF_2; pfam13185 1001585009231 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1001585009232 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 1001585009233 Walker A motif; other site 1001585009234 ATP binding site [chemical binding]; other site 1001585009235 Walker B motif; other site 1001585009236 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 1001585009237 dimer interface [polypeptide binding]; other site 1001585009238 phosphorylation site [posttranslational modification] 1001585009239 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585009240 ATP binding site [chemical binding]; other site 1001585009241 Mg2+ binding site [ion binding]; other site 1001585009242 G-X-G motif; other site 1001585009243 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585009244 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585009245 active site 1001585009246 phosphorylation site [posttranslational modification] 1001585009247 intermolecular recognition site; other site 1001585009248 dimerization interface [polypeptide binding]; other site 1001585009249 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1001585009250 MarR family; Region: MarR; pfam01047 1001585009251 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 1001585009252 catalytic residues [active] 1001585009253 dimer interface [polypeptide binding]; other site 1001585009254 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 1001585009255 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 1001585009256 ligand binding site [chemical binding]; other site 1001585009257 NAD binding site [chemical binding]; other site 1001585009258 catalytic site [active] 1001585009259 homodimer interface [polypeptide binding]; other site 1001585009260 multidrug efflux protein; Reviewed; Region: PRK01766 1001585009261 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1001585009262 cation binding site [ion binding]; other site 1001585009263 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 1001585009264 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 1001585009265 CPxP motif; other site 1001585009266 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1001585009267 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1001585009268 aconitate hydratase; Validated; Region: PRK09277 1001585009269 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1001585009270 substrate binding site [chemical binding]; other site 1001585009271 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1001585009272 ligand binding site [chemical binding]; other site 1001585009273 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 1001585009274 substrate binding site [chemical binding]; other site 1001585009275 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 1001585009276 PAS domain; Region: PAS_9; pfam13426 1001585009277 putative active site [active] 1001585009278 heme pocket [chemical binding]; other site 1001585009279 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585009280 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585009281 dimer interface [polypeptide binding]; other site 1001585009282 putative CheW interface [polypeptide binding]; other site 1001585009283 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1001585009284 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1001585009285 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1001585009286 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1001585009287 classical (c) SDRs; Region: SDR_c; cd05233 1001585009288 NAD(P) binding site [chemical binding]; other site 1001585009289 active site 1001585009290 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1001585009291 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1001585009292 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1001585009293 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1001585009294 catalytic triad [active] 1001585009295 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1001585009296 short chain dehydrogenase; Provisional; Region: PRK08267 1001585009297 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585009298 NAD(P) binding site [chemical binding]; other site 1001585009299 active site 1001585009300 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1001585009301 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1001585009302 substrate binding pocket [chemical binding]; other site 1001585009303 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1001585009304 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1001585009305 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1001585009306 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585009307 Helix-turn-helix domain; Region: HTH_18; pfam12833 1001585009308 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1001585009309 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1001585009310 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1001585009311 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1001585009312 active site 1001585009313 HIGH motif; other site 1001585009314 dimer interface [polypeptide binding]; other site 1001585009315 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1001585009316 active site 1001585009317 KMSKS motif; other site 1001585009318 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1001585009319 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1001585009320 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1001585009321 active site 1001585009322 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1001585009323 YciI-like protein; Reviewed; Region: PRK11370 1001585009324 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1001585009325 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585009326 active site 1001585009327 phosphorylation site [posttranslational modification] 1001585009328 intermolecular recognition site; other site 1001585009329 dimerization interface [polypeptide binding]; other site 1001585009330 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 1001585009331 DNA binding site [nucleotide binding] 1001585009332 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 1001585009333 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585009334 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 1001585009335 dimerization interface [polypeptide binding]; other site 1001585009336 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 1001585009337 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585009338 ATP binding site [chemical binding]; other site 1001585009339 G-X-G motif; other site 1001585009340 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 1001585009341 putative FMN binding site [chemical binding]; other site 1001585009342 Flagellin N-methylase; Region: FliB; cl00497 1001585009343 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1001585009344 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1001585009345 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1001585009346 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1001585009347 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585009348 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1001585009349 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585009350 Protein of unknown function (DUF962); Region: DUF962; cl01879 1001585009351 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 1001585009352 MASE2 domain; Region: MASE2; pfam05230 1001585009353 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1001585009354 cyclase homology domain; Region: CHD; cd07302 1001585009355 nucleotidyl binding site; other site 1001585009356 metal binding site [ion binding]; metal-binding site 1001585009357 dimer interface [polypeptide binding]; other site 1001585009358 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1001585009359 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 1001585009360 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1001585009361 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1001585009362 putative active site [active] 1001585009363 putative metal binding site [ion binding]; other site 1001585009364 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585009365 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585009366 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 1001585009367 dimer interface [polypeptide binding]; other site 1001585009368 putative tRNA-binding site [nucleotide binding]; other site 1001585009369 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1001585009370 EamA-like transporter family; Region: EamA; pfam00892 1001585009371 Rdx family; Region: Rdx; cl01407 1001585009372 hypothetical protein; Provisional; Region: PRK10279 1001585009373 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1001585009374 active site 1001585009375 nucleophile elbow; other site 1001585009376 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1001585009377 Surface antigen; Region: Bac_surface_Ag; pfam01103 1001585009378 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1001585009379 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1001585009380 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1001585009381 MarR family; Region: MarR_2; pfam12802 1001585009382 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585009383 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585009384 metal binding site [ion binding]; metal-binding site 1001585009385 active site 1001585009386 I-site; other site 1001585009387 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1001585009388 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 1001585009389 ATP binding site [chemical binding]; other site 1001585009390 putative Mg++ binding site [ion binding]; other site 1001585009391 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 1001585009392 nucleotide binding region [chemical binding]; other site 1001585009393 ATP-binding site [chemical binding]; other site 1001585009394 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1001585009395 HRDC domain; Region: HRDC; pfam00570 1001585009396 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 1001585009397 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 1001585009398 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1001585009399 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 1001585009400 HAMP domain; Region: HAMP; pfam00672 1001585009401 dimerization interface [polypeptide binding]; other site 1001585009402 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585009403 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585009404 metal binding site [ion binding]; metal-binding site 1001585009405 active site 1001585009406 I-site; other site 1001585009407 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 1001585009408 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 1001585009409 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 1001585009410 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 1001585009411 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1001585009412 metal ion-dependent adhesion site (MIDAS); other site 1001585009413 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 1001585009414 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1001585009415 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 1001585009416 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1001585009417 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1001585009418 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 1001585009419 Walker A/P-loop; other site 1001585009420 ATP binding site [chemical binding]; other site 1001585009421 Q-loop/lid; other site 1001585009422 ABC transporter signature motif; other site 1001585009423 Walker B; other site 1001585009424 D-loop; other site 1001585009425 H-loop/switch region; other site 1001585009426 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1001585009427 HlyD family secretion protein; Region: HlyD_3; pfam13437 1001585009428 DTW domain; Region: DTW; cl01221 1001585009429 PAS domain; Region: PAS_9; pfam13426 1001585009430 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 1001585009431 putative active site [active] 1001585009432 heme pocket [chemical binding]; other site 1001585009433 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585009434 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585009435 dimer interface [polypeptide binding]; other site 1001585009436 putative CheW interface [polypeptide binding]; other site 1001585009437 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585009438 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585009439 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 1001585009440 dimerization interface [polypeptide binding]; other site 1001585009441 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1001585009442 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1001585009443 G2 box; other site 1001585009444 Switch I region; other site 1001585009445 G3 box; other site 1001585009446 Switch II region; other site 1001585009447 G4 box; other site 1001585009448 G5 box; other site 1001585009449 oxidase reductase; Provisional; Region: PTZ00273 1001585009450 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1001585009451 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1001585009452 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 1001585009453 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585009454 substrate binding pocket [chemical binding]; other site 1001585009455 membrane-bound complex binding site; other site 1001585009456 hinge residues; other site 1001585009457 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585009458 dimer interface [polypeptide binding]; other site 1001585009459 conserved gate region; other site 1001585009460 putative PBP binding loops; other site 1001585009461 ABC-ATPase subunit interface; other site 1001585009462 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1001585009463 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1001585009464 Walker A/P-loop; other site 1001585009465 ATP binding site [chemical binding]; other site 1001585009466 Q-loop/lid; other site 1001585009467 ABC transporter signature motif; other site 1001585009468 Walker B; other site 1001585009469 D-loop; other site 1001585009470 H-loop/switch region; other site 1001585009471 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 1001585009472 intersubunit interface [polypeptide binding]; other site 1001585009473 active site 1001585009474 Zn2+ binding site [ion binding]; other site 1001585009475 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1001585009476 agmatinase; Region: agmatinase; TIGR01230 1001585009477 oligomer interface [polypeptide binding]; other site 1001585009478 putative active site [active] 1001585009479 Mn binding site [ion binding]; other site 1001585009480 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 1001585009481 Nucleoside recognition; Region: Gate; pfam07670 1001585009482 hypothetical protein; Provisional; Region: PRK07524 1001585009483 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1001585009484 PYR/PP interface [polypeptide binding]; other site 1001585009485 dimer interface [polypeptide binding]; other site 1001585009486 TPP binding site [chemical binding]; other site 1001585009487 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1001585009488 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 1001585009489 TPP-binding site [chemical binding]; other site 1001585009490 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1001585009491 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1001585009492 Na binding site [ion binding]; other site 1001585009493 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1001585009494 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 1001585009495 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1001585009496 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1001585009497 EamA-like transporter family; Region: EamA; pfam00892 1001585009498 EamA-like transporter family; Region: EamA; pfam00892 1001585009499 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1001585009500 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 1001585009501 dimer interface [polypeptide binding]; other site 1001585009502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585009503 catalytic residue [active] 1001585009504 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1001585009505 rRNA metabolism protein, SBDS family; Region: RNA_SBDS; TIGR00291 1001585009506 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1001585009507 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 1001585009508 catalytic residues [active] 1001585009509 catalytic nucleophile [active] 1001585009510 Helix-turn-helix domain; Region: HTH_38; pfam13936 1001585009511 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1001585009512 active site 1001585009513 Int/Topo IB signature motif; other site 1001585009514 catalytic residues [active] 1001585009515 DNA binding site [nucleotide binding] 1001585009516 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1001585009517 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 1001585009518 Walker A motif; other site 1001585009519 ATP binding site [chemical binding]; other site 1001585009520 Walker B motif; other site 1001585009521 arginine finger; other site 1001585009522 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1001585009523 Protein of unknown function (DUF2167); Region: DUF2167; pfam09935 1001585009524 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 1001585009525 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1001585009526 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 1001585009527 putative active site [active] 1001585009528 putative dimer interface [polypeptide binding]; other site 1001585009529 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1001585009530 nucleotide binding site/active site [active] 1001585009531 HIT family signature motif; other site 1001585009532 catalytic residue [active] 1001585009533 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1001585009534 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1001585009535 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 1001585009536 active site 1001585009537 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; cl00083 1001585009538 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1001585009539 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1001585009540 hypothetical protein; Provisional; Region: PRK05170 1001585009541 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 1001585009542 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1001585009543 NAD binding site [chemical binding]; other site 1001585009544 ligand binding site [chemical binding]; other site 1001585009545 catalytic site [active] 1001585009546 YcgL domain; Region: YcgL; pfam05166 1001585009547 ribonuclease D; Region: rnd; TIGR01388 1001585009548 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1001585009549 catalytic site [active] 1001585009550 putative active site [active] 1001585009551 putative substrate binding site [chemical binding]; other site 1001585009552 HRDC domain; Region: HRDC; pfam00570 1001585009553 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1001585009554 Strictosidine synthase; Region: Str_synth; pfam03088 1001585009555 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 1001585009556 glutamate dehydrogenase; Provisional; Region: PRK09414 1001585009557 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1001585009558 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1001585009559 NAD(P) binding site [chemical binding]; other site 1001585009560 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1001585009561 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1001585009562 putative acyl-acceptor binding pocket; other site 1001585009563 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1001585009564 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 1001585009565 active site residue [active] 1001585009566 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 1001585009567 active site residue [active] 1001585009568 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 1001585009569 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1001585009570 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585009571 active site 1001585009572 phosphorylation site [posttranslational modification] 1001585009573 intermolecular recognition site; other site 1001585009574 dimerization interface [polypeptide binding]; other site 1001585009575 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 1001585009576 DNA binding residues [nucleotide binding] 1001585009577 dimerization interface [polypeptide binding]; other site 1001585009578 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585009579 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 1001585009580 phosphorylation site [posttranslational modification] 1001585009581 dimer interface [polypeptide binding]; other site 1001585009582 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585009583 ATP binding site [chemical binding]; other site 1001585009584 G-X-G motif; other site 1001585009585 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1001585009586 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585009587 active site 1001585009588 phosphorylation site [posttranslational modification] 1001585009589 intermolecular recognition site; other site 1001585009590 dimerization interface [polypeptide binding]; other site 1001585009591 lipase chaperone; Provisional; Region: PRK01294 1001585009592 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 1001585009593 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1001585009594 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 1001585009595 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1001585009596 catalytic residues [active] 1001585009597 dimer interface [polypeptide binding]; other site 1001585009598 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1001585009599 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 1001585009600 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1001585009601 MarR family; Region: MarR_2; pfam12802 1001585009602 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1001585009603 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 1001585009604 catalytic core [active] 1001585009605 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1001585009606 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1001585009607 putative dimer interface [polypeptide binding]; other site 1001585009608 active site pocket [active] 1001585009609 putative cataytic base [active] 1001585009610 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 1001585009611 homotrimer interface [polypeptide binding]; other site 1001585009612 Walker A motif; other site 1001585009613 GTP binding site [chemical binding]; other site 1001585009614 Walker B motif; other site 1001585009615 cobyric acid synthase; Provisional; Region: PRK00784 1001585009616 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 1001585009617 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1001585009618 catalytic triad [active] 1001585009619 threonine-phosphate decarboxylase; Reviewed; Region: PRK05664 1001585009620 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1001585009621 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1001585009622 catalytic residue [active] 1001585009623 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1001585009624 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 1001585009625 putative FMN binding site [chemical binding]; other site 1001585009626 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1001585009627 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 1001585009628 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1001585009629 catalytic triad [active] 1001585009630 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 1001585009631 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1001585009632 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 1001585009633 Walker A motif; other site 1001585009634 homodimer interface [polypeptide binding]; other site 1001585009635 ATP binding site [chemical binding]; other site 1001585009636 hydroxycobalamin binding site [chemical binding]; other site 1001585009637 Walker B motif; other site 1001585009638 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1001585009639 NlpC/P60 family; Region: NLPC_P60; pfam00877 1001585009640 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 1001585009641 NlpC/P60 family; Region: NLPC_P60; pfam00877 1001585009642 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1001585009643 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 1001585009644 dimer interface [polypeptide binding]; other site 1001585009645 putative functional site; other site 1001585009646 putative MPT binding site; other site 1001585009647 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 1001585009648 MPT binding site; other site 1001585009649 trimer interface [polypeptide binding]; other site 1001585009650 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1001585009651 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1001585009652 GTP binding site; other site 1001585009653 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1001585009654 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1001585009655 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585009656 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; pfam07073 1001585009657 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 1001585009658 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1001585009659 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 1001585009660 homodimer interface [polypeptide binding]; other site 1001585009661 metal binding site [ion binding]; metal-binding site 1001585009662 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 1001585009663 homodimer interface [polypeptide binding]; other site 1001585009664 active site 1001585009665 putative chemical substrate binding site [chemical binding]; other site 1001585009666 metal binding site [ion binding]; metal-binding site 1001585009667 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1001585009668 HD domain; Region: HD_4; pfam13328 1001585009669 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1001585009670 synthetase active site [active] 1001585009671 NTP binding site [chemical binding]; other site 1001585009672 metal binding site [ion binding]; metal-binding site 1001585009673 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 1001585009674 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1001585009675 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1001585009676 TRAM domain; Region: TRAM; pfam01938 1001585009677 cysteine synthase B; Region: cysM; TIGR01138 1001585009678 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 1001585009679 dimer interface [polypeptide binding]; other site 1001585009680 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585009681 catalytic residue [active] 1001585009682 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1001585009683 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 1001585009684 intersubunit interface [polypeptide binding]; other site 1001585009685 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1001585009686 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585009687 dimerization interface [polypeptide binding]; other site 1001585009688 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 1001585009689 dimer interface [polypeptide binding]; other site 1001585009690 phosphorylation site [posttranslational modification] 1001585009691 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585009692 ATP binding site [chemical binding]; other site 1001585009693 Mg2+ binding site [ion binding]; other site 1001585009694 G-X-G motif; other site 1001585009695 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1001585009696 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585009697 active site 1001585009698 phosphorylation site [posttranslational modification] 1001585009699 intermolecular recognition site; other site 1001585009700 dimerization interface [polypeptide binding]; other site 1001585009701 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 1001585009702 DNA binding site [nucleotide binding] 1001585009703 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 1001585009704 dimerization interface [polypeptide binding]; other site 1001585009705 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 1001585009706 dimer interface [polypeptide binding]; other site 1001585009707 phosphorylation site [posttranslational modification] 1001585009708 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585009709 ATP binding site [chemical binding]; other site 1001585009710 Mg2+ binding site [ion binding]; other site 1001585009711 G-X-G motif; other site 1001585009712 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585009713 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585009714 active site 1001585009715 phosphorylation site [posttranslational modification] 1001585009716 intermolecular recognition site; other site 1001585009717 dimerization interface [polypeptide binding]; other site 1001585009718 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 1001585009719 putative binding surface; other site 1001585009720 active site 1001585009721 META domain; Region: META; pfam03724 1001585009722 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1001585009723 active site 1001585009724 DNA polymerase IV; Validated; Region: PRK02406 1001585009725 DNA binding site [nucleotide binding] 1001585009726 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1001585009727 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1001585009728 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1001585009729 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 1001585009730 FeS/SAM binding site; other site 1001585009731 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1001585009732 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 1001585009733 RNA binding surface [nucleotide binding]; other site 1001585009734 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1001585009735 active site 1001585009736 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1001585009737 homodimer interaction site [polypeptide binding]; other site 1001585009738 cofactor binding site; other site 1001585009739 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585009740 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 1001585009741 NAD(P) binding site [chemical binding]; other site 1001585009742 active site 1001585009743 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1001585009744 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 1001585009745 dimerization interface [polypeptide binding]; other site 1001585009746 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585009747 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585009748 dimer interface [polypeptide binding]; other site 1001585009749 putative CheW interface [polypeptide binding]; other site 1001585009750 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1001585009751 Na2 binding site [ion binding]; other site 1001585009752 putative substrate binding site 1 [chemical binding]; other site 1001585009753 Na binding site 1 [ion binding]; other site 1001585009754 putative substrate binding site 2 [chemical binding]; other site 1001585009755 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 1001585009756 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1001585009757 C-terminal domain interface [polypeptide binding]; other site 1001585009758 GSH binding site (G-site) [chemical binding]; other site 1001585009759 putative dimer interface [polypeptide binding]; other site 1001585009760 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1001585009761 dimer interface [polypeptide binding]; other site 1001585009762 N-terminal domain interface [polypeptide binding]; other site 1001585009763 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1001585009764 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 1001585009765 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1001585009766 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 1001585009767 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1001585009768 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1001585009769 dimer interface [polypeptide binding]; other site 1001585009770 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1001585009771 active site 1001585009772 Fe binding site [ion binding]; other site 1001585009773 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1001585009774 hypothetical protein; Validated; Region: PRK06186 1001585009775 conserved cys residue [active] 1001585009776 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585009777 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585009778 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 1001585009779 dimerization interface [polypeptide binding]; other site 1001585009780 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1001585009781 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585009782 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1001585009783 Walker A/P-loop; other site 1001585009784 ATP binding site [chemical binding]; other site 1001585009785 Q-loop/lid; other site 1001585009786 ABC transporter signature motif; other site 1001585009787 Walker B; other site 1001585009788 D-loop; other site 1001585009789 H-loop/switch region; other site 1001585009790 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 1001585009791 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 1001585009792 catalytic residues [active] 1001585009793 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1001585009794 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1001585009795 active site residue [active] 1001585009796 BolA-like protein; Region: BolA; pfam01722 1001585009797 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 1001585009798 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 1001585009799 fumarate hydratase; Provisional; Region: PRK12425 1001585009800 Class II fumarases; Region: Fumarase_classII; cd01362 1001585009801 active site 1001585009802 tetramer interface [polypeptide binding]; other site 1001585009803 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1001585009804 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1001585009805 EamA-like transporter family; Region: EamA; pfam00892 1001585009806 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1001585009807 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1001585009808 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1001585009809 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 1001585009810 THF binding site; other site 1001585009811 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 1001585009812 substrate binding site [chemical binding]; other site 1001585009813 THF binding site; other site 1001585009814 zinc-binding site [ion binding]; other site 1001585009815 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1001585009816 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585009817 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 1001585009818 putative dimerization interface [polypeptide binding]; other site 1001585009819 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585009820 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585009821 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1001585009822 HlyD family secretion protein; Region: HlyD_3; pfam13437 1001585009823 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1001585009824 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1001585009825 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1001585009826 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1001585009827 Surface antigen; Region: Bac_surface_Ag; pfam01103 1001585009828 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1001585009829 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 1001585009830 N-terminal plug; other site 1001585009831 ligand-binding site [chemical binding]; other site 1001585009832 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1001585009833 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1001585009834 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585009835 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 1001585009836 dimer interface [polypeptide binding]; other site 1001585009837 phosphorylation site [posttranslational modification] 1001585009838 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585009839 ATP binding site [chemical binding]; other site 1001585009840 Mg2+ binding site [ion binding]; other site 1001585009841 G-X-G motif; other site 1001585009842 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585009843 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585009844 active site 1001585009845 phosphorylation site [posttranslational modification] 1001585009846 intermolecular recognition site; other site 1001585009847 dimerization interface [polypeptide binding]; other site 1001585009848 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585009849 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585009850 active site 1001585009851 phosphorylation site [posttranslational modification] 1001585009852 intermolecular recognition site; other site 1001585009853 dimerization interface [polypeptide binding]; other site 1001585009854 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585009855 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585009856 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585009857 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585009858 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 1001585009859 dimerization interface [polypeptide binding]; other site 1001585009860 putative S-transferase; Provisional; Region: PRK11752 1001585009861 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 1001585009862 C-terminal domain interface [polypeptide binding]; other site 1001585009863 GSH binding site (G-site) [chemical binding]; other site 1001585009864 dimer interface [polypeptide binding]; other site 1001585009865 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 1001585009866 dimer interface [polypeptide binding]; other site 1001585009867 N-terminal domain interface [polypeptide binding]; other site 1001585009868 active site 1001585009869 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 1001585009870 Zonular occludens toxin (Zot); Region: Zot; cl17485 1001585009871 integrase; Provisional; Region: int; PHA02601 1001585009872 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 1001585009873 active site 1001585009874 DNA binding site [nucleotide binding] 1001585009875 Int/Topo IB signature motif; other site 1001585009876 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1001585009877 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1001585009878 ATP binding site [chemical binding]; other site 1001585009879 active site 1001585009880 substrate binding site [chemical binding]; other site 1001585009881 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1001585009882 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1001585009883 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1001585009884 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1001585009885 dimer interface [polypeptide binding]; other site 1001585009886 active site 1001585009887 catalytic residue [active] 1001585009888 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1001585009889 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1001585009890 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1001585009891 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1001585009892 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 1001585009893 catalytic triad [active] 1001585009894 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1001585009895 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1001585009896 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 1001585009897 CPxP motif; other site 1001585009898 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1001585009899 Peptidase family M48; Region: Peptidase_M48; cl12018 1001585009900 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1001585009901 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1001585009902 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1001585009903 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585009904 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585009905 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585009906 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585009907 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 1001585009908 dimerization interface [polypeptide binding]; other site 1001585009909 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585009910 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1001585009911 HAMP domain; Region: HAMP; pfam00672 1001585009912 dimerization interface [polypeptide binding]; other site 1001585009913 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585009914 dimer interface [polypeptide binding]; other site 1001585009915 putative CheW interface [polypeptide binding]; other site 1001585009916 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585009917 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585009918 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1001585009919 putative active site [active] 1001585009920 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1001585009921 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1001585009922 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1001585009923 MoxR-like ATPases [General function prediction only]; Region: COG0714 1001585009924 ATPase family associated with various cellular activities (AAA); Region: AAA_3; pfam07726 1001585009925 Walker A motif; other site 1001585009926 ATP binding site [chemical binding]; other site 1001585009927 Walker B motif; other site 1001585009928 arginine finger; other site 1001585009929 Protein of unknown function DUF58; Region: DUF58; pfam01882 1001585009930 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 1001585009931 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 1001585009932 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 1001585009933 metal ion-dependent adhesion site (MIDAS); other site 1001585009934 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1001585009935 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 1001585009936 TPR motif; other site 1001585009937 binding surface 1001585009938 TPR repeat; Region: TPR_11; pfam13414 1001585009939 Oxygen tolerance; Region: BatD; pfam13584 1001585009940 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1001585009941 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1001585009942 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1001585009943 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1001585009944 aminopeptidase N; Provisional; Region: pepN; PRK14015 1001585009945 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1001585009946 active site 1001585009947 Zn binding site [ion binding]; other site 1001585009948 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 1001585009949 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 1001585009950 Rhomboid family; Region: Rhomboid; pfam01694 1001585009951 Pseudomonas aeruginosa PA3087 and related proteins, metallophosphatase domain; Region: MPP_PA3087; cd07413 1001585009952 active site 1001585009953 metal binding site [ion binding]; metal-binding site 1001585009954 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 1001585009955 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1001585009956 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 1001585009957 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1001585009958 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 1001585009959 ligand binding site [chemical binding]; other site 1001585009960 flexible hinge region; other site 1001585009961 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1001585009962 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 1001585009963 ligand binding site [chemical binding]; other site 1001585009964 flexible hinge region; other site 1001585009965 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 1001585009966 active site residue [active] 1001585009967 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 1001585009968 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 1001585009969 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1001585009970 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1001585009971 SnoaL-like domain; Region: SnoaL_2; pfam12680 1001585009972 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1001585009973 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 1001585009974 active site 1001585009975 FMN binding site [chemical binding]; other site 1001585009976 2,4-decadienoyl-CoA binding site; other site 1001585009977 catalytic residue [active] 1001585009978 4Fe-4S cluster binding site [ion binding]; other site 1001585009979 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1001585009980 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1001585009981 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1001585009982 active site 1001585009983 catalytic triad [active] 1001585009984 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585009985 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585009986 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585009987 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1001585009988 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 1001585009989 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 1001585009990 active site 1001585009991 dimer interface [polypeptide binding]; other site 1001585009992 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 1001585009993 Ligand Binding Site [chemical binding]; other site 1001585009994 Molecular Tunnel; other site 1001585009995 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 1001585009996 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585009997 Coenzyme A binding pocket [chemical binding]; other site 1001585009998 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1001585009999 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1001585010000 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 1001585010001 putative oligomer interface [polypeptide binding]; other site 1001585010002 putative active site [active] 1001585010003 metal binding site [ion binding]; metal-binding site 1001585010004 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1001585010005 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1001585010006 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585010007 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 1001585010008 dimer interface [polypeptide binding]; other site 1001585010009 phosphorylation site [posttranslational modification] 1001585010010 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585010011 ATP binding site [chemical binding]; other site 1001585010012 Mg2+ binding site [ion binding]; other site 1001585010013 G-X-G motif; other site 1001585010014 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585010015 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585010016 active site 1001585010017 phosphorylation site [posttranslational modification] 1001585010018 intermolecular recognition site; other site 1001585010019 dimerization interface [polypeptide binding]; other site 1001585010020 hypothetical protein; Provisional; Region: PRK00304 1001585010021 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 1001585010022 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1001585010023 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1001585010024 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1001585010025 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 1001585010026 Ligand Binding Site [chemical binding]; other site 1001585010027 DNA-J related protein; Region: DNAJ_related; pfam12339 1001585010028 DnaJ molecular chaperone homology domain; Region: DnaJ; smart00271 1001585010029 HSP70 interaction site [polypeptide binding]; other site 1001585010030 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 1001585010031 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 1001585010032 hypothetical protein; Provisional; Region: PRK04860 1001585010033 SprT homologues; Region: SprT; cl01182 1001585010034 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1001585010035 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1001585010036 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1001585010037 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1001585010038 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 1001585010039 acyl-activating enzyme (AAE) consensus motif; other site 1001585010040 putative AMP binding site [chemical binding]; other site 1001585010041 putative active site [active] 1001585010042 putative CoA binding site [chemical binding]; other site 1001585010043 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585010044 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585010045 active site 1001585010046 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585010047 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585010048 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585010049 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 1001585010050 dimer interface [polypeptide binding]; other site 1001585010051 phosphorylation site [posttranslational modification] 1001585010052 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585010053 ATP binding site [chemical binding]; other site 1001585010054 Mg2+ binding site [ion binding]; other site 1001585010055 G-X-G motif; other site 1001585010056 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 1001585010057 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585010058 active site 1001585010059 phosphorylation site [posttranslational modification] 1001585010060 intermolecular recognition site; other site 1001585010061 dimerization interface [polypeptide binding]; other site 1001585010062 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 1001585010063 DNA binding site [nucleotide binding] 1001585010064 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1001585010065 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 1001585010066 NapD protein; Region: NapD; pfam03927 1001585010067 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1001585010068 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 1001585010069 [4Fe-4S] binding site [ion binding]; other site 1001585010070 molybdopterin cofactor binding site; other site 1001585010071 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 1001585010072 molybdopterin cofactor binding site; other site 1001585010073 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 1001585010074 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 1001585010075 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 1001585010076 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 1001585010077 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1001585010078 catalytic residues [active] 1001585010079 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1001585010080 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 1001585010081 ArsC family; Region: ArsC; pfam03960 1001585010082 catalytic residues [active] 1001585010083 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1001585010084 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1001585010085 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 1001585010086 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585010087 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1001585010088 DNA replication initiation factor; Validated; Region: PRK05642 1001585010089 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1001585010090 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1001585010091 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 1001585010092 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1001585010093 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 1001585010094 dimerization interface [polypeptide binding]; other site 1001585010095 putative ATP binding site [chemical binding]; other site 1001585010096 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1001585010097 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1001585010098 active site 1001585010099 substrate binding site [chemical binding]; other site 1001585010100 cosubstrate binding site; other site 1001585010101 catalytic site [active] 1001585010102 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1001585010103 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1001585010104 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1001585010105 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 1001585010106 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 1001585010107 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 1001585010108 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1001585010109 Zn2+ binding site [ion binding]; other site 1001585010110 Mg2+ binding site [ion binding]; other site 1001585010111 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1001585010112 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1001585010113 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 1001585010114 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1001585010115 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1001585010116 Zn2+ binding site [ion binding]; other site 1001585010117 Mg2+ binding site [ion binding]; other site 1001585010118 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1001585010119 hypothetical protein; Provisional; Region: PRK11702 1001585010120 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 1001585010121 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1001585010122 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1001585010123 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 1001585010124 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 1001585010125 S-adenosylmethionine binding site [chemical binding]; other site 1001585010126 Ribosome modulation factor; Region: RMF; cl01207 1001585010127 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1001585010128 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 1001585010129 quinone interaction residues [chemical binding]; other site 1001585010130 active site 1001585010131 catalytic residues [active] 1001585010132 FMN binding site [chemical binding]; other site 1001585010133 substrate binding site [chemical binding]; other site 1001585010134 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 1001585010135 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1001585010136 recombinase A; Provisional; Region: recA; PRK09354 1001585010137 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 1001585010138 hexamer interface [polypeptide binding]; other site 1001585010139 Walker A motif; other site 1001585010140 ATP binding site [chemical binding]; other site 1001585010141 Walker B motif; other site 1001585010142 Competence-damaged protein; Region: CinA; pfam02464 1001585010143 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1001585010144 MutS domain I; Region: MutS_I; pfam01624 1001585010145 MutS domain II; Region: MutS_II; pfam05188 1001585010146 MutS domain III; Region: MutS_III; pfam05192 1001585010147 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1001585010148 Walker A/P-loop; other site 1001585010149 ATP binding site [chemical binding]; other site 1001585010150 Q-loop/lid; other site 1001585010151 ABC transporter signature motif; other site 1001585010152 Walker B; other site 1001585010153 D-loop; other site 1001585010154 H-loop/switch region; other site 1001585010155 Ferredoxin [Energy production and conversion]; Region: COG1146 1001585010156 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1001585010157 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 1001585010158 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1001585010159 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585010160 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1001585010161 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 1001585010162 DNA binding residues [nucleotide binding] 1001585010163 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1001585010164 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1001585010165 Peptidase family M23; Region: Peptidase_M23; pfam01551 1001585010166 Domain of unknown function (DUF368); Region: DUF368; pfam04018 1001585010167 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1001585010168 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 1001585010169 S-adenosylmethionine binding site [chemical binding]; other site 1001585010170 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1001585010171 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1001585010172 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1001585010173 Permutation of conserved domain; other site 1001585010174 active site 1001585010175 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1001585010176 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 1001585010177 homotrimer interaction site [polypeptide binding]; other site 1001585010178 zinc binding site [ion binding]; other site 1001585010179 CDP-binding sites; other site 1001585010180 S-formylglutathione hydrolase; Region: PLN02442 1001585010181 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1001585010182 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1001585010183 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1001585010184 substrate binding site [chemical binding]; other site 1001585010185 catalytic Zn binding site [ion binding]; other site 1001585010186 NAD binding site [chemical binding]; other site 1001585010187 structural Zn binding site [ion binding]; other site 1001585010188 dimer interface [polypeptide binding]; other site 1001585010189 transcriptional activator TtdR; Provisional; Region: PRK09801 1001585010190 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585010191 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 1001585010192 putative effector binding pocket; other site 1001585010193 putative dimerization interface [polypeptide binding]; other site 1001585010194 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 1001585010195 30S subunit binding site; other site 1001585010196 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1001585010197 substrate binding site; other site 1001585010198 dimer interface; other site 1001585010199 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1001585010200 Septum formation initiator; Region: DivIC; cl17659 1001585010201 enolase; Provisional; Region: eno; PRK00077 1001585010202 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 1001585010203 dimer interface [polypeptide binding]; other site 1001585010204 metal binding site [ion binding]; metal-binding site 1001585010205 substrate binding pocket [chemical binding]; other site 1001585010206 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1001585010207 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1001585010208 CTP synthetase; Validated; Region: pyrG; PRK05380 1001585010209 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 1001585010210 Catalytic site [active] 1001585010211 active site 1001585010212 UTP binding site [chemical binding]; other site 1001585010213 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1001585010214 active site 1001585010215 putative oxyanion hole; other site 1001585010216 catalytic triad [active] 1001585010217 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1001585010218 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 1001585010219 Ligand Binding Site [chemical binding]; other site 1001585010220 TilS substrate binding domain; Region: TilS; pfam09179 1001585010221 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1001585010222 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1001585010223 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1001585010224 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1001585010225 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1001585010226 putative active site [active] 1001585010227 putative PHP Thumb interface [polypeptide binding]; other site 1001585010228 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 1001585010229 generic binding surface II; other site 1001585010230 generic binding surface I; other site 1001585010231 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1001585010232 RNA/DNA hybrid binding site [nucleotide binding]; other site 1001585010233 active site 1001585010234 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1001585010235 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1001585010236 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1001585010237 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 1001585010238 active site 1001585010239 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 1001585010240 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1001585010241 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1001585010242 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 1001585010243 trimer interface [polypeptide binding]; other site 1001585010244 active site 1001585010245 UDP-GlcNAc binding site [chemical binding]; other site 1001585010246 lipid binding site [chemical binding]; lipid-binding site 1001585010247 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 1001585010248 periplasmic chaperone; Provisional; Region: PRK10780 1001585010249 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1001585010250 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1001585010251 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1001585010252 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1001585010253 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1001585010254 Surface antigen; Region: Bac_surface_Ag; pfam01103 1001585010255 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 1001585010256 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1001585010257 active site 1001585010258 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 1001585010259 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 1001585010260 protein binding site [polypeptide binding]; other site 1001585010261 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 1001585010262 putative substrate binding region [chemical binding]; other site 1001585010263 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1001585010264 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1001585010265 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1001585010266 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1001585010267 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1001585010268 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1001585010269 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1001585010270 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 1001585010271 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1001585010272 catalytic residue [active] 1001585010273 putative FPP diphosphate binding site; other site 1001585010274 putative FPP binding hydrophobic cleft; other site 1001585010275 dimer interface [polypeptide binding]; other site 1001585010276 putative IPP diphosphate binding site; other site 1001585010277 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1001585010278 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 1001585010279 hinge region; other site 1001585010280 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 1001585010281 putative nucleotide binding site [chemical binding]; other site 1001585010282 uridine monophosphate binding site [chemical binding]; other site 1001585010283 homohexameric interface [polypeptide binding]; other site 1001585010284 elongation factor Ts; Provisional; Region: tsf; PRK09377 1001585010285 UBA/TS-N domain; Region: UBA; pfam00627 1001585010286 Elongation factor TS; Region: EF_TS; pfam00889 1001585010287 Elongation factor TS; Region: EF_TS; pfam00889 1001585010288 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 1001585010289 rRNA interaction site [nucleotide binding]; other site 1001585010290 S8 interaction site; other site 1001585010291 putative laminin-1 binding site; other site 1001585010292 methionine aminopeptidase; Provisional; Region: PRK08671 1001585010293 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 1001585010294 active site 1001585010295 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 1001585010296 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1001585010297 metal binding triad; other site 1001585010298 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1001585010299 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1001585010300 Zn2+ binding site [ion binding]; other site 1001585010301 Mg2+ binding site [ion binding]; other site 1001585010302 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 1001585010303 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 1001585010304 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 1001585010305 Cache domain; Region: Cache_1; pfam02743 1001585010306 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 1001585010307 dimerization interface [polypeptide binding]; other site 1001585010308 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585010309 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585010310 dimer interface [polypeptide binding]; other site 1001585010311 putative CheW interface [polypeptide binding]; other site 1001585010312 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 1001585010313 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 1001585010314 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585010315 homodimer interface [polypeptide binding]; other site 1001585010316 catalytic residue [active] 1001585010317 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 1001585010318 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 1001585010319 ArsC family; Region: ArsC; pfam03960 1001585010320 putative catalytic residues [active] 1001585010321 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 1001585010322 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 1001585010323 putative trimer interface [polypeptide binding]; other site 1001585010324 putative CoA binding site [chemical binding]; other site 1001585010325 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1001585010326 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 1001585010327 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1001585010328 catalytic residue [active] 1001585010329 Fe-S metabolism associated domain; Region: SufE; cl00951 1001585010330 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 1001585010331 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1001585010332 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1001585010333 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585010334 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 1001585010335 substrate binding pocket [chemical binding]; other site 1001585010336 membrane-bound complex binding site; other site 1001585010337 hinge residues; other site 1001585010338 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1001585010339 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 1001585010340 putative ATP binding site [chemical binding]; other site 1001585010341 putative substrate interface [chemical binding]; other site 1001585010342 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1001585010343 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1001585010344 metal binding site [ion binding]; metal-binding site 1001585010345 dimer interface [polypeptide binding]; other site 1001585010346 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1001585010347 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 1001585010348 S-adenosylmethionine binding site [chemical binding]; other site 1001585010349 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 1001585010350 DNA-binding site [nucleotide binding]; DNA binding site 1001585010351 RNA-binding motif; other site 1001585010352 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 1001585010353 ABC-type uncharacterized transport system involved in gliding motility, auxiliary component [Cell motility and secretion]; Region: GldG; COG3225 1001585010354 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 1001585010355 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1001585010356 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1001585010357 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1001585010358 Walker A/P-loop; other site 1001585010359 ATP binding site [chemical binding]; other site 1001585010360 Q-loop/lid; other site 1001585010361 ABC transporter signature motif; other site 1001585010362 Walker B; other site 1001585010363 D-loop; other site 1001585010364 H-loop/switch region; other site 1001585010365 integron integrase; Region: integrase_gron; TIGR02249 1001585010366 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 1001585010367 Int/Topo IB signature motif; other site 1001585010368 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1001585010369 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 1001585010370 binding surface 1001585010371 TPR motif; other site 1001585010372 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1001585010373 Family of unknown function (DUF695); Region: DUF695; pfam05117 1001585010374 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1001585010375 EamA-like transporter family; Region: EamA; cl17759 1001585010376 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1001585010377 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1001585010378 putative acyl-acceptor binding pocket; other site 1001585010379 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1001585010380 malate:quinone oxidoreductase; Validated; Region: PRK05257 1001585010381 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1001585010382 LrgB-like family; Region: LrgB; pfam04172 1001585010383 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 1001585010384 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1001585010385 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1001585010386 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1001585010387 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1001585010388 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 1001585010389 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1001585010390 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 1001585010391 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585010392 DNA-binding site [nucleotide binding]; DNA binding site 1001585010393 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 1001585010394 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585010395 homodimer interface [polypeptide binding]; other site 1001585010396 catalytic residue [active] 1001585010397 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 1001585010398 trimer interface; other site 1001585010399 sugar binding site [chemical binding]; other site 1001585010400 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1001585010401 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1001585010402 Walker A/P-loop; other site 1001585010403 ATP binding site [chemical binding]; other site 1001585010404 Q-loop/lid; other site 1001585010405 ABC transporter signature motif; other site 1001585010406 Walker B; other site 1001585010407 D-loop; other site 1001585010408 H-loop/switch region; other site 1001585010409 TOBE domain; Region: TOBE_2; pfam08402 1001585010410 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1001585010411 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585010412 dimer interface [polypeptide binding]; other site 1001585010413 conserved gate region; other site 1001585010414 putative PBP binding loops; other site 1001585010415 ABC-ATPase subunit interface; other site 1001585010416 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585010417 dimer interface [polypeptide binding]; other site 1001585010418 conserved gate region; other site 1001585010419 putative PBP binding loops; other site 1001585010420 ABC-ATPase subunit interface; other site 1001585010421 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1001585010422 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1001585010423 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585010424 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 1001585010425 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585010426 ATP binding site [chemical binding]; other site 1001585010427 Mg2+ binding site [ion binding]; other site 1001585010428 G-X-G motif; other site 1001585010429 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1001585010430 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585010431 active site 1001585010432 phosphorylation site [posttranslational modification] 1001585010433 intermolecular recognition site; other site 1001585010434 dimerization interface [polypeptide binding]; other site 1001585010435 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 1001585010436 DNA binding site [nucleotide binding] 1001585010437 glucokinase; Provisional; Region: glk; PRK00292 1001585010438 glucokinase, proteobacterial type; Region: glk; TIGR00749 1001585010439 hypothetical protein; Provisional; Region: PRK09126 1001585010440 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1001585010441 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 1001585010442 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1001585010443 Low-spin heme binding site [chemical binding]; other site 1001585010444 Putative water exit pathway; other site 1001585010445 Binuclear center (active site) [active] 1001585010446 Putative proton exit pathway; other site 1001585010447 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 1001585010448 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1001585010449 Bacterial SH3 domain; Region: SH3_3; pfam08239 1001585010450 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 1001585010451 transcriptional regulator; Provisional; Region: PRK10632 1001585010452 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585010453 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 1001585010454 putative effector binding pocket; other site 1001585010455 dimerization interface [polypeptide binding]; other site 1001585010456 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1001585010457 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1001585010458 short chain dehydrogenase; Provisional; Region: PRK08177 1001585010459 NAD(P) binding site [chemical binding]; other site 1001585010460 active site 1001585010461 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 1001585010462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585010463 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1001585010464 NAD(P) binding site [chemical binding]; other site 1001585010465 active site 1001585010466 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 1001585010467 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 1001585010468 CHASE3 domain; Region: CHASE3; pfam05227 1001585010469 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1001585010470 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 1001585010471 dimerization interface [polypeptide binding]; other site 1001585010472 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585010473 dimer interface [polypeptide binding]; other site 1001585010474 putative CheW interface [polypeptide binding]; other site 1001585010475 acetyl-CoA synthetase; Provisional; Region: PRK00174 1001585010476 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1001585010477 active site 1001585010478 CoA binding site [chemical binding]; other site 1001585010479 acyl-activating enzyme (AAE) consensus motif; other site 1001585010480 AMP binding site [chemical binding]; other site 1001585010481 acetate binding site [chemical binding]; other site 1001585010482 DctM-like transporters; Region: DctM; pfam06808 1001585010483 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1001585010484 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1001585010485 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585010486 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1001585010487 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585010488 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585010489 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 1001585010490 putative dimerization interface [polypeptide binding]; other site 1001585010491 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1001585010492 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1001585010493 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1001585010494 active site 1001585010495 catalytic residues [active] 1001585010496 metal binding site [ion binding]; metal-binding site 1001585010497 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585010498 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1001585010499 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1001585010500 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1001585010501 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1001585010502 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1001585010503 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585010504 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585010505 active site 1001585010506 Uncharacterized conserved protein [Function unknown]; Region: COG3777 1001585010507 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 1001585010508 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 1001585010509 active site 2 [active] 1001585010510 active site 1 [active] 1001585010511 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585010512 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585010513 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 1001585010514 putative dimerization interface [polypeptide binding]; other site 1001585010515 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 1001585010516 nucleoside/Zn binding site; other site 1001585010517 dimer interface [polypeptide binding]; other site 1001585010518 catalytic motif [active] 1001585010519 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1001585010520 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1001585010521 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 1001585010522 putative active site [active] 1001585010523 heme pocket [chemical binding]; other site 1001585010524 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 1001585010525 Walker A motif; other site 1001585010526 ATP binding site [chemical binding]; other site 1001585010527 Walker B motif; other site 1001585010528 arginine finger; other site 1001585010529 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 1001585010530 cofactor binding site; other site 1001585010531 metal binding site [ion binding]; metal-binding site 1001585010532 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 1001585010533 aromatic arch; other site 1001585010534 DCoH dimer interaction site [polypeptide binding]; other site 1001585010535 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1001585010536 DCoH tetramer interaction site [polypeptide binding]; other site 1001585010537 substrate binding site [chemical binding]; other site 1001585010538 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1001585010539 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 1001585010540 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585010541 homodimer interface [polypeptide binding]; other site 1001585010542 catalytic residue [active] 1001585010543 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 1001585010544 Predicted membrane protein [Function unknown]; Region: COG4325 1001585010545 putative MFS family transporter protein; Provisional; Region: PRK03633 1001585010546 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 1001585010547 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 1001585010548 active site 1001585010549 motif I; other site 1001585010550 motif II; other site 1001585010551 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 1001585010552 glucosylglycerol-phosphate synthase; Region: gluc_glyc_Psyn; TIGR02398 1001585010553 active site 1001585010554 homotetramer interface [polypeptide binding]; other site 1001585010555 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1001585010556 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 1001585010557 dimer interface [polypeptide binding]; other site 1001585010558 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1001585010559 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1001585010560 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 1001585010561 dimerization interface [polypeptide binding]; other site 1001585010562 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585010563 dimer interface [polypeptide binding]; other site 1001585010564 putative CheW interface [polypeptide binding]; other site 1001585010565 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1001585010566 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1001585010567 active site 1001585010568 intersubunit interface [polypeptide binding]; other site 1001585010569 catalytic residue [active] 1001585010570 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1001585010571 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 1001585010572 putative active site [active] 1001585010573 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1001585010574 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1001585010575 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1001585010576 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1001585010577 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1001585010578 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 1001585010579 putative active site [active] 1001585010580 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1001585010581 Sodium Bile acid symporter family; Region: SBF; pfam01758 1001585010582 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1001585010583 H+ Antiporter protein; Region: 2A0121; TIGR00900 1001585010584 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1001585010585 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1001585010586 putative acyl-acceptor binding pocket; other site 1001585010587 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 1001585010588 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1001585010589 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 1001585010590 dimerization interface [polypeptide binding]; other site 1001585010591 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 1001585010592 dimer interface [polypeptide binding]; other site 1001585010593 phosphorylation site [posttranslational modification] 1001585010594 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585010595 ATP binding site [chemical binding]; other site 1001585010596 Mg2+ binding site [ion binding]; other site 1001585010597 G-X-G motif; other site 1001585010598 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1001585010599 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1001585010600 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 1001585010601 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585010602 active site 1001585010603 phosphorylation site [posttranslational modification] 1001585010604 intermolecular recognition site; other site 1001585010605 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 1001585010606 DNA binding site [nucleotide binding] 1001585010607 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 1001585010608 ATP cone domain; Region: ATP-cone; pfam03477 1001585010609 ATP cone domain; Region: ATP-cone; pfam03477 1001585010610 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1001585010611 active site 1001585010612 dimer interface [polypeptide binding]; other site 1001585010613 catalytic residues [active] 1001585010614 effector binding site; other site 1001585010615 R2 peptide binding site; other site 1001585010616 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1001585010617 dimer interface [polypeptide binding]; other site 1001585010618 putative radical transfer pathway; other site 1001585010619 diiron center [ion binding]; other site 1001585010620 tyrosyl radical; other site 1001585010621 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1001585010622 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585010623 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585010624 metal binding site [ion binding]; metal-binding site 1001585010625 active site 1001585010626 I-site; other site 1001585010627 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585010628 Coenzyme A binding pocket [chemical binding]; other site 1001585010629 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1001585010630 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1001585010631 FAD binding domain; Region: FAD_binding_4; pfam01565 1001585010632 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585010633 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1001585010634 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 1001585010635 dimerization interface [polypeptide binding]; other site 1001585010636 substrate binding pocket [chemical binding]; other site 1001585010637 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1001585010638 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1001585010639 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1001585010640 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1001585010641 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 1001585010642 S-adenosylmethionine binding site [chemical binding]; other site 1001585010643 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 1001585010644 PAS domain; Region: PAS_9; pfam13426 1001585010645 putative active site [active] 1001585010646 heme pocket [chemical binding]; other site 1001585010647 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 1001585010648 PAS domain; Region: PAS_9; pfam13426 1001585010649 putative active site [active] 1001585010650 heme pocket [chemical binding]; other site 1001585010651 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585010652 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585010653 dimer interface [polypeptide binding]; other site 1001585010654 putative CheW interface [polypeptide binding]; other site 1001585010655 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1001585010656 Strictosidine synthase; Region: Str_synth; pfam03088 1001585010657 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1001585010658 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 1001585010659 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585010660 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585010661 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 1001585010662 putative effector binding pocket; other site 1001585010663 dimerization interface [polypeptide binding]; other site 1001585010664 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cl00178 1001585010665 secondary substrate binding site; other site 1001585010666 primary substrate binding site; other site 1001585010667 inhibition loop; other site 1001585010668 dimerization interface [polypeptide binding]; other site 1001585010669 HDOD domain; Region: HDOD; pfam08668 1001585010670 hypothetical protein; Provisional; Region: PRK10396 1001585010671 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 1001585010672 SEC-C motif; Region: SEC-C; pfam02810 1001585010673 2-isopropylmalate synthase; Validated; Region: PRK03739 1001585010674 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1001585010675 active site 1001585010676 catalytic residues [active] 1001585010677 metal binding site [ion binding]; metal-binding site 1001585010678 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1001585010679 Helix-turn-helix domain; Region: HTH_18; pfam12833 1001585010680 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1001585010681 Peptidase family U32; Region: Peptidase_U32; pfam01136 1001585010682 Collagenase; Region: DUF3656; pfam12392 1001585010683 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585010684 dimer interface [polypeptide binding]; other site 1001585010685 putative CheW interface [polypeptide binding]; other site 1001585010686 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 1001585010687 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 1001585010688 PAS domain; Region: PAS_9; pfam13426 1001585010689 putative active site [active] 1001585010690 heme pocket [chemical binding]; other site 1001585010691 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 1001585010692 PAS domain; Region: PAS_9; pfam13426 1001585010693 putative active site [active] 1001585010694 heme pocket [chemical binding]; other site 1001585010695 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585010696 dimer interface [polypeptide binding]; other site 1001585010697 putative CheW interface [polypeptide binding]; other site 1001585010698 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1001585010699 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1001585010700 SCP: SCP-like extracellular protein domain, found in eukaryotes and prokaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in...; Region: SCP; cl00133 1001585010701 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1001585010702 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 1001585010703 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585010704 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585010705 metal binding site [ion binding]; metal-binding site 1001585010706 active site 1001585010707 I-site; other site 1001585010708 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1001585010709 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1001585010710 Cache domain; Region: Cache_1; pfam02743 1001585010711 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585010712 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585010713 metal binding site [ion binding]; metal-binding site 1001585010714 active site 1001585010715 I-site; other site 1001585010716 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 1001585010717 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1001585010718 EamA-like transporter family; Region: EamA; pfam00892 1001585010719 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1001585010720 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 1001585010721 hypothetical protein; Provisional; Region: PRK12378 1001585010722 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 1001585010723 nudix motif; other site 1001585010724 Protein of unknown function (DUF2025); Region: DUF2025; pfam09634 1001585010725 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585010726 Coenzyme A binding pocket [chemical binding]; other site 1001585010727 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585010728 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585010729 metal binding site [ion binding]; metal-binding site 1001585010730 active site 1001585010731 I-site; other site 1001585010732 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1001585010733 S1 domain; Region: S1_2; pfam13509 1001585010734 S1 domain; Region: S1_2; pfam13509 1001585010735 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 1001585010736 DNA-binding site [nucleotide binding]; DNA binding site 1001585010737 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1001585010738 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1001585010739 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585010740 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 1001585010741 substrate binding pocket [chemical binding]; other site 1001585010742 hinge residues; other site 1001585010743 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 1001585010744 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1001585010745 NADP binding site [chemical binding]; other site 1001585010746 dimer interface [polypeptide binding]; other site 1001585010747 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 1001585010748 putative substrate translocation pore; other site 1001585010749 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1001585010750 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1001585010751 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1001585010752 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1001585010753 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1001585010754 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585010755 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585010756 metal binding site [ion binding]; metal-binding site 1001585010757 active site 1001585010758 I-site; other site 1001585010759 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 1001585010760 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1001585010761 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1001585010762 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1001585010763 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 1001585010764 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 1001585010765 substrate binding pocket [chemical binding]; other site 1001585010766 membrane-bound complex binding site; other site 1001585010767 hinge residues; other site 1001585010768 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1001585010769 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585010770 Walker A/P-loop; other site 1001585010771 ATP binding site [chemical binding]; other site 1001585010772 Q-loop/lid; other site 1001585010773 ABC transporter signature motif; other site 1001585010774 Walker B; other site 1001585010775 D-loop; other site 1001585010776 H-loop/switch region; other site 1001585010777 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 1001585010778 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585010779 dimer interface [polypeptide binding]; other site 1001585010780 conserved gate region; other site 1001585010781 putative PBP binding loops; other site 1001585010782 ABC-ATPase subunit interface; other site 1001585010783 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1001585010784 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1001585010785 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 1001585010786 dimerization interface [polypeptide binding]; other site 1001585010787 putative DNA binding site [nucleotide binding]; other site 1001585010788 putative Zn2+ binding site [ion binding]; other site 1001585010789 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 1001585010790 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1001585010791 putative NAD(P) binding site [chemical binding]; other site 1001585010792 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 1001585010793 dimer interface [polypeptide binding]; other site 1001585010794 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 1001585010795 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1001585010796 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1001585010797 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585010798 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585010799 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1001585010800 NAD(P) binding site [chemical binding]; other site 1001585010801 active site 1001585010802 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585010803 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585010804 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 1001585010805 dimerization interface [polypeptide binding]; other site 1001585010806 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1001585010807 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585010808 NAD(P) binding site [chemical binding]; other site 1001585010809 active site 1001585010810 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1001585010811 classical (c) SDRs; Region: SDR_c; cd05233 1001585010812 NAD(P) binding site [chemical binding]; other site 1001585010813 active site 1001585010814 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585010815 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1001585010816 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1001585010817 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1001585010818 putative NAD(P) binding site [chemical binding]; other site 1001585010819 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1001585010820 Predicted transcriptional regulators [Transcription]; Region: COG1733 1001585010821 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 1001585010822 dimerization interface [polypeptide binding]; other site 1001585010823 putative DNA binding site [nucleotide binding]; other site 1001585010824 putative Zn2+ binding site [ion binding]; other site 1001585010825 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1001585010826 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 1001585010827 putative substrate translocation pore; other site 1001585010828 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 1001585010829 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585010830 NAD(P) binding site [chemical binding]; other site 1001585010831 active site 1001585010832 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1001585010833 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585010834 NAD(P) binding site [chemical binding]; other site 1001585010835 active site 1001585010836 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1001585010837 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1001585010838 conserved cys residue [active] 1001585010839 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585010840 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 1001585010841 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1001585010842 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1001585010843 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1001585010844 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1001585010845 conserved cys residue [active] 1001585010846 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585010847 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1001585010848 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1001585010849 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 1001585010850 FAD binding pocket [chemical binding]; other site 1001585010851 FAD binding motif [chemical binding]; other site 1001585010852 phosphate binding motif [ion binding]; other site 1001585010853 beta-alpha-beta structure motif; other site 1001585010854 NAD binding pocket [chemical binding]; other site 1001585010855 Heme binding pocket [chemical binding]; other site 1001585010856 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1001585010857 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 1001585010858 catalytic loop [active] 1001585010859 iron binding site [ion binding]; other site 1001585010860 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1001585010861 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 1001585010862 putative C-terminal domain interface [polypeptide binding]; other site 1001585010863 putative GSH binding site (G-site) [chemical binding]; other site 1001585010864 putative dimer interface [polypeptide binding]; other site 1001585010865 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 1001585010866 putative N-terminal domain interface [polypeptide binding]; other site 1001585010867 putative dimer interface [polypeptide binding]; other site 1001585010868 putative substrate binding pocket (H-site) [chemical binding]; other site 1001585010869 transcriptional regulator; Provisional; Region: PRK10632 1001585010870 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585010871 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 1001585010872 putative effector binding pocket; other site 1001585010873 putative dimerization interface [polypeptide binding]; other site 1001585010874 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585010875 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585010876 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 1001585010877 putative effector binding pocket; other site 1001585010878 putative dimerization interface [polypeptide binding]; other site 1001585010879 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1001585010880 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 1001585010881 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 1001585010882 dimer interface [polypeptide binding]; other site 1001585010883 active site 1001585010884 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 1001585010885 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1001585010886 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1001585010887 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1001585010888 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1001585010889 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1001585010890 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1001585010891 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1001585010892 Family description; Region: UvrD_C_2; pfam13538 1001585010893 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585010894 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585010895 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 1001585010896 putative effector binding pocket; other site 1001585010897 dimerization interface [polypeptide binding]; other site 1001585010898 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1001585010899 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 1001585010900 putative substrate translocation pore; other site 1001585010901 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1001585010902 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1001585010903 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1001585010904 Ligand binding site; other site 1001585010905 DXD motif; other site 1001585010906 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1001585010907 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 1001585010908 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1001585010909 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1001585010910 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1001585010911 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1001585010912 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585010913 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585010914 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1001585010915 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 1001585010916 ATP binding site [chemical binding]; other site 1001585010917 putative Mg++ binding site [ion binding]; other site 1001585010918 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 1001585010919 nucleotide binding region [chemical binding]; other site 1001585010920 ATP-binding site [chemical binding]; other site 1001585010921 Predicted membrane protein [Function unknown]; Region: COG3223 1001585010922 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1001585010923 YebG protein; Region: YebG; pfam07130 1001585010924 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1001585010925 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1001585010926 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1001585010927 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1001585010928 NAD binding site [chemical binding]; other site 1001585010929 Phe binding site; other site 1001585010930 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1001585010931 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1001585010932 PilZ domain; Region: PilZ; pfam07238 1001585010933 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1001585010934 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1001585010935 universal stress protein UspE; Provisional; Region: PRK11175 1001585010936 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 1001585010937 Ligand Binding Site [chemical binding]; other site 1001585010938 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 1001585010939 Ligand Binding Site [chemical binding]; other site 1001585010940 pyruvate kinase; Provisional; Region: PRK05826 1001585010941 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 1001585010942 domain interfaces; other site 1001585010943 active site 1001585010944 enoyl-CoA hydratase; Provisional; Region: PRK06688 1001585010945 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 1001585010946 substrate binding site [chemical binding]; other site 1001585010947 oxyanion hole (OAH) forming residues; other site 1001585010948 trimer interface [polypeptide binding]; other site 1001585010949 hypothetical protein; Provisional; Region: PRK05713 1001585010950 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 1001585010951 catalytic loop [active] 1001585010952 iron binding site [ion binding]; other site 1001585010953 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 1001585010954 FAD binding pocket [chemical binding]; other site 1001585010955 FAD binding motif [chemical binding]; other site 1001585010956 phosphate binding motif [ion binding]; other site 1001585010957 beta-alpha-beta structure motif; other site 1001585010958 NAD binding pocket [chemical binding]; other site 1001585010959 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585010960 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585010961 metal binding site [ion binding]; metal-binding site 1001585010962 active site 1001585010963 I-site; other site 1001585010964 putative fumarate hydratase; Provisional; Region: PRK15392 1001585010965 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1001585010966 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1001585010967 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 1001585010968 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1001585010969 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1001585010970 catalytic residue [active] 1001585010971 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 1001585010972 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1001585010973 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1001585010974 conserved cys residue [active] 1001585010975 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585010976 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585010977 Isochorismatase family; Region: Isochorismatase; pfam00857 1001585010978 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 1001585010979 catalytic triad [active] 1001585010980 conserved cis-peptide bond; other site 1001585010981 Predicted ATPase [General function prediction only]; Region: COG1485 1001585010982 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1001585010983 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 1001585010984 putative active site [active] 1001585010985 catalytic triad [active] 1001585010986 putative dimer interface [polypeptide binding]; other site 1001585010987 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 1001585010988 Thermostable hemolysin; Region: T_hemolysin; pfam12261 1001585010989 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 1001585010990 AMP-binding enzyme; Region: AMP-binding; pfam00501 1001585010991 acyl-activating enzyme (AAE) consensus motif; other site 1001585010992 putative AMP binding site [chemical binding]; other site 1001585010993 putative active site [active] 1001585010994 putative CoA binding site [chemical binding]; other site 1001585010995 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 1001585010996 heme binding pocket [chemical binding]; other site 1001585010997 heme ligand [chemical binding]; other site 1001585010998 short chain dehydrogenase; Provisional; Region: PRK09072 1001585010999 classical (c) SDRs; Region: SDR_c; cd05233 1001585011000 NAD(P) binding site [chemical binding]; other site 1001585011001 active site 1001585011002 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 1001585011003 TPR motif; other site 1001585011004 binding surface 1001585011005 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1001585011006 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585011007 active site 1001585011008 phosphorylation site [posttranslational modification] 1001585011009 intermolecular recognition site; other site 1001585011010 dimerization interface [polypeptide binding]; other site 1001585011011 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 1001585011012 DNA binding site [nucleotide binding] 1001585011013 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 1001585011014 dimer interface [polypeptide binding]; other site 1001585011015 phosphorylation site [posttranslational modification] 1001585011016 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585011017 ATP binding site [chemical binding]; other site 1001585011018 Mg2+ binding site [ion binding]; other site 1001585011019 G-X-G motif; other site 1001585011020 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 1001585011021 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1001585011022 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1001585011023 conserved cys residue [active] 1001585011024 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 1001585011025 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1001585011026 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 1001585011027 NAD binding site [chemical binding]; other site 1001585011028 homodimer interface [polypeptide binding]; other site 1001585011029 active site 1001585011030 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 1001585011031 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585011032 aldolase II superfamily protein; Provisional; Region: PRK07044 1001585011033 intersubunit interface [polypeptide binding]; other site 1001585011034 active site 1001585011035 Zn2+ binding site [ion binding]; other site 1001585011036 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1001585011037 hypothetical protein; Provisional; Region: PRK08204 1001585011038 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 1001585011039 active site 1001585011040 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585011041 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585011042 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 1001585011043 putative effector binding pocket; other site 1001585011044 putative dimerization interface [polypeptide binding]; other site 1001585011045 flavodoxin; Provisional; Region: PRK05723 1001585011046 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 1001585011047 PAS domain; Region: PAS_9; pfam13426 1001585011048 putative active site [active] 1001585011049 heme pocket [chemical binding]; other site 1001585011050 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1001585011051 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 1001585011052 DNA binding residues [nucleotide binding] 1001585011053 B12 binding domain; Region: B12-binding_2; pfam02607 1001585011054 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 1001585011055 dihydromonapterin reductase; Provisional; Region: PRK06483 1001585011056 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585011057 NAD(P) binding site [chemical binding]; other site 1001585011058 active site 1001585011059 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 1001585011060 homodecamer interface [polypeptide binding]; other site 1001585011061 GTP cyclohydrolase I; Provisional; Region: PLN03044 1001585011062 active site 1001585011063 putative catalytic site residues [active] 1001585011064 zinc binding site [ion binding]; other site 1001585011065 GTP-CH-I/GFRP interaction surface; other site 1001585011066 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 1001585011067 homooctamer interface [polypeptide binding]; other site 1001585011068 active site 1001585011069 Protein of unknown function (DUF1244); Region: DUF1244; pfam06844 1001585011070 HopJ type III effector protein; Region: HopJ; pfam08888 1001585011071 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 1001585011072 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 1001585011073 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1001585011074 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1001585011075 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585011076 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585011077 dimer interface [polypeptide binding]; other site 1001585011078 putative CheW interface [polypeptide binding]; other site 1001585011079 Cache domain; Region: Cache_1; pfam02743 1001585011080 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 1001585011081 dimerization interface [polypeptide binding]; other site 1001585011082 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585011083 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585011084 dimer interface [polypeptide binding]; other site 1001585011085 putative CheW interface [polypeptide binding]; other site 1001585011086 Nitrate and nitrite sensing; Region: NIT; pfam08376 1001585011087 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1001585011088 HAMP domain; Region: HAMP; pfam00672 1001585011089 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585011090 dimer interface [polypeptide binding]; other site 1001585011091 putative CheW interface [polypeptide binding]; other site 1001585011092 Secretin and TonB N terminus short domain; Region: STN; smart00965 1001585011093 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 1001585011094 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1001585011095 N-terminal plug; other site 1001585011096 ligand-binding site [chemical binding]; other site 1001585011097 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1001585011098 FecR protein; Region: FecR; pfam04773 1001585011099 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1001585011100 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585011101 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 1001585011102 DNA binding residues [nucleotide binding] 1001585011103 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1001585011104 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585011105 Coenzyme A binding pocket [chemical binding]; other site 1001585011106 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 1001585011107 active site 1001585011108 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1001585011109 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 1001585011110 conserved cys residue [active] 1001585011111 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585011112 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585011113 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1001585011114 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1001585011115 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1001585011116 acyl-activating enzyme (AAE) consensus motif; other site 1001585011117 putative AMP binding site [chemical binding]; other site 1001585011118 putative active site [active] 1001585011119 putative CoA binding site [chemical binding]; other site 1001585011120 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1001585011121 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_3; cd06217 1001585011122 FAD binding pocket [chemical binding]; other site 1001585011123 FAD binding motif [chemical binding]; other site 1001585011124 phosphate binding motif [ion binding]; other site 1001585011125 beta-alpha-beta structure motif; other site 1001585011126 NAD binding pocket [chemical binding]; other site 1001585011127 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1001585011128 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 1001585011129 catalytic loop [active] 1001585011130 iron binding site [ion binding]; other site 1001585011131 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 1001585011132 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1001585011133 enoyl-CoA hydratase; Provisional; Region: PRK06142 1001585011134 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 1001585011135 substrate binding site [chemical binding]; other site 1001585011136 oxyanion hole (OAH) forming residues; other site 1001585011137 trimer interface [polypeptide binding]; other site 1001585011138 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585011139 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585011140 WHG domain; Region: WHG; pfam13305 1001585011141 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1001585011142 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1001585011143 Walker A/P-loop; other site 1001585011144 ATP binding site [chemical binding]; other site 1001585011145 Q-loop/lid; other site 1001585011146 ABC transporter signature motif; other site 1001585011147 Walker B; other site 1001585011148 D-loop; other site 1001585011149 H-loop/switch region; other site 1001585011150 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1001585011151 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 1001585011152 ABC-ATPase subunit interface; other site 1001585011153 dimer interface [polypeptide binding]; other site 1001585011154 putative PBP binding regions; other site 1001585011155 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 1001585011156 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 1001585011157 putative ligand binding residues [chemical binding]; other site 1001585011158 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1001585011159 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1001585011160 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 1001585011161 N-terminal plug; other site 1001585011162 ligand-binding site [chemical binding]; other site 1001585011163 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1001585011164 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585011165 active site 1001585011166 phosphorylation site [posttranslational modification] 1001585011167 intermolecular recognition site; other site 1001585011168 dimerization interface [polypeptide binding]; other site 1001585011169 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 1001585011170 DNA binding site [nucleotide binding] 1001585011171 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 1001585011172 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 1001585011173 dimer interface [polypeptide binding]; other site 1001585011174 phosphorylation site [posttranslational modification] 1001585011175 PKC-activated protein phosphatase-1 inhibitor; Region: PP1_inhibitor; pfam05361 1001585011176 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585011177 ATP binding site [chemical binding]; other site 1001585011178 Mg2+ binding site [ion binding]; other site 1001585011179 G-X-G motif; other site 1001585011180 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1001585011181 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 1001585011182 dimerization interface [polypeptide binding]; other site 1001585011183 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585011184 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585011185 dimer interface [polypeptide binding]; other site 1001585011186 putative CheW interface [polypeptide binding]; other site 1001585011187 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 1001585011188 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 1001585011189 Imelysin; Region: Peptidase_M75; cl09159 1001585011190 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 1001585011191 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1001585011192 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1001585011193 DNA binding site [nucleotide binding] 1001585011194 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 1001585011195 putative ligand binding site [chemical binding]; other site 1001585011196 putative dimerization interface [polypeptide binding]; other site 1001585011197 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1001585011198 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585011199 active site 1001585011200 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1001585011201 Strictosidine synthase; Region: Str_synth; pfam03088 1001585011202 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585011203 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1001585011204 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1001585011205 DctM-like transporters; Region: DctM; pfam06808 1001585011206 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1001585011207 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1001585011208 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585011209 DNA-binding site [nucleotide binding]; DNA binding site 1001585011210 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1001585011211 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 1001585011212 active site 1001585011213 catalytic residues [active] 1001585011214 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1001585011215 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1001585011216 FOG: CBS domain [General function prediction only]; Region: COG0517 1001585011217 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_16; cd04629 1001585011218 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1001585011219 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1001585011220 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1001585011221 putative active site [active] 1001585011222 putative substrate binding site [chemical binding]; other site 1001585011223 putative cosubstrate binding site; other site 1001585011224 catalytic site [active] 1001585011225 exonuclease I; Provisional; Region: sbcB; PRK11779 1001585011226 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1001585011227 active site 1001585011228 catalytic site [active] 1001585011229 substrate binding site [chemical binding]; other site 1001585011230 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1001585011231 Predicted membrane protein/domain [Function unknown]; Region: COG1714 1001585011232 Uncharacterized membrane protein [Function unknown]; Region: SpoIIM; COG1300 1001585011233 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 1001585011234 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 1001585011235 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 1001585011236 Walker A motif; other site 1001585011237 ATP binding site [chemical binding]; other site 1001585011238 Walker B motif; other site 1001585011239 arginine finger; other site 1001585011240 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1001585011241 Protein of unknown function DUF58; Region: DUF58; pfam01882 1001585011242 superoxide dismutase; Provisional; Region: PRK10543 1001585011243 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1001585011244 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1001585011245 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1001585011246 biofilm formation regulator HmsP; Provisional; Region: PRK11829 1001585011247 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585011248 metal binding site [ion binding]; metal-binding site 1001585011249 active site 1001585011250 I-site; other site 1001585011251 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 1001585011252 E3 Ubiquitin ligase; Region: GIDE; pfam12483 1001585011253 LemA family; Region: LemA; pfam04011 1001585011254 Imelysin; Region: Peptidase_M75; cl09159 1001585011255 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1001585011256 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585011257 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585011258 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585011259 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1001585011260 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1001585011261 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1001585011262 Na binding site [ion binding]; other site 1001585011263 PAS domain; Region: PAS; smart00091 1001585011264 PAS fold; Region: PAS_7; pfam12860 1001585011265 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585011266 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 1001585011267 dimer interface [polypeptide binding]; other site 1001585011268 phosphorylation site [posttranslational modification] 1001585011269 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585011270 ATP binding site [chemical binding]; other site 1001585011271 Mg2+ binding site [ion binding]; other site 1001585011272 G-X-G motif; other site 1001585011273 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1001585011274 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585011275 active site 1001585011276 phosphorylation site [posttranslational modification] 1001585011277 intermolecular recognition site; other site 1001585011278 dimerization interface [polypeptide binding]; other site 1001585011279 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1001585011280 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1001585011281 DNA binding residues [nucleotide binding] 1001585011282 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1001585011283 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1001585011284 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1001585011285 RmuC family; Region: RmuC; pfam02646 1001585011286 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 1001585011287 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1001585011288 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 1001585011289 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 1001585011290 putative GSH binding site [chemical binding]; other site 1001585011291 catalytic residues [active] 1001585011292 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 1001585011293 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1001585011294 putative [Fe4-S4] binding site [ion binding]; other site 1001585011295 putative molybdopterin cofactor binding site [chemical binding]; other site 1001585011296 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 1001585011297 putative molybdopterin cofactor binding site; other site 1001585011298 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1001585011299 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1001585011300 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1001585011301 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1001585011302 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1001585011303 Walker A/P-loop; other site 1001585011304 ATP binding site [chemical binding]; other site 1001585011305 Q-loop/lid; other site 1001585011306 ABC transporter signature motif; other site 1001585011307 Walker B; other site 1001585011308 D-loop; other site 1001585011309 H-loop/switch region; other site 1001585011310 TOBE domain; Region: TOBE_2; pfam08402 1001585011311 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1001585011312 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 1001585011313 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1001585011314 N- and C-terminal domain interface [polypeptide binding]; other site 1001585011315 active site 1001585011316 MgATP binding site [chemical binding]; other site 1001585011317 catalytic site [active] 1001585011318 metal binding site [ion binding]; metal-binding site 1001585011319 glycerol binding site [chemical binding]; other site 1001585011320 homotetramer interface [polypeptide binding]; other site 1001585011321 homodimer interface [polypeptide binding]; other site 1001585011322 FBP binding site [chemical binding]; other site 1001585011323 protein IIAGlc interface [polypeptide binding]; other site 1001585011324 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 1001585011325 putative deacylase active site [active] 1001585011326 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1001585011327 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1001585011328 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1001585011329 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1001585011330 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1001585011331 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1001585011332 heme binding site [chemical binding]; other site 1001585011333 ferroxidase pore; other site 1001585011334 ferroxidase diiron center [ion binding]; other site 1001585011335 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 1001585011336 putative MFS family transporter protein; Provisional; Region: PRK03633 1001585011337 putative substrate translocation pore; other site 1001585011338 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1001585011339 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1001585011340 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1001585011341 HlyD family secretion protein; Region: HlyD_3; pfam13437 1001585011342 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585011343 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585011344 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1001585011345 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 1001585011346 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1001585011347 Protein of unknown function DUF72; Region: DUF72; cl00777 1001585011348 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1001585011349 Glycoprotease family; Region: Peptidase_M22; pfam00814 1001585011350 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 1001585011351 adenylate kinase; Reviewed; Region: adk; PRK00279 1001585011352 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 1001585011353 AMP-binding site [chemical binding]; other site 1001585011354 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1001585011355 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1001585011356 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1001585011357 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 1001585011358 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1001585011359 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585011360 ligand binding site [chemical binding]; other site 1001585011361 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1001585011362 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1001585011363 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1001585011364 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 1001585011365 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 1001585011366 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 1001585011367 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1001585011368 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 1001585011369 dimer interface [polypeptide binding]; other site 1001585011370 putative anticodon binding site; other site 1001585011371 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 1001585011372 motif 1; other site 1001585011373 active site 1001585011374 motif 2; other site 1001585011375 motif 3; other site 1001585011376 peptide chain release factor 2; Provisional; Region: PRK08787 1001585011377 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1001585011378 RF-1 domain; Region: RF-1; pfam00472 1001585011379 choline dehydrogenase; Validated; Region: PRK02106 1001585011380 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1001585011381 Protein of unknown function (DUF533); Region: DUF533; pfam04391 1001585011382 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1001585011383 putative metal binding site [ion binding]; other site 1001585011384 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1001585011385 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1001585011386 dimer interface [polypeptide binding]; other site 1001585011387 active site 1001585011388 catalytic residue [active] 1001585011389 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1001585011390 DHH family; Region: DHH; pfam01368 1001585011391 DHHA1 domain; Region: DHHA1; pfam02272 1001585011392 YaeQ protein; Region: YaeQ; pfam07152 1001585011393 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585011394 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585011395 metal binding site [ion binding]; metal-binding site 1001585011396 active site 1001585011397 I-site; other site 1001585011398 AAA domain; Region: AAA_11; pfam13086 1001585011399 Part of AAA domain; Region: AAA_19; pfam13245 1001585011400 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1001585011401 AAA domain; Region: AAA_12; pfam13087 1001585011402 Catalytic domain of vertebrate phospholipase D6 and similar proteins; Region: PLDc_vPLD6_like; cd09171 1001585011403 PLD-like domain; Region: PLDc_2; pfam13091 1001585011404 putative active site [active] 1001585011405 catalytic site [active] 1001585011406 ATPase involved in DNA repair; Region: DUF3686; pfam12458 1001585011407 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 1001585011408 linker region; other site 1001585011409 AAA domain; Region: AAA_22; pfam13401 1001585011410 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 1001585011411 Walker A motif; other site 1001585011412 ATP binding site [chemical binding]; other site 1001585011413 Walker B motif; other site 1001585011414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 1001585011415 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 1001585011416 PspA/IM30 family; Region: PspA_IM30; pfam04012 1001585011417 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 1001585011418 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1001585011419 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 1001585011420 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585011421 catalytic residue [active] 1001585011422 homoserine dehydrogenase; Provisional; Region: PRK06349 1001585011423 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1001585011424 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1001585011425 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 1001585011426 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 1001585011427 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 1001585011428 dimerization domain [polypeptide binding]; other site 1001585011429 dimer interface [polypeptide binding]; other site 1001585011430 catalytic residues [active] 1001585011431 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1001585011432 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1001585011433 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1001585011434 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 1001585011435 active site 1001585011436 Int/Topo IB signature motif; other site 1001585011437 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 1001585011438 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 1001585011439 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1001585011440 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1001585011441 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1001585011442 RimM N-terminal domain; Region: RimM; pfam01782 1001585011443 PRC-barrel domain; Region: PRC; pfam05239 1001585011444 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1001585011445 signal recognition particle protein; Provisional; Region: PRK10867 1001585011446 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1001585011447 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 1001585011448 P loop; other site 1001585011449 GTP binding site [chemical binding]; other site 1001585011450 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1001585011451 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 1001585011452 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1001585011453 Domain of unknown function DUF21; Region: DUF21; pfam01595 1001585011454 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 1001585011455 Transporter associated domain; Region: CorC_HlyC; smart01091 1001585011456 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 1001585011457 active site 1001585011458 catalytic triad [active] 1001585011459 oxyanion hole [active] 1001585011460 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1001585011461 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585011462 ATP-grasp domain; Region: ATP-grasp; pfam02222 1001585011463 Predicted Fe-S protein [General function prediction only]; Region: COG3313 1001585011464 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 1001585011465 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1001585011466 trimer interface [polypeptide binding]; other site 1001585011467 putative metal binding site [ion binding]; other site 1001585011468 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 1001585011469 putative active site [active] 1001585011470 putative CoA binding site [chemical binding]; other site 1001585011471 nudix motif; other site 1001585011472 metal binding site [ion binding]; metal-binding site 1001585011473 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 1001585011474 nudix motif; other site 1001585011475 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 1001585011476 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1001585011477 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1001585011478 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 1001585011479 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1001585011480 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 1001585011481 dimerization interface [polypeptide binding]; other site 1001585011482 ATP binding site [chemical binding]; other site 1001585011483 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 1001585011484 dimerization interface [polypeptide binding]; other site 1001585011485 ATP binding site [chemical binding]; other site 1001585011486 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1001585011487 putative active site [active] 1001585011488 catalytic triad [active] 1001585011489 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1001585011490 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 1001585011491 substrate binding pocket [chemical binding]; other site 1001585011492 membrane-bound complex binding site; other site 1001585011493 hinge residues; other site 1001585011494 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 1001585011495 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1001585011496 catalytic residue [active] 1001585011497 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 1001585011498 nucleoside/Zn binding site; other site 1001585011499 dimer interface [polypeptide binding]; other site 1001585011500 catalytic motif [active] 1001585011501 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1001585011502 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1001585011503 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1001585011504 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1001585011505 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 1001585011506 S-adenosylmethionine binding site [chemical binding]; other site 1001585011507 GMP synthase; Reviewed; Region: guaA; PRK00074 1001585011508 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1001585011509 AMP/PPi binding site [chemical binding]; other site 1001585011510 candidate oxyanion hole; other site 1001585011511 catalytic triad [active] 1001585011512 potential glutamine specificity residues [chemical binding]; other site 1001585011513 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 1001585011514 ATP Binding subdomain [chemical binding]; other site 1001585011515 Ligand Binding sites [chemical binding]; other site 1001585011516 Dimerization subdomain; other site 1001585011517 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1001585011518 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 1001585011519 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 1001585011520 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 1001585011521 active site 1001585011522 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1001585011523 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 1001585011524 N-terminal plug; other site 1001585011525 ligand-binding site [chemical binding]; other site 1001585011526 Predicted membrane protein [Function unknown]; Region: COG4125 1001585011527 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1001585011528 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1001585011529 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585011530 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585011531 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 1001585011532 dimerization interface [polypeptide binding]; other site 1001585011533 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1001585011534 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 1001585011535 generic binding surface II; other site 1001585011536 generic binding surface I; other site 1001585011537 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1001585011538 Peptidase family M23; Region: Peptidase_M23; pfam01551 1001585011539 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1001585011540 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1001585011541 2-isopropylmalate synthase; Validated; Region: PRK03739 1001585011542 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1001585011543 active site 1001585011544 catalytic residues [active] 1001585011545 metal binding site [ion binding]; metal-binding site 1001585011546 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1001585011547 C-N hydrolase family amidase; Provisional; Region: PRK10438 1001585011548 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 1001585011549 putative active site [active] 1001585011550 catalytic triad [active] 1001585011551 dimer interface [polypeptide binding]; other site 1001585011552 multimer interface [polypeptide binding]; other site 1001585011553 methionine aminotransferase; Validated; Region: PRK09082 1001585011554 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 1001585011555 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585011556 homodimer interface [polypeptide binding]; other site 1001585011557 catalytic residue [active] 1001585011558 GTP-binding protein Der; Reviewed; Region: PRK00093 1001585011559 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1001585011560 G1 box; other site 1001585011561 GTP/Mg2+ binding site [chemical binding]; other site 1001585011562 Switch I region; other site 1001585011563 G2 box; other site 1001585011564 Switch II region; other site 1001585011565 G3 box; other site 1001585011566 G4 box; other site 1001585011567 G5 box; other site 1001585011568 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1001585011569 G1 box; other site 1001585011570 GTP/Mg2+ binding site [chemical binding]; other site 1001585011571 Switch I region; other site 1001585011572 G2 box; other site 1001585011573 G3 box; other site 1001585011574 Switch II region; other site 1001585011575 G4 box; other site 1001585011576 G5 box; other site 1001585011577 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 1001585011578 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 1001585011579 Trp docking motif [polypeptide binding]; other site 1001585011580 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1001585011581 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1001585011582 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1001585011583 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 1001585011584 dimer interface [polypeptide binding]; other site 1001585011585 motif 1; other site 1001585011586 active site 1001585011587 motif 2; other site 1001585011588 motif 3; other site 1001585011589 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 1001585011590 anticodon binding site; other site 1001585011591 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1001585011592 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1001585011593 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1001585011594 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1001585011595 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 1001585011596 non-specific DNA binding site [nucleotide binding]; other site 1001585011597 salt bridge; other site 1001585011598 sequence-specific DNA binding site [nucleotide binding]; other site 1001585011599 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1001585011600 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1001585011601 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 1001585011602 binding surface 1001585011603 TPR motif; other site 1001585011604 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 1001585011605 binding surface 1001585011606 TPR motif; other site 1001585011607 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1001585011608 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 1001585011609 FeS/SAM binding site; other site 1001585011610 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 1001585011611 active site 1001585011612 multimer interface [polypeptide binding]; other site 1001585011613 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 1001585011614 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1001585011615 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 1001585011616 catalytic loop [active] 1001585011617 iron binding site [ion binding]; other site 1001585011618 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1001585011619 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1001585011620 nucleotide binding site [chemical binding]; other site 1001585011621 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1001585011622 SBD interface [polypeptide binding]; other site 1001585011623 co-chaperone HscB; Provisional; Region: hscB; PRK00294 1001585011624 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 1001585011625 HSP70 interaction site [polypeptide binding]; other site 1001585011626 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 1001585011627 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1001585011628 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1001585011629 trimerization site [polypeptide binding]; other site 1001585011630 active site 1001585011631 cysteine desulfurase; Provisional; Region: PRK14012 1001585011632 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1001585011633 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1001585011634 catalytic residue [active] 1001585011635 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1001585011636 Rrf2 family protein; Region: rrf2_super; TIGR00738 1001585011637 serine O-acetyltransferase; Region: cysE; TIGR01172 1001585011638 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 1001585011639 trimer interface [polypeptide binding]; other site 1001585011640 active site 1001585011641 substrate binding site [chemical binding]; other site 1001585011642 CoA binding site [chemical binding]; other site 1001585011643 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1001585011644 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1001585011645 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1001585011646 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 1001585011647 active site 1001585011648 dimerization interface [polypeptide binding]; other site 1001585011649 hypothetical protein; Provisional; Region: PRK11280 1001585011650 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1001585011651 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1001585011652 Protein export membrane protein; Region: SecD_SecF; cl14618 1001585011653 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1001585011654 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1001585011655 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1001585011656 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1001585011657 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1001585011658 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1001585011659 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1001585011660 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1001585011661 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1001585011662 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1001585011663 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 1001585011664 substrate binding pocket [chemical binding]; other site 1001585011665 membrane-bound complex binding site; other site 1001585011666 hinge residues; other site 1001585011667 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 1001585011668 DNA-binding site [nucleotide binding]; DNA binding site 1001585011669 RNA-binding motif; other site 1001585011670 RDD family; Region: RDD; pfam06271 1001585011671 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1001585011672 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1001585011673 Predicted permeases [General function prediction only]; Region: COG0795 1001585011674 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1001585011675 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1001585011676 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 1001585011677 interface (dimer of trimers) [polypeptide binding]; other site 1001585011678 Substrate-binding/catalytic site; other site 1001585011679 Zn-binding sites [ion binding]; other site 1001585011680 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 1001585011681 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1001585011682 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1001585011683 HIGH motif; other site 1001585011684 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1001585011685 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1001585011686 active site 1001585011687 KMSKS motif; other site 1001585011688 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1001585011689 tRNA binding surface [nucleotide binding]; other site 1001585011690 anticodon binding site; other site 1001585011691 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1001585011692 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1001585011693 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1001585011694 NHAD transporter family protein; Provisional; Region: PLN00137 1001585011695 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; pfam09904 1001585011696 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 1001585011697 transmembrane helices; other site 1001585011698 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1001585011699 TrkA-C domain; Region: TrkA_C; pfam02080 1001585011700 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1001585011701 TrkA-C domain; Region: TrkA_C; pfam02080 1001585011702 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 1001585011703 Hemerythrin; Region: Hemerythrin; cd12107 1001585011704 Fe binding site [ion binding]; other site 1001585011705 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 1001585011706 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 1001585011707 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 1001585011708 transmembrane helices; other site 1001585011709 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1001585011710 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585011711 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 1001585011712 substrate binding pocket [chemical binding]; other site 1001585011713 membrane-bound complex binding site; other site 1001585011714 hinge residues; other site 1001585011715 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 1001585011716 Isochorismatase family; Region: Isochorismatase; pfam00857 1001585011717 catalytic triad [active] 1001585011718 dimer interface [polypeptide binding]; other site 1001585011719 conserved cis-peptide bond; other site 1001585011720 AAA domain; Region: AAA_23; pfam13476 1001585011721 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585011722 Walker A/P-loop; other site 1001585011723 ATP binding site [chemical binding]; other site 1001585011724 Q-loop/lid; other site 1001585011725 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585011726 ABC transporter signature motif; other site 1001585011727 Walker B; other site 1001585011728 D-loop; other site 1001585011729 H-loop/switch region; other site 1001585011730 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585011731 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585011732 metal binding site [ion binding]; metal-binding site 1001585011733 active site 1001585011734 I-site; other site 1001585011735 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1001585011736 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585011737 Coenzyme A binding pocket [chemical binding]; other site 1001585011738 exonuclease subunit SbcD; Provisional; Region: PRK10966 1001585011739 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1001585011740 active site 1001585011741 metal binding site [ion binding]; metal-binding site 1001585011742 DNA binding site [nucleotide binding] 1001585011743 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1001585011744 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 1001585011745 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 1001585011746 putative DNA binding site [nucleotide binding]; other site 1001585011747 putative Zn2+ binding site [ion binding]; other site 1001585011748 AsnC family; Region: AsnC_trans_reg; pfam01037 1001585011749 putative transporter; Provisional; Region: PRK11021 1001585011750 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1001585011751 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 1001585011752 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 1001585011753 Walker A motif; other site 1001585011754 ATP binding site [chemical binding]; other site 1001585011755 Walker B motif; other site 1001585011756 arginine finger; other site 1001585011757 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 1001585011758 Walker A motif; other site 1001585011759 ATP binding site [chemical binding]; other site 1001585011760 Walker B motif; other site 1001585011761 arginine finger; other site 1001585011762 Predicted transcriptional regulator [Transcription]; Region: COG2378 1001585011763 WYL domain; Region: WYL; pfam13280 1001585011764 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1001585011765 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1001585011766 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 1001585011767 catalytic residues [active] 1001585011768 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1001585011769 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 1001585011770 C-terminal domain interface [polypeptide binding]; other site 1001585011771 GSH binding site (G-site) [chemical binding]; other site 1001585011772 dimer interface [polypeptide binding]; other site 1001585011773 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1001585011774 substrate binding pocket (H-site) [chemical binding]; other site 1001585011775 N-terminal domain interface [polypeptide binding]; other site 1001585011776 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1001585011777 GIY-YIG motif/motif A; other site 1001585011778 putative active site [active] 1001585011779 putative metal binding site [ion binding]; other site 1001585011780 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1001585011781 SnoaL-like domain; Region: SnoaL_2; pfam12680 1001585011782 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1001585011783 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1001585011784 conserved cys residue [active] 1001585011785 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585011786 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585011787 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1001585011788 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1001585011789 Walker A/P-loop; other site 1001585011790 ATP binding site [chemical binding]; other site 1001585011791 Q-loop/lid; other site 1001585011792 ABC transporter signature motif; other site 1001585011793 Walker B; other site 1001585011794 D-loop; other site 1001585011795 H-loop/switch region; other site 1001585011796 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1001585011797 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585011798 dimer interface [polypeptide binding]; other site 1001585011799 conserved gate region; other site 1001585011800 putative PBP binding loops; other site 1001585011801 ABC-ATPase subunit interface; other site 1001585011802 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1001585011803 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585011804 conserved gate region; other site 1001585011805 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585011806 dimer interface [polypeptide binding]; other site 1001585011807 ABC-ATPase subunit interface; other site 1001585011808 putative PBP binding loops; other site 1001585011809 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1001585011810 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 1001585011811 substrate binding pocket [chemical binding]; other site 1001585011812 membrane-bound complex binding site; other site 1001585011813 hinge residues; other site 1001585011814 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1001585011815 Serine hydrolase (FSH1); Region: FSH1; pfam03959 1001585011816 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1001585011817 AMP-binding domain protein; Validated; Region: PRK07529 1001585011818 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1001585011819 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 1001585011820 acyl-activating enzyme (AAE) consensus motif; other site 1001585011821 putative AMP binding site [chemical binding]; other site 1001585011822 putative active site [active] 1001585011823 putative CoA binding site [chemical binding]; other site 1001585011824 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1001585011825 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 1001585011826 ligand binding site [chemical binding]; other site 1001585011827 flexible hinge region; other site 1001585011828 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585011829 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585011830 metal binding site [ion binding]; metal-binding site 1001585011831 active site 1001585011832 I-site; other site 1001585011833 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1001585011834 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 1001585011835 active site 1001585011836 dimer interface [polypeptide binding]; other site 1001585011837 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK01297 1001585011838 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 1001585011839 ATP binding site [chemical binding]; other site 1001585011840 Mg++ binding site [ion binding]; other site 1001585011841 motif III; other site 1001585011842 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 1001585011843 nucleotide binding region [chemical binding]; other site 1001585011844 ATP-binding site [chemical binding]; other site 1001585011845 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1001585011846 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1001585011847 hypothetical protein; Provisional; Region: PRK11469 1001585011848 Domain of unknown function DUF; Region: DUF204; pfam02659 1001585011849 Domain of unknown function DUF; Region: DUF204; pfam02659 1001585011850 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1001585011851 DNA polymerase II; Reviewed; Region: PRK05762 1001585011852 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 1001585011853 active site 1001585011854 catalytic site [active] 1001585011855 substrate binding site [chemical binding]; other site 1001585011856 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 1001585011857 active site 1001585011858 metal-binding site 1001585011859 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1001585011860 heme-binding site [chemical binding]; other site 1001585011861 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1001585011862 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1001585011863 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 1001585011864 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 1001585011865 S-adenosylmethionine binding site [chemical binding]; other site 1001585011866 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 1001585011867 GAF domain; Region: GAF; pfam01590 1001585011868 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 1001585011869 Walker A motif; other site 1001585011870 ATP binding site [chemical binding]; other site 1001585011871 Walker B motif; other site 1001585011872 arginine finger; other site 1001585011873 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1001585011874 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1001585011875 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 1001585011876 heme-binding site [chemical binding]; other site 1001585011877 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 1001585011878 FAD binding pocket [chemical binding]; other site 1001585011879 FAD binding motif [chemical binding]; other site 1001585011880 phosphate binding motif [ion binding]; other site 1001585011881 beta-alpha-beta structure motif; other site 1001585011882 NAD binding pocket [chemical binding]; other site 1001585011883 Heme binding pocket [chemical binding]; other site 1001585011884 NnrS protein; Region: NnrS; pfam05940 1001585011885 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1001585011886 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1001585011887 Coenzyme A binding pocket [chemical binding]; other site 1001585011888 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585011889 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585011890 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1001585011891 putative dimerization interface [polypeptide binding]; other site 1001585011892 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1001585011893 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 1001585011894 Citrate transporter; Region: CitMHS; pfam03600 1001585011895 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1001585011896 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1001585011897 NAD(P) binding pocket [chemical binding]; other site 1001585011898 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1001585011899 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1001585011900 dimer interface [polypeptide binding]; other site 1001585011901 active site 1001585011902 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1001585011903 catalytic residues [active] 1001585011904 substrate binding site [chemical binding]; other site 1001585011905 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 1001585011906 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1001585011907 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1001585011908 mce related protein; Region: MCE; pfam02470 1001585011909 mce related protein; Region: MCE; pfam02470 1001585011910 mce related protein; Region: MCE; pfam02470 1001585011911 mce related protein; Region: MCE; pfam02470 1001585011912 mce related protein; Region: MCE; pfam02470 1001585011913 mce related protein; Region: MCE; pfam02470 1001585011914 Paraquat-inducible protein A; Region: PqiA; pfam04403 1001585011915 Paraquat-inducible protein A; Region: PqiA; pfam04403 1001585011916 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1001585011917 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1001585011918 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 1001585011919 Moco binding site; other site 1001585011920 metal coordination site [ion binding]; other site 1001585011921 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1001585011922 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1001585011923 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1001585011924 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1001585011925 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1001585011926 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585011927 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 1001585011928 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 1001585011929 putative dimerization interface [polypeptide binding]; other site 1001585011930 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1001585011931 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1001585011932 putative valine binding site [chemical binding]; other site 1001585011933 dimer interface [polypeptide binding]; other site 1001585011934 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1001585011935 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 1001585011936 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1001585011937 PYR/PP interface [polypeptide binding]; other site 1001585011938 dimer interface [polypeptide binding]; other site 1001585011939 TPP binding site [chemical binding]; other site 1001585011940 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1001585011941 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 1001585011942 TPP-binding site [chemical binding]; other site 1001585011943 dimer interface [polypeptide binding]; other site 1001585011944 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1001585011945 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 1001585011946 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 1001585011947 TPR motif; other site 1001585011948 binding surface 1001585011949 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1001585011950 Transglycosylase; Region: Transgly; pfam00912 1001585011951 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1001585011952 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 1001585011953 AAA domain; Region: AAA_33; pfam13671 1001585011954 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 1001585011955 ATP-binding site [chemical binding]; other site 1001585011956 Gluconate-6-phosphate binding site [chemical binding]; other site 1001585011957 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1001585011958 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1001585011959 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1001585011960 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1001585011961 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 1001585011962 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1001585011963 ligand binding site [chemical binding]; other site 1001585011964 flexible hinge region; other site 1001585011965 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 1001585011966 Protein of unknown function, DUF399; Region: DUF399; pfam04187 1001585011967 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1001585011968 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1001585011969 Walker A/P-loop; other site 1001585011970 ATP binding site [chemical binding]; other site 1001585011971 Q-loop/lid; other site 1001585011972 ABC transporter signature motif; other site 1001585011973 Walker B; other site 1001585011974 D-loop; other site 1001585011975 H-loop/switch region; other site 1001585011976 FecCD transport family; Region: FecCD; pfam01032 1001585011977 ABC-ATPase subunit interface; other site 1001585011978 dimer interface [polypeptide binding]; other site 1001585011979 putative PBP binding regions; other site 1001585011980 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 1001585011981 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 1001585011982 intersubunit interface [polypeptide binding]; other site 1001585011983 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 1001585011984 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1001585011985 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1001585011986 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1001585011987 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 1001585011988 N-terminal plug; other site 1001585011989 ligand-binding site [chemical binding]; other site 1001585011990 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 1001585011991 iron-sulfur cluster [ion binding]; other site 1001585011992 [2Fe-2S] cluster binding site [ion binding]; other site 1001585011993 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1001585011994 hypothetical protein; Provisional; Region: PRK08960 1001585011995 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 1001585011996 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585011997 homodimer interface [polypeptide binding]; other site 1001585011998 catalytic residue [active] 1001585011999 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1001585012000 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1001585012001 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 1001585012002 active site 1001585012003 HIGH motif; other site 1001585012004 nucleotide binding site [chemical binding]; other site 1001585012005 KMSKS motif; other site 1001585012006 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1001585012007 Na binding site [ion binding]; other site 1001585012008 PAS domain; Region: PAS; smart00091 1001585012009 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585012010 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 1001585012011 dimer interface [polypeptide binding]; other site 1001585012012 phosphorylation site [posttranslational modification] 1001585012013 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585012014 ATP binding site [chemical binding]; other site 1001585012015 Mg2+ binding site [ion binding]; other site 1001585012016 G-X-G motif; other site 1001585012017 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1001585012018 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585012019 active site 1001585012020 phosphorylation site [posttranslational modification] 1001585012021 intermolecular recognition site; other site 1001585012022 dimerization interface [polypeptide binding]; other site 1001585012023 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 1001585012024 Walker A motif; other site 1001585012025 ATP binding site [chemical binding]; other site 1001585012026 Walker B motif; other site 1001585012027 arginine finger; other site 1001585012028 poly(A) polymerase; Region: pcnB; TIGR01942 1001585012029 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1001585012030 active site 1001585012031 NTP binding site [chemical binding]; other site 1001585012032 metal binding triad [ion binding]; metal-binding site 1001585012033 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1001585012034 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1001585012035 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 1001585012036 catalytic center binding site [active] 1001585012037 ATP binding site [chemical binding]; other site 1001585012038 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 1001585012039 oligomerization interface [polypeptide binding]; other site 1001585012040 active site 1001585012041 metal binding site [ion binding]; metal-binding site 1001585012042 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1001585012043 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1001585012044 active site 1001585012045 ATP-binding site [chemical binding]; other site 1001585012046 pantoate-binding site; other site 1001585012047 HXXH motif; other site 1001585012048 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1001585012049 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 1001585012050 active site 1001585012051 dimer interface [polypeptide binding]; other site 1001585012052 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1001585012053 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 1001585012054 dimer interface [polypeptide binding]; other site 1001585012055 active site 1001585012056 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1001585012057 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1001585012058 conserved cys residue [active] 1001585012059 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585012060 DJ-1 family protein; Region: not_thiJ; TIGR01383 1001585012061 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1001585012062 conserved cys residue [active] 1001585012063 acetyl-CoA synthetase; Provisional; Region: PRK00174 1001585012064 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1001585012065 active site 1001585012066 CoA binding site [chemical binding]; other site 1001585012067 acyl-activating enzyme (AAE) consensus motif; other site 1001585012068 AMP binding site [chemical binding]; other site 1001585012069 acetate binding site [chemical binding]; other site 1001585012070 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 1001585012071 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1001585012072 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1001585012073 putative RNA binding site [nucleotide binding]; other site 1001585012074 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1001585012075 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1001585012076 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1001585012077 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1001585012078 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1001585012079 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 1001585012080 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 1001585012081 CsbD-like; Region: CsbD; cl17424 1001585012082 BON domain; Region: BON; pfam04972 1001585012083 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1001585012084 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1001585012085 RNase E interface [polypeptide binding]; other site 1001585012086 trimer interface [polypeptide binding]; other site 1001585012087 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1001585012088 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1001585012089 RNase E interface [polypeptide binding]; other site 1001585012090 trimer interface [polypeptide binding]; other site 1001585012091 active site 1001585012092 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 1001585012093 putative nucleic acid binding region [nucleotide binding]; other site 1001585012094 G-X-X-G motif; other site 1001585012095 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 1001585012096 RNA binding site [nucleotide binding]; other site 1001585012097 domain interface; other site 1001585012098 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 1001585012099 16S/18S rRNA binding site [nucleotide binding]; other site 1001585012100 S13e-L30e interaction site [polypeptide binding]; other site 1001585012101 25S rRNA binding site [nucleotide binding]; other site 1001585012102 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1001585012103 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1001585012104 RNA binding site [nucleotide binding]; other site 1001585012105 active site 1001585012106 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1001585012107 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1001585012108 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1001585012109 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1001585012110 translation initiation factor IF-2; Region: IF-2; TIGR00487 1001585012111 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1001585012112 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1001585012113 G1 box; other site 1001585012114 putative GEF interaction site [polypeptide binding]; other site 1001585012115 GTP/Mg2+ binding site [chemical binding]; other site 1001585012116 Switch I region; other site 1001585012117 G2 box; other site 1001585012118 G3 box; other site 1001585012119 Switch II region; other site 1001585012120 G4 box; other site 1001585012121 G5 box; other site 1001585012122 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 1001585012123 Translation-initiation factor 2; Region: IF-2; pfam11987 1001585012124 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 1001585012125 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1001585012126 NusA N-terminal domain; Region: NusA_N; pfam08529 1001585012127 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 1001585012128 RNA binding site [nucleotide binding]; other site 1001585012129 homodimer interface [polypeptide binding]; other site 1001585012130 NusA-like KH domain; Region: KH_5; pfam13184 1001585012131 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 1001585012132 G-X-X-G motif; other site 1001585012133 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1001585012134 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1001585012135 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1001585012136 Sm and related proteins; Region: Sm_like; cl00259 1001585012137 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1001585012138 putative oligomer interface [polypeptide binding]; other site 1001585012139 putative RNA binding site [nucleotide binding]; other site 1001585012140 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 1001585012141 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 1001585012142 triosephosphate isomerase; Provisional; Region: PRK14567 1001585012143 substrate binding site [chemical binding]; other site 1001585012144 dimer interface [polypeptide binding]; other site 1001585012145 catalytic triad [active] 1001585012146 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1001585012147 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 1001585012148 active site 1001585012149 substrate binding site [chemical binding]; other site 1001585012150 metal binding site [ion binding]; metal-binding site 1001585012151 dihydropteroate synthase; Region: DHPS; TIGR01496 1001585012152 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 1001585012153 substrate binding pocket [chemical binding]; other site 1001585012154 dimer interface [polypeptide binding]; other site 1001585012155 inhibitor binding site; inhibition site 1001585012156 FtsH Extracellular; Region: FtsH_ext; pfam06480 1001585012157 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1001585012158 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 1001585012159 Walker A motif; other site 1001585012160 ATP binding site [chemical binding]; other site 1001585012161 Walker B motif; other site 1001585012162 arginine finger; other site 1001585012163 Peptidase family M41; Region: Peptidase_M41; pfam01434 1001585012164 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1001585012165 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 1001585012166 S-adenosylmethionine binding site [chemical binding]; other site 1001585012167 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 1001585012168 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1001585012169 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1001585012170 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1001585012171 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1001585012172 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1001585012173 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1001585012174 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1001585012175 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1001585012176 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1001585012177 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 1001585012178 IMP binding site; other site 1001585012179 dimer interface [polypeptide binding]; other site 1001585012180 interdomain contacts; other site 1001585012181 partial ornithine binding site; other site 1001585012182 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1001585012183 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1001585012184 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1001585012185 catalytic site [active] 1001585012186 subunit interface [polypeptide binding]; other site 1001585012187 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1001585012188 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1001585012189 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1001585012190 chaperone protein DnaJ; Provisional; Region: PRK10767 1001585012191 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 1001585012192 HSP70 interaction site [polypeptide binding]; other site 1001585012193 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1001585012194 substrate binding site [polypeptide binding]; other site 1001585012195 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1001585012196 Zn binding sites [ion binding]; other site 1001585012197 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1001585012198 dimer interface [polypeptide binding]; other site 1001585012199 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1001585012200 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1001585012201 nucleotide binding site [chemical binding]; other site 1001585012202 NEF interaction site [polypeptide binding]; other site 1001585012203 SBD interface [polypeptide binding]; other site 1001585012204 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 1001585012205 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 1001585012206 dimer interface [polypeptide binding]; other site 1001585012207 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1001585012208 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1001585012209 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1001585012210 Walker A/P-loop; other site 1001585012211 ATP binding site [chemical binding]; other site 1001585012212 Q-loop/lid; other site 1001585012213 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1001585012214 ABC transporter signature motif; other site 1001585012215 Walker B; other site 1001585012216 D-loop; other site 1001585012217 H-loop/switch region; other site 1001585012218 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1001585012219 metal binding site 2 [ion binding]; metal-binding site 1001585012220 putative DNA binding helix; other site 1001585012221 metal binding site 1 [ion binding]; metal-binding site 1001585012222 dimer interface [polypeptide binding]; other site 1001585012223 structural Zn2+ binding site [ion binding]; other site 1001585012224 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1001585012225 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1001585012226 RnfH family Ubiquitin; Region: Ub-RnfH; pfam03658 1001585012227 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1001585012228 putative coenzyme Q binding site [chemical binding]; other site 1001585012229 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1001585012230 Na2 binding site [ion binding]; other site 1001585012231 putative substrate binding site 1 [chemical binding]; other site 1001585012232 Na binding site 1 [ion binding]; other site 1001585012233 putative substrate binding site 2 [chemical binding]; other site 1001585012234 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 1001585012235 SmpB-tmRNA interface; other site 1001585012236 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 1001585012237 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585012238 DNA-binding site [nucleotide binding]; DNA binding site 1001585012239 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1001585012240 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1001585012241 L-lactate permease; Region: Lactate_perm; cl00701 1001585012242 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1001585012243 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 1001585012244 phosphate binding site [ion binding]; other site 1001585012245 D-lactate dehydrogenase; Provisional; Region: PRK11183 1001585012246 FAD binding domain; Region: FAD_binding_4; pfam01565 1001585012247 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1001585012248 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1001585012249 Clp amino terminal domain; Region: Clp_N; pfam02861 1001585012250 Clp amino terminal domain; Region: Clp_N; pfam02861 1001585012251 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 1001585012252 Walker A motif; other site 1001585012253 ATP binding site [chemical binding]; other site 1001585012254 Walker B motif; other site 1001585012255 arginine finger; other site 1001585012256 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 1001585012257 Walker A motif; other site 1001585012258 ATP binding site [chemical binding]; other site 1001585012259 Walker B motif; other site 1001585012260 arginine finger; other site 1001585012261 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1001585012262 Nitroreductase family; Region: Nitroreductase; pfam00881 1001585012263 FMN binding site [chemical binding]; other site 1001585012264 dimer interface [polypeptide binding]; other site 1001585012265 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 1001585012266 catalytic residues [active] 1001585012267 dimer interface [polypeptide binding]; other site 1001585012268 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1001585012269 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1001585012270 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1001585012271 propionate/acetate kinase; Provisional; Region: PRK12379 1001585012272 phosphate acetyltransferase; Reviewed; Region: PRK05632 1001585012273 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1001585012274 DRTGG domain; Region: DRTGG; pfam07085 1001585012275 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 1001585012276 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1001585012277 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1001585012278 putative acyl-acceptor binding pocket; other site 1001585012279 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585012280 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585012281 active site 1001585012282 phosphorylation site [posttranslational modification] 1001585012283 intermolecular recognition site; other site 1001585012284 dimerization interface [polypeptide binding]; other site 1001585012285 PAS domain; Region: PAS; smart00091 1001585012286 PAS domain; Region: PAS_9; pfam13426 1001585012287 putative active site [active] 1001585012288 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585012289 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585012290 metal binding site [ion binding]; metal-binding site 1001585012291 active site 1001585012292 I-site; other site 1001585012293 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 1001585012294 CHASE domain; Region: CHASE; pfam03924 1001585012295 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1001585012296 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 1001585012297 putative active site [active] 1001585012298 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585012299 heme pocket [chemical binding]; other site 1001585012300 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 1001585012301 dimer interface [polypeptide binding]; other site 1001585012302 phosphorylation site [posttranslational modification] 1001585012303 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585012304 ATP binding site [chemical binding]; other site 1001585012305 Mg2+ binding site [ion binding]; other site 1001585012306 G-X-G motif; other site 1001585012307 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585012308 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585012309 active site 1001585012310 phosphorylation site [posttranslational modification] 1001585012311 intermolecular recognition site; other site 1001585012312 dimerization interface [polypeptide binding]; other site 1001585012313 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585012314 phosphorylation site [posttranslational modification] 1001585012315 intermolecular recognition site; other site 1001585012316 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585012317 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585012318 active site 1001585012319 phosphorylation site [posttranslational modification] 1001585012320 intermolecular recognition site; other site 1001585012321 dimerization interface [polypeptide binding]; other site 1001585012322 putative outer membrane lipoprotein; Provisional; Region: PRK10510 1001585012323 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585012324 ligand binding site [chemical binding]; other site 1001585012325 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1001585012326 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585012327 ligand binding site [chemical binding]; other site 1001585012328 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1001585012329 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585012330 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585012331 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585012332 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1001585012333 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1001585012334 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1001585012335 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 1001585012336 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585012337 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1001585012338 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1001585012339 AAA ATPase domain; Region: AAA_16; pfam13191 1001585012340 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 1001585012341 DNA binding residues [nucleotide binding] 1001585012342 dimerization interface [polypeptide binding]; other site 1001585012343 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1001585012344 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1001585012345 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1001585012346 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1001585012347 dimer interface [polypeptide binding]; other site 1001585012348 acyl-activating enzyme (AAE) consensus motif; other site 1001585012349 putative active site [active] 1001585012350 AMP binding site [chemical binding]; other site 1001585012351 putative CoA binding site [chemical binding]; other site 1001585012352 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1001585012353 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 1001585012354 dimer interface [polypeptide binding]; other site 1001585012355 active site 1001585012356 LysE type translocator; Region: LysE; cl00565 1001585012357 glycerate dehydrogenase; Provisional; Region: PRK06487 1001585012358 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1001585012359 putative ligand binding site [chemical binding]; other site 1001585012360 putative NAD binding site [chemical binding]; other site 1001585012361 catalytic site [active] 1001585012362 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1001585012363 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1001585012364 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 1001585012365 S-adenosylmethionine binding site [chemical binding]; other site 1001585012366 Predicted membrane protein [Function unknown]; Region: COG2119 1001585012367 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1001585012368 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1001585012369 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 1001585012370 Peptidase family M48; Region: Peptidase_M48; pfam01435 1001585012371 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 1001585012372 dimerization interface [polypeptide binding]; other site 1001585012373 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585012374 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585012375 dimer interface [polypeptide binding]; other site 1001585012376 putative CheW interface [polypeptide binding]; other site 1001585012377 Uncharacterized conserved protein [Function unknown]; Region: COG2135 1001585012378 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1001585012379 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 1001585012380 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1001585012381 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1001585012382 putative acyl-acceptor binding pocket; other site 1001585012383 malate:quinone oxidoreductase; Reviewed; Region: PRK13339 1001585012384 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1001585012385 CreA protein; Region: CreA; pfam05981 1001585012386 gamma-glutamyl kinase; Provisional; Region: PRK05429 1001585012387 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 1001585012388 nucleotide binding site [chemical binding]; other site 1001585012389 homotetrameric interface [polypeptide binding]; other site 1001585012390 putative phosphate binding site [ion binding]; other site 1001585012391 putative allosteric binding site; other site 1001585012392 PUA domain; Region: PUA; pfam01472 1001585012393 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1001585012394 GTP1/OBG; Region: GTP1_OBG; pfam01018 1001585012395 Obg GTPase; Region: Obg; cd01898 1001585012396 G1 box; other site 1001585012397 GTP/Mg2+ binding site [chemical binding]; other site 1001585012398 Switch I region; other site 1001585012399 G2 box; other site 1001585012400 G3 box; other site 1001585012401 Switch II region; other site 1001585012402 G4 box; other site 1001585012403 G5 box; other site 1001585012404 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1001585012405 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1001585012406 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1001585012407 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1001585012408 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1001585012409 substrate binding pocket [chemical binding]; other site 1001585012410 chain length determination region; other site 1001585012411 substrate-Mg2+ binding site; other site 1001585012412 catalytic residues [active] 1001585012413 aspartate-rich region 1; other site 1001585012414 active site lid residues [active] 1001585012415 aspartate-rich region 2; other site 1001585012416 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1001585012417 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585012418 NAD(P) binding site [chemical binding]; other site 1001585012419 active site 1001585012420 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1001585012421 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 1001585012422 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 1001585012423 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 1001585012424 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 1001585012425 oligomerisation interface [polypeptide binding]; other site 1001585012426 mobile loop; other site 1001585012427 roof hairpin; other site 1001585012428 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1001585012429 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 1001585012430 ring oligomerisation interface [polypeptide binding]; other site 1001585012431 ATP/Mg binding site [chemical binding]; other site 1001585012432 stacking interactions; other site 1001585012433 hinge regions; other site 1001585012434 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1001585012435 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1001585012436 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 1001585012437 active site clefts [active] 1001585012438 zinc binding site [ion binding]; other site 1001585012439 dimer interface [polypeptide binding]; other site 1001585012440 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1001585012441 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1001585012442 STAS domain; Region: STAS_2; pfam13466 1001585012443 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 1001585012444 putative metal binding site [ion binding]; other site 1001585012445 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1001585012446 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 1001585012447 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 1001585012448 Phospholipid methyltransferase; Region: PEMT; cl17370 1001585012449 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1001585012450 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1001585012451 tetrameric interface [polypeptide binding]; other site 1001585012452 NAD binding site [chemical binding]; other site 1001585012453 catalytic residues [active] 1001585012454 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1001585012455 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 1001585012456 inhibitor-cofactor binding pocket; inhibition site 1001585012457 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585012458 catalytic residue [active] 1001585012459 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585012460 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585012461 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 1001585012462 dimerization interface [polypeptide binding]; other site 1001585012463 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 1001585012464 dimerization interface [polypeptide binding]; other site 1001585012465 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585012466 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585012467 dimer interface [polypeptide binding]; other site 1001585012468 putative CheW interface [polypeptide binding]; other site 1001585012469 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585012470 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1001585012471 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1001585012472 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1001585012473 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1001585012474 Bacterial protein of unknown function (DUF922); Region: DUF922; cl02415 1001585012475 short chain dehydrogenase; Provisional; Region: PRK08177 1001585012476 NAD(P) binding site [chemical binding]; other site 1001585012477 active site 1001585012478 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1001585012479 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585012480 Coenzyme A binding pocket [chemical binding]; other site 1001585012481 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 1001585012482 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1001585012483 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1001585012484 Walker A/P-loop; other site 1001585012485 ATP binding site [chemical binding]; other site 1001585012486 Q-loop/lid; other site 1001585012487 ABC transporter signature motif; other site 1001585012488 Walker B; other site 1001585012489 D-loop; other site 1001585012490 H-loop/switch region; other site 1001585012491 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1001585012492 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1001585012493 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 1001585012494 TM-ABC transporter signature motif; other site 1001585012495 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1001585012496 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 1001585012497 TM-ABC transporter signature motif; other site 1001585012498 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1001585012499 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1001585012500 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1001585012501 DNA binding residues [nucleotide binding] 1001585012502 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 1001585012503 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 1001585012504 active site 1001585012505 putative substrate binding pocket [chemical binding]; other site 1001585012506 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1001585012507 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 1001585012508 putative ligand binding site [chemical binding]; other site 1001585012509 oxidase reductase; Provisional; Region: PTZ00273 1001585012510 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1001585012511 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1001585012512 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1001585012513 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 1001585012514 active site 1001585012515 purine riboside binding site [chemical binding]; other site 1001585012516 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 1001585012517 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1001585012518 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1001585012519 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 1001585012520 N-terminal plug; other site 1001585012521 ligand-binding site [chemical binding]; other site 1001585012522 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1001585012523 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1001585012524 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1001585012525 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1001585012526 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1001585012527 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1001585012528 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1001585012529 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585012530 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585012531 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 1001585012532 putative effector binding pocket; other site 1001585012533 dimerization interface [polypeptide binding]; other site 1001585012534 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1001585012535 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1001585012536 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1001585012537 putative NAD(P) binding site [chemical binding]; other site 1001585012538 dimer interface [polypeptide binding]; other site 1001585012539 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1001585012540 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585012541 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1001585012542 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 1001585012543 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1001585012544 HlyD family secretion protein; Region: HlyD_3; pfam13437 1001585012545 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1001585012546 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1001585012547 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1001585012548 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 1001585012549 active site 1001585012550 motif I; other site 1001585012551 motif II; other site 1001585012552 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1001585012553 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 1001585012554 active site 1001585012555 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 1001585012556 catalytic triad [active] 1001585012557 dimer interface [polypeptide binding]; other site 1001585012558 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 1001585012559 NADPH bind site [chemical binding]; other site 1001585012560 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 1001585012561 putative FMN binding site [chemical binding]; other site 1001585012562 NADPH bind site [chemical binding]; other site 1001585012563 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1001585012564 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 1001585012565 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1001585012566 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1001585012567 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 1001585012568 putative active site [active] 1001585012569 Zn binding site [ion binding]; other site 1001585012570 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1001585012571 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1001585012572 catalytic residue [active] 1001585012573 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1001585012574 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 1001585012575 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585012576 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585012577 active site 1001585012578 phosphorylation site [posttranslational modification] 1001585012579 intermolecular recognition site; other site 1001585012580 dimerization interface [polypeptide binding]; other site 1001585012581 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1001585012582 PAS fold; Region: PAS_4; pfam08448 1001585012583 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 1001585012584 putative active site [active] 1001585012585 heme pocket [chemical binding]; other site 1001585012586 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1001585012587 active site 1001585012588 metal binding site [ion binding]; metal-binding site 1001585012589 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1001585012590 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 1001585012591 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1001585012592 ATP binding site [chemical binding]; other site 1001585012593 Mg++ binding site [ion binding]; other site 1001585012594 motif III; other site 1001585012595 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 1001585012596 nucleotide binding region [chemical binding]; other site 1001585012597 ATP-binding site [chemical binding]; other site 1001585012598 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1001585012599 active site 1001585012600 catalytic site [active] 1001585012601 substrate binding site [chemical binding]; other site 1001585012602 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1001585012603 LabA_like proteins; Region: LabA; cd10911 1001585012604 putative metal binding site [ion binding]; other site 1001585012605 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 1001585012606 putative deacylase active site [active] 1001585012607 Uncharacterized protein family (UPF0259); Region: UPF0259; cl11642 1001585012608 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1001585012609 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 1001585012610 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585012611 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 1001585012612 substrate binding pocket [chemical binding]; other site 1001585012613 membrane-bound complex binding site; other site 1001585012614 short chain dehydrogenase; Provisional; Region: PRK06181 1001585012615 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585012616 NAD(P) binding site [chemical binding]; other site 1001585012617 active site 1001585012618 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1001585012619 putative catalytic site [active] 1001585012620 putative metal binding site [ion binding]; other site 1001585012621 putative catalytic site [active] 1001585012622 putative phosphate binding site [ion binding]; other site 1001585012623 putative phosphate binding site [ion binding]; other site 1001585012624 putative metal binding site [ion binding]; other site 1001585012625 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585012626 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 1001585012627 substrate binding pocket [chemical binding]; other site 1001585012628 membrane-bound complex binding site; other site 1001585012629 hinge residues; other site 1001585012630 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1001585012631 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 1001585012632 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1001585012633 catalytic residues [active] 1001585012634 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 1001585012635 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 1001585012636 ATP binding site [chemical binding]; other site 1001585012637 putative Mg++ binding site [ion binding]; other site 1001585012638 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 1001585012639 nucleotide binding region [chemical binding]; other site 1001585012640 ATP-binding site [chemical binding]; other site 1001585012641 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1001585012642 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1001585012643 Cation efflux family; Region: Cation_efflux; cl00316 1001585012644 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1001585012645 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 1001585012646 putative DNA binding site [nucleotide binding]; other site 1001585012647 putative Zn2+ binding site [ion binding]; other site 1001585012648 AsnC family; Region: AsnC_trans_reg; pfam01037 1001585012649 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 1001585012650 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1001585012651 heme-binding site [chemical binding]; other site 1001585012652 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1001585012653 pseudouridine synthase; Region: TIGR00093 1001585012654 active site 1001585012655 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1001585012656 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1001585012657 putative NAD(P) binding site [chemical binding]; other site 1001585012658 putative substrate binding site [chemical binding]; other site 1001585012659 catalytic Zn binding site [ion binding]; other site 1001585012660 structural Zn binding site [ion binding]; other site 1001585012661 dimer interface [polypeptide binding]; other site 1001585012662 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1001585012663 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585012664 Coenzyme A binding pocket [chemical binding]; other site 1001585012665 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 1001585012666 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585012667 DNA-binding site [nucleotide binding]; DNA binding site 1001585012668 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 1001585012669 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585012670 homodimer interface [polypeptide binding]; other site 1001585012671 catalytic residue [active] 1001585012672 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1001585012673 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 1001585012674 tetramer interface [polypeptide binding]; other site 1001585012675 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585012676 catalytic residue [active] 1001585012677 AMP nucleosidase; Provisional; Region: PRK08292 1001585012678 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1001585012679 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1001585012680 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 1001585012681 CoenzymeA binding site [chemical binding]; other site 1001585012682 subunit interaction site [polypeptide binding]; other site 1001585012683 PHB binding site; other site 1001585012684 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1001585012685 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585012686 active site 1001585012687 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585012688 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585012689 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1001585012690 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1001585012691 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585012692 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 1001585012693 dimer interface [polypeptide binding]; other site 1001585012694 phosphorylation site [posttranslational modification] 1001585012695 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585012696 ATP binding site [chemical binding]; other site 1001585012697 Mg2+ binding site [ion binding]; other site 1001585012698 G-X-G motif; other site 1001585012699 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585012700 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585012701 active site 1001585012702 phosphorylation site [posttranslational modification] 1001585012703 intermolecular recognition site; other site 1001585012704 dimerization interface [polypeptide binding]; other site 1001585012705 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 1001585012706 substrate binding site [chemical binding]; other site 1001585012707 dimer interface [polypeptide binding]; other site 1001585012708 ATP binding site [chemical binding]; other site 1001585012709 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 1001585012710 thiamine phosphate binding site [chemical binding]; other site 1001585012711 active site 1001585012712 pyrophosphate binding site [ion binding]; other site 1001585012713 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1001585012714 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 1001585012715 inhibitor-cofactor binding pocket; inhibition site 1001585012716 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585012717 catalytic residue [active] 1001585012718 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1001585012719 Sel1-like repeats; Region: SEL1; smart00671 1001585012720 Sel1-like repeats; Region: SEL1; smart00671 1001585012721 Domain of unknown function (DUF1820); Region: DUF1820; cl11545 1001585012722 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1001585012723 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1001585012724 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 1001585012725 FeS/SAM binding site; other site 1001585012726 TRAM domain; Region: TRAM; pfam01938 1001585012727 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1001585012728 PhoH-like protein; Region: PhoH; pfam02562 1001585012729 metal-binding heat shock protein; Provisional; Region: PRK00016 1001585012730 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1001585012731 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 1001585012732 Transporter associated domain; Region: CorC_HlyC; smart01091 1001585012733 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1001585012734 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1001585012735 putative active site [active] 1001585012736 catalytic triad [active] 1001585012737 putative dimer interface [polypeptide binding]; other site 1001585012738 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 1001585012739 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1001585012740 putative active site [active] 1001585012741 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1001585012742 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1001585012743 HIGH motif; other site 1001585012744 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1001585012745 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1001585012746 active site 1001585012747 KMSKS motif; other site 1001585012748 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1001585012749 tRNA binding surface [nucleotide binding]; other site 1001585012750 Lipopolysaccharide-assembly; Region: LptE; cl01125 1001585012751 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1001585012752 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1001585012753 Domain of unknown function; Region: DUF331; cl01149 1001585012754 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1001585012755 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 1001585012756 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1001585012757 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1001585012758 lipoyl synthase; Provisional; Region: PRK05481 1001585012759 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 1001585012760 FeS/SAM binding site; other site 1001585012761 lipoate-protein ligase B; Provisional; Region: PRK14342 1001585012762 hypothetical protein; Provisional; Region: PRK00341 1001585012763 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1001585012764 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1001585012765 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1001585012766 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1001585012767 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1001585012768 Sporulation related domain; Region: SPOR; pfam05036 1001585012769 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1001585012770 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 1001585012771 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1001585012772 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1001585012773 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1001585012774 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1001585012775 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1001585012776 Uncharacterized conserved protein [Function unknown]; Region: COG1576 1001585012777 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1001585012778 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1001585012779 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1001585012780 active site 1001585012781 (T/H)XGH motif; other site 1001585012782 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1001585012783 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1001585012784 putative catalytic cysteine [active] 1001585012785 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585012786 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 1001585012787 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 1001585012788 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1001585012789 active site 1001585012790 DNA binding site [nucleotide binding] 1001585012791 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1001585012792 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1001585012793 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 1001585012794 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1001585012795 active site 1001585012796 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1001585012797 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1001585012798 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 1001585012799 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 1001585012800 putative active site [active] 1001585012801 putative catalytic site [active] 1001585012802 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1001585012803 MORN repeat; Region: MORN; cl14787 1001585012804 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1001585012805 Peptidase C13 family; Region: Peptidase_C13; cl02159 1001585012806 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1001585012807 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1001585012808 NAD binding site [chemical binding]; other site 1001585012809 active site 1001585012810 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1001585012811 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 1001585012812 S-adenosylmethionine binding site [chemical binding]; other site 1001585012813 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1001585012814 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585012815 active site 1001585012816 phosphorylation site [posttranslational modification] 1001585012817 intermolecular recognition site; other site 1001585012818 dimerization interface [polypeptide binding]; other site 1001585012819 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 1001585012820 DNA binding residues [nucleotide binding] 1001585012821 dimerization interface [polypeptide binding]; other site 1001585012822 PAS domain S-box; Region: sensory_box; TIGR00229 1001585012823 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 1001585012824 putative active site [active] 1001585012825 heme pocket [chemical binding]; other site 1001585012826 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 1001585012827 dimer interface [polypeptide binding]; other site 1001585012828 phosphorylation site [posttranslational modification] 1001585012829 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585012830 ATP binding site [chemical binding]; other site 1001585012831 G-X-G motif; other site 1001585012832 acyl-CoA synthetase; Validated; Region: PRK08162 1001585012833 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 1001585012834 acyl-activating enzyme (AAE) consensus motif; other site 1001585012835 putative active site [active] 1001585012836 AMP binding site [chemical binding]; other site 1001585012837 putative CoA binding site [chemical binding]; other site 1001585012838 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1001585012839 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1001585012840 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585012841 active site 1001585012842 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1001585012843 putative acyltransferase; Provisional; Region: PRK05790 1001585012844 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 1001585012845 dimer interface [polypeptide binding]; other site 1001585012846 active site 1001585012847 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1001585012848 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 1001585012849 putative deacylase active site [active] 1001585012850 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5645 1001585012851 aromatic acid decarboxylase; Validated; Region: PRK05920 1001585012852 Flavoprotein; Region: Flavoprotein; pfam02441 1001585012853 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1001585012854 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1001585012855 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1001585012856 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1001585012857 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585012858 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1001585012859 Coenzyme A binding pocket [chemical binding]; other site 1001585012860 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 1001585012861 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 1001585012862 dimer interface [polypeptide binding]; other site 1001585012863 substrate binding site [chemical binding]; other site 1001585012864 metal binding sites [ion binding]; metal-binding site 1001585012865 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1001585012866 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1001585012867 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 1001585012868 dimerization interface [polypeptide binding]; other site 1001585012869 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585012870 dimer interface [polypeptide binding]; other site 1001585012871 putative CheW interface [polypeptide binding]; other site 1001585012872 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1001585012873 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1001585012874 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 1001585012875 S-adenosylmethionine binding site [chemical binding]; other site 1001585012876 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 1001585012877 binding surface 1001585012878 TPR motif; other site 1001585012879 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1001585012880 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 1001585012881 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1001585012882 putative binding surface; other site 1001585012883 active site 1001585012884 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585012885 ATP binding site [chemical binding]; other site 1001585012886 Mg2+ binding site [ion binding]; other site 1001585012887 G-X-G motif; other site 1001585012888 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 1001585012889 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585012890 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585012891 active site 1001585012892 phosphorylation site [posttranslational modification] 1001585012893 intermolecular recognition site; other site 1001585012894 dimerization interface [polypeptide binding]; other site 1001585012895 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 1001585012896 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 1001585012897 active site 1001585012898 phosphorylation site [posttranslational modification] 1001585012899 intermolecular recognition site; other site 1001585012900 dimerization interface [polypeptide binding]; other site 1001585012901 CheB methylesterase; Region: CheB_methylest; pfam01339 1001585012902 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585012903 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585012904 active site 1001585012905 phosphorylation site [posttranslational modification] 1001585012906 intermolecular recognition site; other site 1001585012907 dimerization interface [polypeptide binding]; other site 1001585012908 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585012909 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585012910 metal binding site [ion binding]; metal-binding site 1001585012911 active site 1001585012912 I-site; other site 1001585012913 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 1001585012914 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1001585012915 active site 1001585012916 trimer interface [polypeptide binding]; other site 1001585012917 dimer interface [polypeptide binding]; other site 1001585012918 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 1001585012919 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1001585012920 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1001585012921 shikimate binding site; other site 1001585012922 NAD(P) binding site [chemical binding]; other site 1001585012923 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585012924 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585012925 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1001585012926 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 1001585012927 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1001585012928 dimer interface [polypeptide binding]; other site 1001585012929 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1001585012930 active site 1001585012931 Fe binding site [ion binding]; other site 1001585012932 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1001585012933 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1001585012934 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1001585012935 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1001585012936 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1001585012937 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1001585012938 Bacterial transcriptional regulator; Region: IclR; pfam01614 1001585012939 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1001585012940 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 1001585012941 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1001585012942 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585012943 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 1001585012944 dimerization interface [polypeptide binding]; other site 1001585012945 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585012946 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585012947 dimer interface [polypeptide binding]; other site 1001585012948 putative CheW interface [polypeptide binding]; other site 1001585012949 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 1001585012950 L-aspartate oxidase; Provisional; Region: PRK06175 1001585012951 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1001585012952 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 1001585012953 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1001585012954 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 1001585012955 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1001585012956 tetramer interface [polypeptide binding]; other site 1001585012957 active site 1001585012958 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1001585012959 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 1001585012960 dimer interface [polypeptide binding]; other site 1001585012961 active site 1001585012962 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 1001585012963 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1001585012964 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585012965 dimer interface [polypeptide binding]; other site 1001585012966 putative CheW interface [polypeptide binding]; other site 1001585012967 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585012968 Benzoate membrane transport protein; Region: BenE; pfam03594 1001585012969 benzoate transporter; Region: benE; TIGR00843 1001585012970 benzoate transport; Region: 2A0115; TIGR00895 1001585012971 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 1001585012972 putative substrate translocation pore; other site 1001585012973 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 1001585012974 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 1001585012975 putative NAD(P) binding site [chemical binding]; other site 1001585012976 active site 1001585012977 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 1001585012978 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 1001585012979 catalytic loop [active] 1001585012980 iron binding site [ion binding]; other site 1001585012981 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 1001585012982 FAD binding pocket [chemical binding]; other site 1001585012983 FAD binding motif [chemical binding]; other site 1001585012984 phosphate binding motif [ion binding]; other site 1001585012985 beta-alpha-beta structure motif; other site 1001585012986 NAD binding pocket [chemical binding]; other site 1001585012987 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 1001585012988 inter-subunit interface; other site 1001585012989 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 1001585012990 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 1001585012991 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 1001585012992 putative alpha subunit interface [polypeptide binding]; other site 1001585012993 putative active site [active] 1001585012994 putative substrate binding site [chemical binding]; other site 1001585012995 Fe binding site [ion binding]; other site 1001585012996 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1001585012997 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585012998 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585012999 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585013000 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1001585013001 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1001585013002 Bacterial transcriptional regulator; Region: IclR; pfam01614 1001585013003 Predicted permeases [General function prediction only]; Region: COG0679 1001585013004 Predicted ATPase [General function prediction only]; Region: COG1485 1001585013005 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1001585013006 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 1001585013007 heterodimer interface [polypeptide binding]; other site 1001585013008 active site 1001585013009 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 1001585013010 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 1001585013011 active site 1001585013012 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1001585013013 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585013014 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 1001585013015 dimerization interface [polypeptide binding]; other site 1001585013016 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 1001585013017 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 1001585013018 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 1001585013019 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1001585013020 catalytic residue [active] 1001585013021 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 1001585013022 intersubunit interface [polypeptide binding]; other site 1001585013023 active site 1001585013024 Zn2+ binding site [ion binding]; other site 1001585013025 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1001585013026 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 1001585013027 N- and C-terminal domain interface [polypeptide binding]; other site 1001585013028 active site 1001585013029 MgATP binding site [chemical binding]; other site 1001585013030 catalytic site [active] 1001585013031 metal binding site [ion binding]; metal-binding site 1001585013032 xylulose binding site [chemical binding]; other site 1001585013033 putative homodimer interface [polypeptide binding]; other site 1001585013034 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585013035 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585013036 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1001585013037 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1001585013038 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1001585013039 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 1001585013040 putative substrate translocation pore; other site 1001585013041 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1001585013042 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 1001585013043 dimer interface [polypeptide binding]; other site 1001585013044 active site 1001585013045 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 1001585013046 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 1001585013047 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 1001585013048 octamer interface [polypeptide binding]; other site 1001585013049 active site 1001585013050 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1001585013051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585013052 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 1001585013053 dimerization interface [polypeptide binding]; other site 1001585013054 NIPSNAP; Region: NIPSNAP; pfam07978 1001585013055 NIPSNAP; Region: NIPSNAP; pfam07978 1001585013056 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585013057 Flavin Reductases; Region: FlaRed; cl00801 1001585013058 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1001585013059 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 1001585013060 FMN-binding pocket [chemical binding]; other site 1001585013061 flavin binding motif; other site 1001585013062 phosphate binding motif [ion binding]; other site 1001585013063 beta-alpha-beta structure motif; other site 1001585013064 NAD binding pocket [chemical binding]; other site 1001585013065 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 1001585013066 catalytic loop [active] 1001585013067 iron binding site [ion binding]; other site 1001585013068 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1001585013069 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585013070 NAD(P) binding site [chemical binding]; other site 1001585013071 active site 1001585013072 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 1001585013073 inter-subunit interface; other site 1001585013074 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 1001585013075 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1001585013076 [2Fe-2S] cluster binding site [ion binding]; other site 1001585013077 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 1001585013078 putative alpha subunit interface [polypeptide binding]; other site 1001585013079 putative active site [active] 1001585013080 putative substrate binding site [chemical binding]; other site 1001585013081 Fe binding site [ion binding]; other site 1001585013082 SnoaL-like domain; Region: SnoaL_4; pfam13577 1001585013083 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585013084 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585013085 active site 1001585013086 indole-3-acetamide amidohydrolase; Region: PLN02722 1001585013087 Amidase; Region: Amidase; cl11426 1001585013088 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1001585013089 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 1001585013090 putative ligand binding site [chemical binding]; other site 1001585013091 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 1001585013092 TM-ABC transporter signature motif; other site 1001585013093 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1001585013094 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 1001585013095 TM-ABC transporter signature motif; other site 1001585013096 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1001585013097 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1001585013098 Walker A/P-loop; other site 1001585013099 ATP binding site [chemical binding]; other site 1001585013100 Q-loop/lid; other site 1001585013101 ABC transporter signature motif; other site 1001585013102 Walker B; other site 1001585013103 D-loop; other site 1001585013104 H-loop/switch region; other site 1001585013105 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1001585013106 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1001585013107 Walker A/P-loop; other site 1001585013108 ATP binding site [chemical binding]; other site 1001585013109 Q-loop/lid; other site 1001585013110 ABC transporter signature motif; other site 1001585013111 Walker B; other site 1001585013112 D-loop; other site 1001585013113 H-loop/switch region; other site 1001585013114 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1001585013115 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1001585013116 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1001585013117 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 1001585013118 intersubunit interface [polypeptide binding]; other site 1001585013119 active site 1001585013120 Zn2+ binding site [ion binding]; other site 1001585013121 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 1001585013122 PAS domain; Region: PAS_9; pfam13426 1001585013123 putative active site [active] 1001585013124 heme pocket [chemical binding]; other site 1001585013125 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585013126 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585013127 dimer interface [polypeptide binding]; other site 1001585013128 putative CheW interface [polypeptide binding]; other site 1001585013129 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1001585013130 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1001585013131 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1001585013132 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1001585013133 NAD(P) binding site [chemical binding]; other site 1001585013134 catalytic residues [active] 1001585013135 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 1001585013136 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585013137 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1001585013138 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1001585013139 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1001585013140 methylamine dehydrogenase (amicyanin) heavy chain; Region: TTQ_MADH_Hv; TIGR02658 1001585013141 Methylamine utilisation protein MauE; Region: MauE; pfam07291 1001585013142 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1001585013143 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1001585013144 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 1001585013145 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1001585013146 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1001585013147 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1001585013148 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1001585013149 substrate binding pocket [chemical binding]; other site 1001585013150 chain length determination region; other site 1001585013151 substrate-Mg2+ binding site; other site 1001585013152 catalytic residues [active] 1001585013153 aspartate-rich region 1; other site 1001585013154 active site lid residues [active] 1001585013155 aspartate-rich region 2; other site 1001585013156 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1001585013157 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1001585013158 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1001585013159 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1001585013160 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1001585013161 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 1001585013162 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 1001585013163 carboxyltransferase (CT) interaction site; other site 1001585013164 biotinylation site [posttranslational modification]; other site 1001585013165 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1001585013166 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 1001585013167 trimer interface [polypeptide binding]; other site 1001585013168 oxyanion hole (OAH) forming residues; other site 1001585013169 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1001585013170 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1001585013171 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1001585013172 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1001585013173 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 1001585013174 TPP-binding site; other site 1001585013175 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 1001585013176 PYR/PP interface [polypeptide binding]; other site 1001585013177 dimer interface [polypeptide binding]; other site 1001585013178 TPP binding site [chemical binding]; other site 1001585013179 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1001585013180 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 1001585013181 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 1001585013182 [4Fe-4S] binding site [ion binding]; other site 1001585013183 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 1001585013184 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 1001585013185 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 1001585013186 molybdopterin cofactor binding site; other site 1001585013187 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1001585013188 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1001585013189 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 1001585013190 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1001585013191 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 1001585013192 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1001585013193 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1001585013194 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 1001585013195 N-terminal plug; other site 1001585013196 ligand-binding site [chemical binding]; other site 1001585013197 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1001585013198 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 1001585013199 cobalamin binding residues [chemical binding]; other site 1001585013200 putative BtuC binding residues; other site 1001585013201 dimer interface [polypeptide binding]; other site 1001585013202 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 1001585013203 dimerization interface [polypeptide binding]; other site 1001585013204 active site 1001585013205 Predicted aspartyl protease [General function prediction only]; Region: COG3577 1001585013206 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1001585013207 catalytic motif [active] 1001585013208 Catalytic residue [active] 1001585013209 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1001585013210 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 1001585013211 substrate binding pocket [chemical binding]; other site 1001585013212 membrane-bound complex binding site; other site 1001585013213 hinge residues; other site 1001585013214 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1001585013215 tetramer interfaces [polypeptide binding]; other site 1001585013216 binuclear metal-binding site [ion binding]; other site 1001585013217 thiamine monophosphate kinase; Provisional; Region: PRK05731 1001585013218 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 1001585013219 ATP binding site [chemical binding]; other site 1001585013220 dimerization interface [polypeptide binding]; other site 1001585013221 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 1001585013222 putative RNA binding site [nucleotide binding]; other site 1001585013223 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 1001585013224 homopentamer interface [polypeptide binding]; other site 1001585013225 active site 1001585013226 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1001585013227 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1001585013228 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1001585013229 dimerization interface [polypeptide binding]; other site 1001585013230 active site 1001585013231 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1001585013232 Lumazine binding domain; Region: Lum_binding; pfam00677 1001585013233 Lumazine binding domain; Region: Lum_binding; pfam00677 1001585013234 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1001585013235 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 1001585013236 catalytic motif [active] 1001585013237 Zn binding site [ion binding]; other site 1001585013238 RibD C-terminal domain; Region: RibD_C; cl17279 1001585013239 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1001585013240 ATP cone domain; Region: ATP-cone; pfam03477 1001585013241 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 1001585013242 Predicted methyltransferase [General function prediction only]; Region: COG3897 1001585013243 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1001585013244 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 1001585013245 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 1001585013246 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1001585013247 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1001585013248 Walker A/P-loop; other site 1001585013249 ATP binding site [chemical binding]; other site 1001585013250 Q-loop/lid; other site 1001585013251 ABC transporter signature motif; other site 1001585013252 Walker B; other site 1001585013253 D-loop; other site 1001585013254 H-loop/switch region; other site 1001585013255 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1001585013256 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1001585013257 FtsX-like permease family; Region: FtsX; pfam02687 1001585013258 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1001585013259 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 1001585013260 binding surface 1001585013261 TPR motif; other site 1001585013262 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1001585013263 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1001585013264 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1001585013265 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1001585013266 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1001585013267 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 1001585013268 OmpW family; Region: OmpW; cl17427 1001585013269 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585013270 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1001585013271 NAD(P) binding site [chemical binding]; other site 1001585013272 active site 1001585013273 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1001585013274 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585013275 NAD(P) binding site [chemical binding]; other site 1001585013276 active site 1001585013277 Predicted transcriptional regulators [Transcription]; Region: COG1733 1001585013278 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1001585013279 glutathionine S-transferase; Provisional; Region: PRK10542 1001585013280 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 1001585013281 C-terminal domain interface [polypeptide binding]; other site 1001585013282 GSH binding site (G-site) [chemical binding]; other site 1001585013283 dimer interface [polypeptide binding]; other site 1001585013284 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1001585013285 N-terminal domain interface [polypeptide binding]; other site 1001585013286 dimer interface [polypeptide binding]; other site 1001585013287 substrate binding pocket (H-site) [chemical binding]; other site 1001585013288 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1001585013289 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 1001585013290 dimer interface [polypeptide binding]; other site 1001585013291 ssDNA binding site [nucleotide binding]; other site 1001585013292 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1001585013293 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 1001585013294 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1001585013295 putative substrate translocation pore; other site 1001585013296 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1001585013297 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1001585013298 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1001585013299 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1001585013300 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1001585013301 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1001585013302 heme binding site [chemical binding]; other site 1001585013303 ferroxidase pore; other site 1001585013304 ferroxidase diiron center [ion binding]; other site 1001585013305 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1001585013306 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1001585013307 dimer interface [polypeptide binding]; other site 1001585013308 active site 1001585013309 heme binding site [chemical binding]; other site 1001585013310 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1001585013311 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1001585013312 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1001585013313 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1001585013314 alphaNTD homodimer interface [polypeptide binding]; other site 1001585013315 alphaNTD - beta interaction site [polypeptide binding]; other site 1001585013316 alphaNTD - beta' interaction site [polypeptide binding]; other site 1001585013317 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1001585013318 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1001585013319 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1001585013320 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 1001585013321 RNA binding surface [nucleotide binding]; other site 1001585013322 30S ribosomal protein S11; Validated; Region: PRK05309 1001585013323 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1001585013324 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1001585013325 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 1001585013326 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1001585013327 SecY translocase; Region: SecY; pfam00344 1001585013328 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1001585013329 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 1001585013330 23S rRNA binding site [nucleotide binding]; other site 1001585013331 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1001585013332 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1001585013333 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1001585013334 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 1001585013335 5S rRNA interface [nucleotide binding]; other site 1001585013336 23S rRNA interface [nucleotide binding]; other site 1001585013337 L5 interface [polypeptide binding]; other site 1001585013338 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1001585013339 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1001585013340 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1001585013341 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1001585013342 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1001585013343 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1001585013344 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1001585013345 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1001585013346 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1001585013347 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1001585013348 RNA binding site [nucleotide binding]; other site 1001585013349 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1001585013350 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1001585013351 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 1001585013352 23S rRNA interface [nucleotide binding]; other site 1001585013353 putative translocon interaction site; other site 1001585013354 signal recognition particle (SRP54) interaction site; other site 1001585013355 L23 interface [polypeptide binding]; other site 1001585013356 trigger factor interaction site; other site 1001585013357 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 1001585013358 23S rRNA interface [nucleotide binding]; other site 1001585013359 5S rRNA interface [nucleotide binding]; other site 1001585013360 putative antibiotic binding site [chemical binding]; other site 1001585013361 L25 interface [polypeptide binding]; other site 1001585013362 L27 interface [polypeptide binding]; other site 1001585013363 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1001585013364 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 1001585013365 G-X-X-G motif; other site 1001585013366 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1001585013367 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 1001585013368 putative translocon binding site; other site 1001585013369 protein-rRNA interface [nucleotide binding]; other site 1001585013370 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1001585013371 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1001585013372 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1001585013373 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1001585013374 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1001585013375 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1001585013376 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1001585013377 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1001585013378 elongation factor Tu; Reviewed; Region: PRK00049 1001585013379 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1001585013380 G1 box; other site 1001585013381 GEF interaction site [polypeptide binding]; other site 1001585013382 GTP/Mg2+ binding site [chemical binding]; other site 1001585013383 Switch I region; other site 1001585013384 G2 box; other site 1001585013385 G3 box; other site 1001585013386 Switch II region; other site 1001585013387 G4 box; other site 1001585013388 G5 box; other site 1001585013389 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 1001585013390 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 1001585013391 Antibiotic Binding Site [chemical binding]; other site 1001585013392 elongation factor G; Reviewed; Region: PRK00007 1001585013393 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1001585013394 G1 box; other site 1001585013395 putative GEF interaction site [polypeptide binding]; other site 1001585013396 GTP/Mg2+ binding site [chemical binding]; other site 1001585013397 Switch I region; other site 1001585013398 G2 box; other site 1001585013399 G3 box; other site 1001585013400 Switch II region; other site 1001585013401 G4 box; other site 1001585013402 G5 box; other site 1001585013403 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 1001585013404 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 1001585013405 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 1001585013406 30S ribosomal protein S7; Validated; Region: PRK05302 1001585013407 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 1001585013408 S17 interaction site [polypeptide binding]; other site 1001585013409 S8 interaction site; other site 1001585013410 16S rRNA interaction site [nucleotide binding]; other site 1001585013411 streptomycin interaction site [chemical binding]; other site 1001585013412 23S rRNA interaction site [nucleotide binding]; other site 1001585013413 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1001585013414 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1001585013415 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1001585013416 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1001585013417 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1001585013418 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1001585013419 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1001585013420 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1001585013421 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1001585013422 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1001585013423 DNA binding site [nucleotide binding] 1001585013424 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1001585013425 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1001585013426 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 1001585013427 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1001585013428 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 1001585013429 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1001585013430 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 1001585013431 RPB3 interaction site [polypeptide binding]; other site 1001585013432 RPB1 interaction site [polypeptide binding]; other site 1001585013433 RPB11 interaction site [polypeptide binding]; other site 1001585013434 RPB10 interaction site [polypeptide binding]; other site 1001585013435 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 1001585013436 core dimer interface [polypeptide binding]; other site 1001585013437 peripheral dimer interface [polypeptide binding]; other site 1001585013438 L10 interface [polypeptide binding]; other site 1001585013439 L11 interface [polypeptide binding]; other site 1001585013440 putative EF-Tu interaction site [polypeptide binding]; other site 1001585013441 putative EF-G interaction site [polypeptide binding]; other site 1001585013442 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 1001585013443 23S rRNA interface [nucleotide binding]; other site 1001585013444 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1001585013445 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 1001585013446 mRNA/rRNA interface [nucleotide binding]; other site 1001585013447 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1001585013448 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 1001585013449 23S rRNA interface [nucleotide binding]; other site 1001585013450 L7/L12 interface [polypeptide binding]; other site 1001585013451 putative thiostrepton binding site; other site 1001585013452 L25 interface [polypeptide binding]; other site 1001585013453 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 1001585013454 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1001585013455 putative homodimer interface [polypeptide binding]; other site 1001585013456 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1001585013457 heterodimer interface [polypeptide binding]; other site 1001585013458 homodimer interface [polypeptide binding]; other site 1001585013459 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1001585013460 elongation factor Tu; Reviewed; Region: PRK00049 1001585013461 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1001585013462 G1 box; other site 1001585013463 GEF interaction site [polypeptide binding]; other site 1001585013464 GTP/Mg2+ binding site [chemical binding]; other site 1001585013465 Switch I region; other site 1001585013466 G2 box; other site 1001585013467 G3 box; other site 1001585013468 Switch II region; other site 1001585013469 G4 box; other site 1001585013470 G5 box; other site 1001585013471 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 1001585013472 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 1001585013473 Antibiotic Binding Site [chemical binding]; other site 1001585013474 Sporulation related domain; Region: SPOR; cl10051 1001585013475 pantothenate kinase; Reviewed; Region: PRK13322 1001585013476 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1001585013477 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1001585013478 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1001585013479 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1001585013480 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1001585013481 active site 1001585013482 HIGH motif; other site 1001585013483 dimer interface [polypeptide binding]; other site 1001585013484 KMSKS motif; other site 1001585013485 putative peptidase; Provisional; Region: PRK11649 1001585013486 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1001585013487 Peptidase family M23; Region: Peptidase_M23; pfam01551 1001585013488 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1001585013489 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1001585013490 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 1001585013491 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1001585013492 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1001585013493 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1001585013494 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 1001585013495 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1001585013496 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 1001585013497 FMN binding site [chemical binding]; other site 1001585013498 substrate binding site [chemical binding]; other site 1001585013499 putative catalytic residue [active] 1001585013500 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1001585013501 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1001585013502 catalytic residue [active] 1001585013503 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1001585013504 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1001585013505 classical (c) SDRs; Region: SDR_c; cd05233 1001585013506 NAD(P) binding site [chemical binding]; other site 1001585013507 active site 1001585013508 Ycf46; Provisional; Region: ycf46; CHL00195 1001585013509 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 1001585013510 Walker A motif; other site 1001585013511 ATP binding site [chemical binding]; other site 1001585013512 Walker B motif; other site 1001585013513 arginine finger; other site 1001585013514 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1001585013515 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1001585013516 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1001585013517 diiron binding motif [ion binding]; other site 1001585013518 OsmC-like protein; Region: OsmC; cl00767 1001585013519 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1001585013520 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 1001585013521 ligand binding site [chemical binding]; other site 1001585013522 flexible hinge region; other site 1001585013523 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 1001585013524 putative switch regulator; other site 1001585013525 non-specific DNA interactions [nucleotide binding]; other site 1001585013526 DNA binding site [nucleotide binding] 1001585013527 sequence specific DNA binding site [nucleotide binding]; other site 1001585013528 putative cAMP binding site [chemical binding]; other site 1001585013529 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 1001585013530 active site 1001585013531 ribulose/triose binding site [chemical binding]; other site 1001585013532 phosphate binding site [ion binding]; other site 1001585013533 substrate (anthranilate) binding pocket [chemical binding]; other site 1001585013534 product (indole) binding pocket [chemical binding]; other site 1001585013535 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1001585013536 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1001585013537 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1001585013538 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1001585013539 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1001585013540 glutamine binding [chemical binding]; other site 1001585013541 catalytic triad [active] 1001585013542 anthranilate synthase component I; Provisional; Region: PRK13565 1001585013543 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1001585013544 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1001585013545 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1001585013546 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 1001585013547 motif II; other site 1001585013548 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 1001585013549 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1001585013550 substrate binding site [chemical binding]; other site 1001585013551 hexamer interface [polypeptide binding]; other site 1001585013552 metal binding site [ion binding]; metal-binding site 1001585013553 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 1001585013554 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1001585013555 tetramerization interface [polypeptide binding]; other site 1001585013556 NAD(P) binding site [chemical binding]; other site 1001585013557 catalytic residues [active] 1001585013558 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1001585013559 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1001585013560 active site 1001585013561 NAD binding site [chemical binding]; other site 1001585013562 metal binding site [ion binding]; metal-binding site 1001585013563 PAS domain S-box; Region: sensory_box; TIGR00229 1001585013564 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 1001585013565 putative active site [active] 1001585013566 heme pocket [chemical binding]; other site 1001585013567 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1001585013568 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 1001585013569 Walker A motif; other site 1001585013570 ATP binding site [chemical binding]; other site 1001585013571 Walker B motif; other site 1001585013572 arginine finger; other site 1001585013573 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1001585013574 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1001585013575 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585013576 dimer interface [polypeptide binding]; other site 1001585013577 conserved gate region; other site 1001585013578 putative PBP binding loops; other site 1001585013579 ABC-ATPase subunit interface; other site 1001585013580 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585013581 dimer interface [polypeptide binding]; other site 1001585013582 conserved gate region; other site 1001585013583 putative PBP binding loops; other site 1001585013584 ABC-ATPase subunit interface; other site 1001585013585 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1001585013586 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1001585013587 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1001585013588 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1001585013589 Walker A/P-loop; other site 1001585013590 ATP binding site [chemical binding]; other site 1001585013591 Q-loop/lid; other site 1001585013592 ABC transporter signature motif; other site 1001585013593 Walker B; other site 1001585013594 D-loop; other site 1001585013595 H-loop/switch region; other site 1001585013596 TOBE domain; Region: TOBE_2; pfam08402 1001585013597 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1001585013598 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585013599 active site 1001585013600 phosphorylation site [posttranslational modification] 1001585013601 intermolecular recognition site; other site 1001585013602 dimerization interface [polypeptide binding]; other site 1001585013603 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 1001585013604 DNA binding residues [nucleotide binding] 1001585013605 dimerization interface [polypeptide binding]; other site 1001585013606 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1001585013607 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 1001585013608 PAS domain; Region: PAS_9; pfam13426 1001585013609 putative active site [active] 1001585013610 heme pocket [chemical binding]; other site 1001585013611 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 1001585013612 PAS fold; Region: PAS_3; pfam08447 1001585013613 putative active site [active] 1001585013614 heme pocket [chemical binding]; other site 1001585013615 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1001585013616 Histidine kinase; Region: HisKA_3; pfam07730 1001585013617 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585013618 ATP binding site [chemical binding]; other site 1001585013619 Mg2+ binding site [ion binding]; other site 1001585013620 G-X-G motif; other site 1001585013621 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 1001585013622 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1001585013623 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 1001585013624 putative metal binding site [ion binding]; other site 1001585013625 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 1001585013626 HSP70 interaction site [polypeptide binding]; other site 1001585013627 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 1001585013628 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1001585013629 Substrate binding site; other site 1001585013630 metal-binding site 1001585013631 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1001585013632 Phosphotransferase enzyme family; Region: APH; pfam01636 1001585013633 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1001585013634 OstA-like protein; Region: OstA; cl00844 1001585013635 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1001585013636 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1001585013637 SurA N-terminal domain; Region: SurA_N; pfam09312 1001585013638 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1001585013639 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1001585013640 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1001585013641 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1001585013642 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1001585013643 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1001585013644 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1001585013645 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1001585013646 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1001585013647 active site 1001585013648 metal binding site [ion binding]; metal-binding site 1001585013649 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 1001585013650 active site residue [active] 1001585013651 PrkA family serine protein kinase; Provisional; Region: PRK15455 1001585013652 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1001585013653 hypothetical protein; Provisional; Region: PRK05325 1001585013654 SpoVR family protein; Provisional; Region: PRK11767 1001585013655 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1001585013656 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1001585013657 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1001585013658 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1001585013659 active site 1001585013660 NTP binding site [chemical binding]; other site 1001585013661 metal binding triad [ion binding]; metal-binding site 1001585013662 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1001585013663 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1001585013664 Zn2+ binding site [ion binding]; other site 1001585013665 Mg2+ binding site [ion binding]; other site 1001585013666 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 1001585013667 catalytic center binding site [active] 1001585013668 ATP binding site [chemical binding]; other site 1001585013669 Dihydroneopterin aldolase; Region: FolB; smart00905 1001585013670 active site 1001585013671 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1001585013672 UGMP family protein; Validated; Region: PRK09604 1001585013673 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1001585013674 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1001585013675 DNA primase, catalytic core; Region: dnaG; TIGR01391 1001585013676 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1001585013677 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1001585013678 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 1001585013679 active site 1001585013680 metal binding site [ion binding]; metal-binding site 1001585013681 interdomain interaction site; other site 1001585013682 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1001585013683 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1001585013684 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1001585013685 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1001585013686 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1001585013687 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1001585013688 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585013689 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1001585013690 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 1001585013691 DNA binding residues [nucleotide binding] 1001585013692 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585013693 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 1001585013694 substrate binding pocket [chemical binding]; other site 1001585013695 membrane-bound complex binding site; other site 1001585013696 hinge residues; other site 1001585013697 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 1001585013698 PAS fold; Region: PAS_3; pfam08447 1001585013699 putative active site [active] 1001585013700 heme pocket [chemical binding]; other site 1001585013701 PAS domain S-box; Region: sensory_box; TIGR00229 1001585013702 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 1001585013703 putative active site [active] 1001585013704 heme pocket [chemical binding]; other site 1001585013705 PAS domain S-box; Region: sensory_box; TIGR00229 1001585013706 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 1001585013707 putative active site [active] 1001585013708 heme pocket [chemical binding]; other site 1001585013709 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 1001585013710 PAS domain; Region: PAS_9; pfam13426 1001585013711 putative active site [active] 1001585013712 heme pocket [chemical binding]; other site 1001585013713 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585013714 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585013715 metal binding site [ion binding]; metal-binding site 1001585013716 active site 1001585013717 I-site; other site 1001585013718 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 1001585013719 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 1001585013720 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1001585013721 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 1001585013722 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 1001585013723 S-adenosylmethionine binding site [chemical binding]; other site 1001585013724 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 1001585013725 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 1001585013726 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1001585013727 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585013728 active site 1001585013729 phosphorylation site [posttranslational modification] 1001585013730 intermolecular recognition site; other site 1001585013731 dimerization interface [polypeptide binding]; other site 1001585013732 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 1001585013733 DNA binding residues [nucleotide binding] 1001585013734 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585013735 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 1001585013736 dimer interface [polypeptide binding]; other site 1001585013737 phosphorylation site [posttranslational modification] 1001585013738 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585013739 ATP binding site [chemical binding]; other site 1001585013740 Mg2+ binding site [ion binding]; other site 1001585013741 G-X-G motif; other site 1001585013742 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585013743 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585013744 active site 1001585013745 phosphorylation site [posttranslational modification] 1001585013746 intermolecular recognition site; other site 1001585013747 dimerization interface [polypeptide binding]; other site 1001585013748 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585013749 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585013750 metal binding site [ion binding]; metal-binding site 1001585013751 active site 1001585013752 I-site; other site 1001585013753 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1001585013754 DctM-like transporters; Region: DctM; pfam06808 1001585013755 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1001585013756 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585013757 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1001585013758 PAS fold; Region: PAS_4; pfam08448 1001585013759 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1001585013760 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 1001585013761 Walker A motif; other site 1001585013762 ATP binding site [chemical binding]; other site 1001585013763 Walker B motif; other site 1001585013764 arginine finger; other site 1001585013765 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1001585013766 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1001585013767 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 1001585013768 Coenzyme A transferase; Region: CoA_trans; smart00882 1001585013769 Coenzyme A transferase; Region: CoA_trans; cl17247 1001585013770 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1001585013771 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 1001585013772 putative molybdopterin cofactor binding site [chemical binding]; other site 1001585013773 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 1001585013774 putative molybdopterin cofactor binding site; other site 1001585013775 Predicted flavoprotein [General function prediction only]; Region: COG0431 1001585013776 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1001585013777 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1001585013778 conserved cys residue [active] 1001585013779 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 1001585013780 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 1001585013781 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1001585013782 catalytic residue [active] 1001585013783 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 1001585013784 MOSC domain; Region: MOSC; pfam03473 1001585013785 3-alpha domain; Region: 3-alpha; pfam03475 1001585013786 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 1001585013787 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585013788 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 1001585013789 dimerization interface [polypeptide binding]; other site 1001585013790 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585013791 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585013792 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1001585013793 Endonuclease I; Region: Endonuclease_1; cl01003 1001585013794 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1001585013795 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585013796 DNA-binding site [nucleotide binding]; DNA binding site 1001585013797 UTRA domain; Region: UTRA; pfam07702 1001585013798 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1001585013799 active sites [active] 1001585013800 tetramer interface [polypeptide binding]; other site 1001585013801 urocanate hydratase; Provisional; Region: PRK05414 1001585013802 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 1001585013803 Nucleoside recognition; Region: Gate; pfam07670 1001585013804 formimidoylglutamase; Provisional; Region: PRK13775 1001585013805 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 1001585013806 putative active site [active] 1001585013807 putative metal binding site [ion binding]; other site 1001585013808 imidazolonepropionase; Validated; Region: PRK09356 1001585013809 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 1001585013810 active site 1001585013811 HutD; Region: HutD; pfam05962 1001585013812 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1001585013813 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1001585013814 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585013815 active site 1001585013816 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1001585013817 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585013818 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585013819 metal binding site [ion binding]; metal-binding site 1001585013820 active site 1001585013821 I-site; other site 1001585013822 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1001585013823 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1001585013824 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585013825 active site 1001585013826 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1001585013827 SprA-related family; Region: SprA-related; pfam12118 1001585013828 AAA domain; Region: AAA_26; pfam13500 1001585013829 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1001585013830 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1001585013831 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 1001585013832 S-adenosylmethionine binding site [chemical binding]; other site 1001585013833 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 1001585013834 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1001585013835 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 1001585013836 substrate-cofactor binding pocket; other site 1001585013837 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585013838 catalytic residue [active] 1001585013839 biotin synthase; Provisional; Region: PRK15108 1001585013840 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 1001585013841 FeS/SAM binding site; other site 1001585013842 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1001585013843 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1001585013844 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1001585013845 active site 1001585013846 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1001585013847 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 1001585013848 molybdenum-pterin binding domain; Region: Mop; TIGR00638 1001585013849 TOBE domain; Region: TOBE; cl01440 1001585013850 serine/threonine protein kinase; Provisional; Region: PRK11768 1001585013851 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1001585013852 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1001585013853 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1001585013854 ACT domain; Region: ACT_6; pfam13740 1001585013855 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1001585013856 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1001585013857 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585013858 Coenzyme A binding pocket [chemical binding]; other site 1001585013859 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 1001585013860 active site 1001585013861 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1001585013862 Sulfatase; Region: Sulfatase; pfam00884 1001585013863 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1001585013864 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 1001585013865 ligand binding site [chemical binding]; other site 1001585013866 flexible hinge region; other site 1001585013867 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 1001585013868 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1001585013869 metal binding triad; other site 1001585013870 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1001585013871 active site 1001585013872 catalytic site [active] 1001585013873 substrate binding site [chemical binding]; other site 1001585013874 putative protease; Provisional; Region: PRK15452 1001585013875 Peptidase family U32; Region: Peptidase_U32; pfam01136 1001585013876 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1001585013877 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1001585013878 Na binding site [ion binding]; other site 1001585013879 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 1001585013880 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1001585013881 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 1001585013882 N-terminal plug; other site 1001585013883 ligand-binding site [chemical binding]; other site 1001585013884 inner membrane protein; Provisional; Region: PRK11715 1001585013885 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 1001585013886 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1001585013887 DEAD_2; Region: DEAD_2; pfam06733 1001585013888 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1001585013889 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 1001585013890 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1001585013891 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 1001585013892 sensory histidine kinase CreC; Provisional; Region: PRK11100 1001585013893 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 1001585013894 dimer interface [polypeptide binding]; other site 1001585013895 phosphorylation site [posttranslational modification] 1001585013896 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585013897 ATP binding site [chemical binding]; other site 1001585013898 G-X-G motif; other site 1001585013899 DNA-binding response regulator CreB; Provisional; Region: PRK11083 1001585013900 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585013901 active site 1001585013902 phosphorylation site [posttranslational modification] 1001585013903 intermolecular recognition site; other site 1001585013904 dimerization interface [polypeptide binding]; other site 1001585013905 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 1001585013906 DNA binding site [nucleotide binding] 1001585013907 FOG: CBS domain [General function prediction only]; Region: COG0517 1001585013908 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 1001585013909 HAMP domain; Region: HAMP; pfam00672 1001585013910 dimerization interface [polypeptide binding]; other site 1001585013911 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1001585013912 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585013913 dimer interface [polypeptide binding]; other site 1001585013914 putative CheW interface [polypeptide binding]; other site 1001585013915 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1001585013916 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1001585013917 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1001585013918 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1001585013919 Zn2+ binding site [ion binding]; other site 1001585013920 Mg2+ binding site [ion binding]; other site 1001585013921 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1001585013922 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1001585013923 putative acyl-acceptor binding pocket; other site 1001585013924 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1001585013925 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 1001585013926 substrate binding pocket [chemical binding]; other site 1001585013927 membrane-bound complex binding site; other site 1001585013928 hinge residues; other site 1001585013929 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585013930 dimer interface [polypeptide binding]; other site 1001585013931 conserved gate region; other site 1001585013932 putative PBP binding loops; other site 1001585013933 ABC-ATPase subunit interface; other site 1001585013934 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585013935 dimer interface [polypeptide binding]; other site 1001585013936 conserved gate region; other site 1001585013937 putative PBP binding loops; other site 1001585013938 ABC-ATPase subunit interface; other site 1001585013939 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1001585013940 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1001585013941 Walker A/P-loop; other site 1001585013942 ATP binding site [chemical binding]; other site 1001585013943 Q-loop/lid; other site 1001585013944 ABC transporter signature motif; other site 1001585013945 Walker B; other site 1001585013946 D-loop; other site 1001585013947 H-loop/switch region; other site 1001585013948 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1001585013949 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 1001585013950 dimer interface [polypeptide binding]; other site 1001585013951 phosphorylation site [posttranslational modification] 1001585013952 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585013953 ATP binding site [chemical binding]; other site 1001585013954 Mg2+ binding site [ion binding]; other site 1001585013955 G-X-G motif; other site 1001585013956 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1001585013957 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585013958 active site 1001585013959 phosphorylation site [posttranslational modification] 1001585013960 intermolecular recognition site; other site 1001585013961 dimerization interface [polypeptide binding]; other site 1001585013962 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 1001585013963 Walker A motif; other site 1001585013964 ATP binding site [chemical binding]; other site 1001585013965 Walker B motif; other site 1001585013966 arginine finger; other site 1001585013967 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1001585013968 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 1001585013969 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 1001585013970 NAD binding site [chemical binding]; other site 1001585013971 catalytic Zn binding site [ion binding]; other site 1001585013972 structural Zn binding site [ion binding]; other site 1001585013973 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 1001585013974 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1001585013975 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1001585013976 putative active site [active] 1001585013977 putative substrate binding site [chemical binding]; other site 1001585013978 putative cosubstrate binding site; other site 1001585013979 catalytic site [active] 1001585013980 Sarcosine oxidase, gamma subunit family; Region: SoxG; pfam04268 1001585013981 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1001585013982 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1001585013983 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1001585013984 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1001585013985 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 1001585013986 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1001585013987 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1001585013988 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1001585013989 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 1001585013990 dimer interface [polypeptide binding]; other site 1001585013991 active site 1001585013992 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1001585013993 folate binding site [chemical binding]; other site 1001585013994 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1001585013995 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 1001585013996 tetramer interface [polypeptide binding]; other site 1001585013997 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585013998 catalytic residue [active] 1001585013999 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1001585014000 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 1001585014001 FAD binding pocket [chemical binding]; other site 1001585014002 FAD binding motif [chemical binding]; other site 1001585014003 phosphate binding motif [ion binding]; other site 1001585014004 beta-alpha-beta structure motif; other site 1001585014005 NAD binding pocket [chemical binding]; other site 1001585014006 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 1001585014007 catalytic loop [active] 1001585014008 iron binding site [ion binding]; other site 1001585014009 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1001585014010 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1001585014011 [2Fe-2S] cluster binding site [ion binding]; other site 1001585014012 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 1001585014013 putative alpha subunit interface [polypeptide binding]; other site 1001585014014 putative active site [active] 1001585014015 putative substrate binding site [chemical binding]; other site 1001585014016 Fe binding site [ion binding]; other site 1001585014017 HAMP domain; Region: HAMP; pfam00672 1001585014018 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585014019 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585014020 dimer interface [polypeptide binding]; other site 1001585014021 putative CheW interface [polypeptide binding]; other site 1001585014022 Predicted transcriptional regulator [Transcription]; Region: COG2378 1001585014023 WYL domain; Region: WYL; pfam13280 1001585014024 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1001585014025 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1001585014026 G1 box; other site 1001585014027 putative GEF interaction site [polypeptide binding]; other site 1001585014028 GTP/Mg2+ binding site [chemical binding]; other site 1001585014029 Switch I region; other site 1001585014030 G2 box; other site 1001585014031 G3 box; other site 1001585014032 Switch II region; other site 1001585014033 G4 box; other site 1001585014034 G5 box; other site 1001585014035 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 1001585014036 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 1001585014037 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1001585014038 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1001585014039 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 1001585014040 Ligand Binding Site [chemical binding]; other site 1001585014041 thiazole biosynthesis domain; Region: ThiI_C_thiazole; TIGR04271 1001585014042 glutamine synthetase; Provisional; Region: glnA; PRK09469 1001585014043 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1001585014044 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1001585014045 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1001585014046 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1001585014047 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1001585014048 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 1001585014049 dimer interface [polypeptide binding]; other site 1001585014050 phosphorylation site [posttranslational modification] 1001585014051 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585014052 ATP binding site [chemical binding]; other site 1001585014053 Mg2+ binding site [ion binding]; other site 1001585014054 G-X-G motif; other site 1001585014055 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1001585014056 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585014057 active site 1001585014058 phosphorylation site [posttranslational modification] 1001585014059 intermolecular recognition site; other site 1001585014060 dimerization interface [polypeptide binding]; other site 1001585014061 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 1001585014062 Walker A motif; other site 1001585014063 ATP binding site [chemical binding]; other site 1001585014064 Walker B motif; other site 1001585014065 arginine finger; other site 1001585014066 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1001585014067 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 1001585014068 TM2 domain; Region: TM2; cl00984 1001585014069 TM2 domain; Region: TM2; pfam05154 1001585014070 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 1001585014071 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 1001585014072 FeS/SAM binding site; other site 1001585014073 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 1001585014074 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 1001585014075 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 1001585014076 Walker A motif; other site 1001585014077 ATP binding site [chemical binding]; other site 1001585014078 Walker B motif; other site 1001585014079 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1001585014080 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 1001585014081 Walker A motif; other site 1001585014082 ATP binding site [chemical binding]; other site 1001585014083 Walker B motif; other site 1001585014084 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1001585014085 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1001585014086 catalytic residue [active] 1001585014087 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1001585014088 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1001585014089 YGGT family; Region: YGGT; pfam02325 1001585014090 YGGT family; Region: YGGT; pfam02325 1001585014091 hypothetical protein; Validated; Region: PRK05090 1001585014092 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1001585014093 G1 box; other site 1001585014094 GTP/Mg2+ binding site [chemical binding]; other site 1001585014095 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 1001585014096 G2 box; other site 1001585014097 Switch I region; other site 1001585014098 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1001585014099 G3 box; other site 1001585014100 Switch II region; other site 1001585014101 GTP/Mg2+ binding site [chemical binding]; other site 1001585014102 G4 box; other site 1001585014103 G5 box; other site 1001585014104 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 1001585014105 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1001585014106 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 1001585014107 S-adenosylmethionine binding site [chemical binding]; other site 1001585014108 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 1001585014109 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 1001585014110 active site 1001585014111 dimerization interface [polypeptide binding]; other site 1001585014112 Protein of unknown function (DUF3916); Region: DUF3916; pfam13079 1001585014113 HemN family oxidoreductase; Provisional; Region: PRK05660 1001585014114 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 1001585014115 FeS/SAM binding site; other site 1001585014116 HemN C-terminal domain; Region: HemN_C; pfam06969 1001585014117 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585014118 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585014119 metal binding site [ion binding]; metal-binding site 1001585014120 active site 1001585014121 I-site; other site 1001585014122 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 1001585014123 Cache domain; Region: Cache_1; pfam02743 1001585014124 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 1001585014125 dimerization interface [polypeptide binding]; other site 1001585014126 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585014127 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585014128 dimer interface [polypeptide binding]; other site 1001585014129 putative CheW interface [polypeptide binding]; other site 1001585014130 hypothetical protein; Validated; Region: PRK06217 1001585014131 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1001585014132 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585014133 Coenzyme A binding pocket [chemical binding]; other site 1001585014134 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1001585014135 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1001585014136 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 1001585014137 S-adenosylmethionine binding site [chemical binding]; other site 1001585014138 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 1001585014139 ThiS interaction site; other site 1001585014140 putative active site [active] 1001585014141 tetramer interface [polypeptide binding]; other site 1001585014142 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1001585014143 thiS-thiF/thiG interaction site; other site 1001585014144 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1001585014145 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1001585014146 Transglycosylase; Region: Transgly; cl17702 1001585014147 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1001585014148 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585014149 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 1001585014150 DNA binding residues [nucleotide binding] 1001585014151 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1001585014152 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1001585014153 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1001585014154 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585014155 Walker A/P-loop; other site 1001585014156 ATP binding site [chemical binding]; other site 1001585014157 Q-loop/lid; other site 1001585014158 ABC transporter signature motif; other site 1001585014159 Walker B; other site 1001585014160 D-loop; other site 1001585014161 H-loop/switch region; other site 1001585014162 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1001585014163 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1001585014164 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 1001585014165 P loop; other site 1001585014166 GTP binding site [chemical binding]; other site 1001585014167 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1001585014168 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1001585014169 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1001585014170 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1001585014171 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1001585014172 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1001585014173 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 1001585014174 S-adenosylmethionine binding site [chemical binding]; other site 1001585014175 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1001585014176 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585014177 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1001585014178 Bacterial transcriptional repressor; Region: TetR; pfam13972 1001585014179 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 1001585014180 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 1001585014181 NAD(P) binding site [chemical binding]; other site 1001585014182 catalytic residues [active] 1001585014183 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1001585014184 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1001585014185 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1001585014186 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1001585014187 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1001585014188 active site 1001585014189 (T/H)XGH motif; other site 1001585014190 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1001585014191 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1001585014192 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1001585014193 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 1001585014194 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1001585014195 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1001585014196 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 1001585014197 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1001585014198 putative acyl-acceptor binding pocket; other site 1001585014199 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1001585014200 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1001585014201 DNA binding site [nucleotide binding] 1001585014202 catalytic residue [active] 1001585014203 H2TH interface [polypeptide binding]; other site 1001585014204 putative catalytic residues [active] 1001585014205 turnover-facilitating residue; other site 1001585014206 intercalation triad [nucleotide binding]; other site 1001585014207 8OG recognition residue [nucleotide binding]; other site 1001585014208 putative reading head residues; other site 1001585014209 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1001585014210 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1001585014211 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1001585014212 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1001585014213 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1001585014214 putative RNA binding site [nucleotide binding]; other site 1001585014215 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 1001585014216 S-adenosylmethionine binding site [chemical binding]; other site 1001585014217 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1001585014218 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585014219 Walker A/P-loop; other site 1001585014220 ATP binding site [chemical binding]; other site 1001585014221 Q-loop/lid; other site 1001585014222 ABC transporter signature motif; other site 1001585014223 Walker B; other site 1001585014224 D-loop; other site 1001585014225 H-loop/switch region; other site 1001585014226 TOBE domain; Region: TOBE_2; pfam08402 1001585014227 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1001585014228 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1001585014229 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585014230 putative PBP binding loops; other site 1001585014231 ABC-ATPase subunit interface; other site 1001585014232 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1001585014233 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585014234 dimer interface [polypeptide binding]; other site 1001585014235 conserved gate region; other site 1001585014236 putative PBP binding loops; other site 1001585014237 ABC-ATPase subunit interface; other site 1001585014238 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1001585014239 Histidine kinase; Region: HisKA_3; pfam07730 1001585014240 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585014241 ATP binding site [chemical binding]; other site 1001585014242 Mg2+ binding site [ion binding]; other site 1001585014243 G-X-G motif; other site 1001585014244 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1001585014245 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585014246 active site 1001585014247 phosphorylation site [posttranslational modification] 1001585014248 intermolecular recognition site; other site 1001585014249 dimerization interface [polypeptide binding]; other site 1001585014250 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 1001585014251 DNA binding residues [nucleotide binding] 1001585014252 dimerization interface [polypeptide binding]; other site 1001585014253 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585014254 dimer interface [polypeptide binding]; other site 1001585014255 putative CheW interface [polypeptide binding]; other site 1001585014256 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1001585014257 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585014258 active site 1001585014259 phosphorylation site [posttranslational modification] 1001585014260 intermolecular recognition site; other site 1001585014261 dimerization interface [polypeptide binding]; other site 1001585014262 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 1001585014263 anti sigma factor interaction site; other site 1001585014264 regulatory phosphorylation site [posttranslational modification]; other site 1001585014265 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1001585014266 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 1001585014267 putative binding surface; other site 1001585014268 active site 1001585014269 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1001585014270 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585014271 ATP binding site [chemical binding]; other site 1001585014272 Mg2+ binding site [ion binding]; other site 1001585014273 G-X-G motif; other site 1001585014274 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 1001585014275 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 1001585014276 putative CheA interaction surface; other site 1001585014277 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1001585014278 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1001585014279 HAMP domain; Region: HAMP; pfam00672 1001585014280 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585014281 dimer interface [polypeptide binding]; other site 1001585014282 putative CheW interface [polypeptide binding]; other site 1001585014283 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 1001585014284 putative CheA interaction surface; other site 1001585014285 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1001585014286 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1001585014287 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 1001585014288 S-adenosylmethionine binding site [chemical binding]; other site 1001585014289 CheD chemotactic sensory transduction; Region: CheD; cl00810 1001585014290 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1001585014291 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585014292 active site 1001585014293 phosphorylation site [posttranslational modification] 1001585014294 intermolecular recognition site; other site 1001585014295 dimerization interface [polypeptide binding]; other site 1001585014296 CheB methylesterase; Region: CheB_methylest; pfam01339 1001585014297 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1001585014298 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1001585014299 active site 1001585014300 metal binding site [ion binding]; metal-binding site 1001585014301 homotetramer interface [polypeptide binding]; other site 1001585014302 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1001585014303 dimer interface [polypeptide binding]; other site 1001585014304 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1001585014305 active site 1001585014306 metal binding site [ion binding]; metal-binding site 1001585014307 glutathione binding site [chemical binding]; other site 1001585014308 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1001585014309 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1001585014310 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1001585014311 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 1001585014312 folate binding site [chemical binding]; other site 1001585014313 NADP+ binding site [chemical binding]; other site 1001585014314 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1001585014315 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 1001585014316 putative active site [active] 1001585014317 catalytic site [active] 1001585014318 putative metal binding site [ion binding]; other site 1001585014319 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 1001585014320 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1001585014321 G1 box; other site 1001585014322 GTP/Mg2+ binding site [chemical binding]; other site 1001585014323 G2 box; other site 1001585014324 Switch I region; other site 1001585014325 G3 box; other site 1001585014326 Switch II region; other site 1001585014327 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 1001585014328 G5 box; other site 1001585014329 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1001585014330 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 1001585014331 dimerization interface [polypeptide binding]; other site 1001585014332 active site 1001585014333 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1001585014334 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1001585014335 NRDE protein; Region: NRDE; cl01315 1001585014336 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 1001585014337 GAF domain; Region: GAF; pfam01590 1001585014338 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1001585014339 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1001585014340 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1001585014341 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 1001585014342 putative active site [active] 1001585014343 Ap4A binding site [chemical binding]; other site 1001585014344 nudix motif; other site 1001585014345 putative metal binding site [ion binding]; other site 1001585014346 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1001585014347 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1001585014348 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 1001585014349 threonine dehydratase; Reviewed; Region: PRK09224 1001585014350 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 1001585014351 tetramer interface [polypeptide binding]; other site 1001585014352 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585014353 catalytic residue [active] 1001585014354 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1001585014355 putative Ile/Val binding site [chemical binding]; other site 1001585014356 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1001585014357 putative Ile/Val binding site [chemical binding]; other site 1001585014358 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 1001585014359 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1001585014360 active site 1001585014361 dimer interface [polypeptide binding]; other site 1001585014362 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 1001585014363 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1001585014364 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 1001585014365 metal-binding site [ion binding] 1001585014366 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1001585014367 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1001585014368 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1001585014369 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1001585014370 DNA binding residues [nucleotide binding] 1001585014371 dimer interface [polypeptide binding]; other site 1001585014372 putative metal binding site [ion binding]; other site 1001585014373 Uncharacterized conserved protein [Function unknown]; Region: COG3422 1001585014374 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1001585014375 SdiA-regulated; Region: SdiA-regulated; pfam06977 1001585014376 SdiA-regulated; Region: SdiA-regulated; cd09971 1001585014377 putative active site [active] 1001585014378 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 1001585014379 SdiA-regulated; Region: SdiA-regulated; pfam06977 1001585014380 SdiA-regulated; Region: SdiA-regulated; cd09971 1001585014381 putative active site [active] 1001585014382 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1001585014383 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 1001585014384 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1001585014385 FAD binding domain; Region: FAD_binding_4; pfam01565 1001585014386 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1001585014387 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1001585014388 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1001585014389 ligand binding site [chemical binding]; other site 1001585014390 NAD binding site [chemical binding]; other site 1001585014391 tetramer interface [polypeptide binding]; other site 1001585014392 catalytic site [active] 1001585014393 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1001585014394 L-serine binding site [chemical binding]; other site 1001585014395 ACT domain interface; other site 1001585014396 Uncharacterized conserved protein [Function unknown]; Region: COG1683 1001585014397 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 1001585014398 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 1001585014399 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1001585014400 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1001585014401 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585014402 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1001585014403 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585014404 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1001585014405 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 1001585014406 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 1001585014407 active site 1001585014408 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1001585014409 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 1001585014410 SecA binding site; other site 1001585014411 Preprotein binding site; other site 1001585014412 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 1001585014413 GSH binding site [chemical binding]; other site 1001585014414 catalytic residues [active] 1001585014415 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 1001585014416 active site residue [active] 1001585014417 phosphoglyceromutase; Provisional; Region: PRK05434 1001585014418 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 1001585014419 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1001585014420 Peptidase family M23; Region: Peptidase_M23; pfam01551 1001585014421 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1001585014422 C-terminal peptidase (prc); Region: prc; TIGR00225 1001585014423 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 1001585014424 protein binding site [polypeptide binding]; other site 1001585014425 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1001585014426 Catalytic dyad [active] 1001585014427 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1001585014428 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 1001585014429 substrate binding pocket [chemical binding]; other site 1001585014430 membrane-bound complex binding site; other site 1001585014431 hinge residues; other site 1001585014432 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585014433 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 1001585014434 substrate binding pocket [chemical binding]; other site 1001585014435 membrane-bound complex binding site; other site 1001585014436 hinge residues; other site 1001585014437 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1001585014438 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 1001585014439 substrate binding pocket [chemical binding]; other site 1001585014440 membrane-bound complex binding site; other site 1001585014441 hinge residues; other site 1001585014442 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 1001585014443 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1001585014444 substrate binding site [chemical binding]; other site 1001585014445 glutamase interaction surface [polypeptide binding]; other site 1001585014446 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 1001585014447 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1001585014448 catalytic residues [active] 1001585014449 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 1001585014450 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1001585014451 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1001585014452 putative active site [active] 1001585014453 oxyanion strand; other site 1001585014454 catalytic triad [active] 1001585014455 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1001585014456 putative active site pocket [active] 1001585014457 4-fold oligomerization interface [polypeptide binding]; other site 1001585014458 metal binding residues [ion binding]; metal-binding site 1001585014459 3-fold/trimer interface [polypeptide binding]; other site 1001585014460 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1001585014461 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1001585014462 AsmA family; Region: AsmA; pfam05170 1001585014463 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1001585014464 adenine DNA glycosylase; Provisional; Region: PRK10880 1001585014465 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1001585014466 minor groove reading motif; other site 1001585014467 helix-hairpin-helix signature motif; other site 1001585014468 substrate binding pocket [chemical binding]; other site 1001585014469 active site 1001585014470 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 1001585014471 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 1001585014472 DNA binding and oxoG recognition site [nucleotide binding] 1001585014473 oxidative damage protection protein; Provisional; Region: PRK05408 1001585014474 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1001585014475 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1001585014476 Walker A/P-loop; other site 1001585014477 ATP binding site [chemical binding]; other site 1001585014478 Q-loop/lid; other site 1001585014479 ABC transporter signature motif; other site 1001585014480 Walker B; other site 1001585014481 D-loop; other site 1001585014482 H-loop/switch region; other site 1001585014483 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585014484 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 1001585014485 substrate binding pocket [chemical binding]; other site 1001585014486 membrane-bound complex binding site; other site 1001585014487 hinge residues; other site 1001585014488 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1001585014489 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585014490 dimer interface [polypeptide binding]; other site 1001585014491 conserved gate region; other site 1001585014492 putative PBP binding loops; other site 1001585014493 ABC-ATPase subunit interface; other site 1001585014494 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585014495 dimer interface [polypeptide binding]; other site 1001585014496 conserved gate region; other site 1001585014497 putative PBP binding loops; other site 1001585014498 ABC-ATPase subunit interface; other site 1001585014499 Methyltransferase domain; Region: Methyltransf_32; pfam13679 1001585014500 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1001585014501 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1001585014502 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1001585014503 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 1001585014504 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 1001585014505 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 1001585014506 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1001585014507 NAD binding site [chemical binding]; other site 1001585014508 substrate binding site [chemical binding]; other site 1001585014509 homodimer interface [polypeptide binding]; other site 1001585014510 active site 1001585014511 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1001585014512 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1001585014513 substrate binding site; other site 1001585014514 tetramer interface; other site 1001585014515 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 1001585014516 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1001585014517 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1001585014518 NADP binding site [chemical binding]; other site 1001585014519 active site 1001585014520 putative substrate binding site [chemical binding]; other site 1001585014521 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585014522 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585014523 dimer interface [polypeptide binding]; other site 1001585014524 putative CheW interface [polypeptide binding]; other site 1001585014525 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1001585014526 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 1001585014527 dimer interface [polypeptide binding]; other site 1001585014528 phosphorylation site [posttranslational modification] 1001585014529 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585014530 ATP binding site [chemical binding]; other site 1001585014531 G-X-G motif; other site 1001585014532 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1001585014533 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585014534 active site 1001585014535 phosphorylation site [posttranslational modification] 1001585014536 intermolecular recognition site; other site 1001585014537 dimerization interface [polypeptide binding]; other site 1001585014538 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 1001585014539 Walker A motif; other site 1001585014540 ATP binding site [chemical binding]; other site 1001585014541 Walker B motif; other site 1001585014542 arginine finger; other site 1001585014543 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1001585014544 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585014545 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1001585014546 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1001585014547 DctM-like transporters; Region: DctM; pfam06808 1001585014548 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1001585014549 Protein of unknown function (DUF502); Region: DUF502; cl01107 1001585014550 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1001585014551 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 1001585014552 putative DNA binding site [nucleotide binding]; other site 1001585014553 putative Zn2+ binding site [ion binding]; other site 1001585014554 AsnC family; Region: AsnC_trans_reg; pfam01037 1001585014555 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1001585014556 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1001585014557 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 1001585014558 Walker A motif; other site 1001585014559 ATP binding site [chemical binding]; other site 1001585014560 Walker B motif; other site 1001585014561 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 1001585014562 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1001585014563 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585014564 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 1001585014565 PAS fold; Region: PAS_3; pfam08447 1001585014566 putative active site [active] 1001585014567 heme pocket [chemical binding]; other site 1001585014568 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585014569 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585014570 metal binding site [ion binding]; metal-binding site 1001585014571 active site 1001585014572 I-site; other site 1001585014573 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1001585014574 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 1001585014575 Di-iron ligands [ion binding]; other site 1001585014576 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 1001585014577 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1001585014578 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 1001585014579 PAS fold; Region: PAS_3; pfam08447 1001585014580 putative active site [active] 1001585014581 heme pocket [chemical binding]; other site 1001585014582 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 1001585014583 PAS domain; Region: PAS_9; pfam13426 1001585014584 putative active site [active] 1001585014585 heme pocket [chemical binding]; other site 1001585014586 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585014587 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585014588 metal binding site [ion binding]; metal-binding site 1001585014589 active site 1001585014590 I-site; other site 1001585014591 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 1001585014592 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1001585014593 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585014594 active site 1001585014595 phosphorylation site [posttranslational modification] 1001585014596 intermolecular recognition site; other site 1001585014597 dimerization interface [polypeptide binding]; other site 1001585014598 HDOD domain; Region: HDOD; pfam08668 1001585014599 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1001585014600 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1001585014601 PAS domain S-box; Region: sensory_box; TIGR00229 1001585014602 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 1001585014603 putative active site [active] 1001585014604 heme pocket [chemical binding]; other site 1001585014605 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 1001585014606 PAS fold; Region: PAS_3; pfam08447 1001585014607 putative active site [active] 1001585014608 heme pocket [chemical binding]; other site 1001585014609 PAS domain S-box; Region: sensory_box; TIGR00229 1001585014610 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 1001585014611 putative active site [active] 1001585014612 heme pocket [chemical binding]; other site 1001585014613 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1001585014614 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 1001585014615 putative active site [active] 1001585014616 heme pocket [chemical binding]; other site 1001585014617 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 1001585014618 dimer interface [polypeptide binding]; other site 1001585014619 phosphorylation site [posttranslational modification] 1001585014620 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585014621 ATP binding site [chemical binding]; other site 1001585014622 Mg2+ binding site [ion binding]; other site 1001585014623 G-X-G motif; other site 1001585014624 GAF domain; Region: GAF; pfam01590 1001585014625 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1001585014626 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 1001585014627 PAS domain; Region: PAS_9; pfam13426 1001585014628 putative active site [active] 1001585014629 heme pocket [chemical binding]; other site 1001585014630 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 1001585014631 putative active site [active] 1001585014632 heme pocket [chemical binding]; other site 1001585014633 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 1001585014634 dimer interface [polypeptide binding]; other site 1001585014635 phosphorylation site [posttranslational modification] 1001585014636 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585014637 ATP binding site [chemical binding]; other site 1001585014638 Mg2+ binding site [ion binding]; other site 1001585014639 G-X-G motif; other site 1001585014640 CHASE domain; Region: CHASE; pfam03924 1001585014641 PAS fold; Region: PAS_3; pfam08447 1001585014642 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1001585014643 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 1001585014644 dimer interface [polypeptide binding]; other site 1001585014645 phosphorylation site [posttranslational modification] 1001585014646 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585014647 ATP binding site [chemical binding]; other site 1001585014648 Mg2+ binding site [ion binding]; other site 1001585014649 G-X-G motif; other site 1001585014650 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585014651 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585014652 active site 1001585014653 phosphorylation site [posttranslational modification] 1001585014654 intermolecular recognition site; other site 1001585014655 dimerization interface [polypeptide binding]; other site 1001585014656 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1001585014657 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 1001585014658 active site 1001585014659 phosphorylation site [posttranslational modification] 1001585014660 intermolecular recognition site; other site 1001585014661 dimerization interface [polypeptide binding]; other site 1001585014662 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585014663 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585014664 active site 1001585014665 phosphorylation site [posttranslational modification] 1001585014666 intermolecular recognition site; other site 1001585014667 dimerization interface [polypeptide binding]; other site 1001585014668 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585014669 active site 1001585014670 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 1001585014671 phosphorylation site [posttranslational modification] 1001585014672 intermolecular recognition site; other site 1001585014673 dimerization interface [polypeptide binding]; other site 1001585014674 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585014675 active site 1001585014676 phosphorylation site [posttranslational modification] 1001585014677 intermolecular recognition site; other site 1001585014678 dimerization interface [polypeptide binding]; other site 1001585014679 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585014680 metal binding site [ion binding]; metal-binding site 1001585014681 active site 1001585014682 I-site; other site 1001585014683 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585014684 dimer interface [polypeptide binding]; other site 1001585014685 conserved gate region; other site 1001585014686 putative PBP binding loops; other site 1001585014687 ABC-ATPase subunit interface; other site 1001585014688 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1001585014689 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585014690 dimer interface [polypeptide binding]; other site 1001585014691 conserved gate region; other site 1001585014692 putative PBP binding loops; other site 1001585014693 ABC-ATPase subunit interface; other site 1001585014694 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1001585014695 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1001585014696 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1001585014697 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 1001585014698 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585014699 Walker A/P-loop; other site 1001585014700 ATP binding site [chemical binding]; other site 1001585014701 Q-loop/lid; other site 1001585014702 ABC transporter signature motif; other site 1001585014703 Walker B; other site 1001585014704 D-loop; other site 1001585014705 H-loop/switch region; other site 1001585014706 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1001585014707 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585014708 dimer interface [polypeptide binding]; other site 1001585014709 conserved gate region; other site 1001585014710 putative PBP binding loops; other site 1001585014711 ABC-ATPase subunit interface; other site 1001585014712 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1001585014713 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 1001585014714 active site 1001585014715 dimer interface [polypeptide binding]; other site 1001585014716 non-prolyl cis peptide bond; other site 1001585014717 insertion regions; other site 1001585014718 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1001585014719 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 1001585014720 substrate binding pocket [chemical binding]; other site 1001585014721 membrane-bound complex binding site; other site 1001585014722 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1001585014723 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 1001585014724 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1001585014725 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1001585014726 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 1001585014727 dimer interface [polypeptide binding]; other site 1001585014728 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1001585014729 catalytic triad [active] 1001585014730 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585014731 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1001585014732 Coenzyme A binding pocket [chemical binding]; other site 1001585014733 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1001585014734 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585014735 active site 1001585014736 phosphorylation site [posttranslational modification] 1001585014737 intermolecular recognition site; other site 1001585014738 dimerization interface [polypeptide binding]; other site 1001585014739 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 1001585014740 DNA binding site [nucleotide binding] 1001585014741 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1001585014742 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1001585014743 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1001585014744 Ligand Binding Site [chemical binding]; other site 1001585014745 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 1001585014746 dimer interface [polypeptide binding]; other site 1001585014747 phosphorylation site [posttranslational modification] 1001585014748 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585014749 ATP binding site [chemical binding]; other site 1001585014750 Mg2+ binding site [ion binding]; other site 1001585014751 G-X-G motif; other site 1001585014752 K+-transporting ATPase, c chain; Region: KdpC; cl00944 1001585014753 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1001585014754 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1001585014755 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1001585014756 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1001585014757 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1001585014758 Chromate transporter; Region: Chromate_transp; pfam02417 1001585014759 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1001585014760 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1001585014761 Walker A/P-loop; other site 1001585014762 ATP binding site [chemical binding]; other site 1001585014763 Q-loop/lid; other site 1001585014764 ABC transporter signature motif; other site 1001585014765 Walker B; other site 1001585014766 D-loop; other site 1001585014767 H-loop/switch region; other site 1001585014768 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1001585014769 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585014770 dimer interface [polypeptide binding]; other site 1001585014771 conserved gate region; other site 1001585014772 putative PBP binding loops; other site 1001585014773 ABC-ATPase subunit interface; other site 1001585014774 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1001585014775 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 1001585014776 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 1001585014777 membrane-bound complex binding site; other site 1001585014778 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585014779 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1001585014780 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 1001585014781 membrane-bound complex binding site; other site 1001585014782 hinge residues; other site 1001585014783 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1001585014784 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1001585014785 Flavin binding site [chemical binding]; other site 1001585014786 H+ Antiporter protein; Region: 2A0121; TIGR00900 1001585014787 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1001585014788 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 1001585014789 S-adenosylmethionine binding site [chemical binding]; other site 1001585014790 NIPSNAP; Region: NIPSNAP; pfam07978 1001585014791 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 1001585014792 homodimer interface [polypeptide binding]; other site 1001585014793 homotetramer interface [polypeptide binding]; other site 1001585014794 active site pocket [active] 1001585014795 cleavage site 1001585014796 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1001585014797 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585014798 dimer interface [polypeptide binding]; other site 1001585014799 conserved gate region; other site 1001585014800 putative PBP binding loops; other site 1001585014801 ABC-ATPase subunit interface; other site 1001585014802 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585014803 dimer interface [polypeptide binding]; other site 1001585014804 conserved gate region; other site 1001585014805 putative PBP binding loops; other site 1001585014806 ABC-ATPase subunit interface; other site 1001585014807 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1001585014808 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585014809 Walker A/P-loop; other site 1001585014810 ATP binding site [chemical binding]; other site 1001585014811 Q-loop/lid; other site 1001585014812 ABC transporter signature motif; other site 1001585014813 Walker B; other site 1001585014814 D-loop; other site 1001585014815 H-loop/switch region; other site 1001585014816 TOBE domain; Region: TOBE_2; pfam08402 1001585014817 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1001585014818 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1001585014819 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1001585014820 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1001585014821 Protein of unknown function (DUF998); Region: DUF998; pfam06197 1001585014822 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 1001585014823 putative substrate translocation pore; other site 1001585014824 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1001585014825 Cupin domain; Region: Cupin_2; cl17218 1001585014826 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585014827 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585014828 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585014829 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585014830 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 1001585014831 putative dimerization interface [polypeptide binding]; other site 1001585014832 EamA-like transporter family; Region: EamA; pfam00892 1001585014833 EamA-like transporter family; Region: EamA; pfam00892 1001585014834 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 1001585014835 dimerization interface [polypeptide binding]; other site 1001585014836 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585014837 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585014838 dimer interface [polypeptide binding]; other site 1001585014839 putative CheW interface [polypeptide binding]; other site 1001585014840 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 1001585014841 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1001585014842 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1001585014843 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585014844 dimer interface [polypeptide binding]; other site 1001585014845 conserved gate region; other site 1001585014846 putative PBP binding loops; other site 1001585014847 ABC-ATPase subunit interface; other site 1001585014848 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585014849 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 1001585014850 Walker A/P-loop; other site 1001585014851 ATP binding site [chemical binding]; other site 1001585014852 Q-loop/lid; other site 1001585014853 ABC transporter signature motif; other site 1001585014854 Walker B; other site 1001585014855 D-loop; other site 1001585014856 H-loop/switch region; other site 1001585014857 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 1001585014858 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1001585014859 Walker A motif; other site 1001585014860 ATP binding site [chemical binding]; other site 1001585014861 Walker B motif; other site 1001585014862 Serine hydrolase; Region: Ser_hydrolase; pfam06821 1001585014863 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585014864 Uncharacterized small protein [Function unknown]; Region: COG5583 1001585014865 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1001585014866 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 1001585014867 substrate binding pocket [chemical binding]; other site 1001585014868 membrane-bound complex binding site; other site 1001585014869 hinge residues; other site 1001585014870 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1001585014871 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585014872 dimer interface [polypeptide binding]; other site 1001585014873 conserved gate region; other site 1001585014874 putative PBP binding loops; other site 1001585014875 ABC-ATPase subunit interface; other site 1001585014876 sulfate transport protein; Provisional; Region: cysT; CHL00187 1001585014877 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585014878 dimer interface [polypeptide binding]; other site 1001585014879 conserved gate region; other site 1001585014880 putative PBP binding loops; other site 1001585014881 ABC-ATPase subunit interface; other site 1001585014882 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1001585014883 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1001585014884 Walker A/P-loop; other site 1001585014885 ATP binding site [chemical binding]; other site 1001585014886 Q-loop/lid; other site 1001585014887 ABC transporter signature motif; other site 1001585014888 Walker B; other site 1001585014889 D-loop; other site 1001585014890 H-loop/switch region; other site 1001585014891 TOBE-like domain; Region: TOBE_3; pfam12857 1001585014892 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 1001585014893 putative DNA binding site [nucleotide binding]; other site 1001585014894 putative Zn2+ binding site [ion binding]; other site 1001585014895 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1001585014896 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1001585014897 sequence-specific DNA binding site [nucleotide binding]; other site 1001585014898 salt bridge; other site 1001585014899 Protein of unknown function (DUF962); Region: DUF962; cl01879 1001585014900 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1001585014901 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 1001585014902 ligand binding site [chemical binding]; other site 1001585014903 flexible hinge region; other site 1001585014904 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 1001585014905 non-specific DNA interactions [nucleotide binding]; other site 1001585014906 DNA binding site [nucleotide binding] 1001585014907 sequence specific DNA binding site [nucleotide binding]; other site 1001585014908 putative cAMP binding site [chemical binding]; other site 1001585014909 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1001585014910 metal binding site [ion binding]; metal-binding site 1001585014911 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1001585014912 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1001585014913 Isochorismatase family; Region: Isochorismatase; pfam00857 1001585014914 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 1001585014915 catalytic triad [active] 1001585014916 dimer interface [polypeptide binding]; other site 1001585014917 conserved cis-peptide bond; other site 1001585014918 LysR family transcriptional regulator; Provisional; Region: PRK14997 1001585014919 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585014920 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 1001585014921 putative effector binding pocket; other site 1001585014922 putative dimerization interface [polypeptide binding]; other site 1001585014923 Transmembrane secretion effector; Region: MFS_3; pfam05977 1001585014924 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 1001585014925 putative substrate translocation pore; other site 1001585014926 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1001585014927 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1001585014928 active site 1001585014929 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 1001585014930 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 1001585014931 Isochorismatase family; Region: Isochorismatase; pfam00857 1001585014932 catalytic triad [active] 1001585014933 dimer interface [polypeptide binding]; other site 1001585014934 conserved cis-peptide bond; other site 1001585014935 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cl10015 1001585014936 homotrimer interaction site [polypeptide binding]; other site 1001585014937 putative active site [active] 1001585014938 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585014939 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585014940 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 1001585014941 dimerization interface [polypeptide binding]; other site 1001585014942 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1001585014943 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1001585014944 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1001585014945 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1001585014946 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585014947 dimer interface [polypeptide binding]; other site 1001585014948 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1001585014949 putative CheW interface [polypeptide binding]; other site 1001585014950 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 1001585014951 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585014952 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585014953 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585014954 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1001585014955 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1001585014956 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1001585014957 PAS domain S-box; Region: sensory_box; TIGR00229 1001585014958 PAS domain; Region: PAS_8; pfam13188 1001585014959 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585014960 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585014961 metal binding site [ion binding]; metal-binding site 1001585014962 active site 1001585014963 I-site; other site 1001585014964 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 1001585014965 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585014966 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585014967 active site 1001585014968 phosphorylation site [posttranslational modification] 1001585014969 intermolecular recognition site; other site 1001585014970 dimerization interface [polypeptide binding]; other site 1001585014971 HDOD domain; Region: HDOD; pfam08668 1001585014972 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1001585014973 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1001585014974 hypothetical protein; Reviewed; Region: PRK00024 1001585014975 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1001585014976 MPN+ (JAMM) motif; other site 1001585014977 Zinc-binding site [ion binding]; other site 1001585014978 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1001585014979 Flavoprotein; Region: Flavoprotein; pfam02441 1001585014980 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1001585014981 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1001585014982 trimer interface [polypeptide binding]; other site 1001585014983 active site 1001585014984 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 1001585014985 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1001585014986 active site 1001585014987 substrate binding site [chemical binding]; other site 1001585014988 metal binding site [ion binding]; metal-binding site 1001585014989 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 1001585014990 feedback inhibition sensing region; other site 1001585014991 homohexameric interface [polypeptide binding]; other site 1001585014992 nucleotide binding site [chemical binding]; other site 1001585014993 N-acetyl-L-glutamate binding site [chemical binding]; other site 1001585014994 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 1001585014995 active site 1001585014996 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1001585014997 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1001585014998 active site 1001585014999 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 1001585015000 putative active site [active] 1001585015001 putative catalytic site [active] 1001585015002 putative DNA binding site [nucleotide binding]; other site 1001585015003 putative phosphate binding site [ion binding]; other site 1001585015004 metal binding site A [ion binding]; metal-binding site 1001585015005 putative AP binding site [nucleotide binding]; other site 1001585015006 putative metal binding site B [ion binding]; other site 1001585015007 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 1001585015008 ribonuclease PH; Reviewed; Region: rph; PRK00173 1001585015009 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1001585015010 hexamer interface [polypeptide binding]; other site 1001585015011 active site 1001585015012 hypothetical protein; Provisional; Region: PRK11820 1001585015013 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1001585015014 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1001585015015 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1001585015016 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 1001585015017 catalytic site [active] 1001585015018 G-X2-G-X-G-K; other site 1001585015019 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1001585015020 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1001585015021 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1001585015022 Zn2+ binding site [ion binding]; other site 1001585015023 Mg2+ binding site [ion binding]; other site 1001585015024 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1001585015025 synthetase active site [active] 1001585015026 NTP binding site [chemical binding]; other site 1001585015027 metal binding site [ion binding]; metal-binding site 1001585015028 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 1001585015029 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1001585015030 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 1001585015031 homotrimer interaction site [polypeptide binding]; other site 1001585015032 putative active site [active] 1001585015033 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1001585015034 AAA domain; Region: AAA_28; pfam13521 1001585015035 Predicted ATPase [General function prediction only]; Region: COG3911 1001585015036 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1001585015037 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585015038 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585015039 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1001585015040 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1001585015041 putative NAD(P) binding site [chemical binding]; other site 1001585015042 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1001585015043 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585015044 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 1001585015045 dimerization interface [polypeptide binding]; other site 1001585015046 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1001585015047 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 1001585015048 generic binding surface II; other site 1001585015049 ssDNA binding site; other site 1001585015050 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 1001585015051 ATP binding site [chemical binding]; other site 1001585015052 putative Mg++ binding site [ion binding]; other site 1001585015053 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 1001585015054 nucleotide binding region [chemical binding]; other site 1001585015055 ATP-binding site [chemical binding]; other site 1001585015056 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 1001585015057 putative deacylase active site [active] 1001585015058 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1001585015059 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 1001585015060 IHF dimer interface [polypeptide binding]; other site 1001585015061 IHF - DNA interface [nucleotide binding]; other site 1001585015062 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1001585015063 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585015064 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1001585015065 Domain of unknown function DUF21; Region: DUF21; pfam01595 1001585015066 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1001585015067 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 1001585015068 Transporter associated domain; Region: CorC_HlyC; smart01091 1001585015069 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 1001585015070 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1001585015071 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 1001585015072 putative active site [active] 1001585015073 heme pocket [chemical binding]; other site 1001585015074 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 1001585015075 dimer interface [polypeptide binding]; other site 1001585015076 phosphorylation site [posttranslational modification] 1001585015077 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585015078 ATP binding site [chemical binding]; other site 1001585015079 Mg2+ binding site [ion binding]; other site 1001585015080 G-X-G motif; other site 1001585015081 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1001585015082 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585015083 active site 1001585015084 phosphorylation site [posttranslational modification] 1001585015085 intermolecular recognition site; other site 1001585015086 dimerization interface [polypeptide binding]; other site 1001585015087 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 1001585015088 DNA binding site [nucleotide binding] 1001585015089 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1001585015090 UbiA prenyltransferase family; Region: UbiA; pfam01040 1001585015091 Chorismate lyase; Region: Chor_lyase; cl01230 1001585015092 FlgN protein; Region: FlgN; pfam05130 1001585015093 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 1001585015094 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 1001585015095 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 1001585015096 Walker A motif; other site 1001585015097 ATP binding site [chemical binding]; other site 1001585015098 Walker B motif; other site 1001585015099 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 1001585015100 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 1001585015101 Flagellar assembly protein FliH; Region: FliH; pfam02108 1001585015102 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 1001585015103 MgtE intracellular N domain; Region: MgtE_N; smart00924 1001585015104 FliG C-terminal domain; Region: FliG_C; pfam01706 1001585015105 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 1001585015106 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1001585015107 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1001585015108 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 1001585015109 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1001585015110 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 1001585015111 Walker A motif; other site 1001585015112 ATP binding site [chemical binding]; other site 1001585015113 Walker B motif; other site 1001585015114 arginine finger; other site 1001585015115 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1001585015116 flagellar motor switch protein FliM; Region: fliM_switch; TIGR01397 1001585015117 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1001585015118 flagellar motor switch protein FliN; Region: fliN; TIGR02480 1001585015119 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1001585015120 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 1001585015121 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1001585015122 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1001585015123 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1001585015124 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1001585015125 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1001585015126 FHIPEP family; Region: FHIPEP; pfam00771 1001585015127 PilZ domain; Region: PilZ; pfam07238 1001585015128 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1001585015129 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1001585015130 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1001585015131 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585015132 FAD binding site [chemical binding]; other site 1001585015133 substrate binding pocket [chemical binding]; other site 1001585015134 catalytic base [active] 1001585015135 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1001585015136 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585015137 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 1001585015138 dimerization interface [polypeptide binding]; other site 1001585015139 substrate binding pocket [chemical binding]; other site 1001585015140 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1001585015141 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1001585015142 ligand binding site [chemical binding]; other site 1001585015143 homodimer interface [polypeptide binding]; other site 1001585015144 NAD(P) binding site [chemical binding]; other site 1001585015145 trimer interface B [polypeptide binding]; other site 1001585015146 trimer interface A [polypeptide binding]; other site 1001585015147 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1001585015148 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1001585015149 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1001585015150 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1001585015151 Sulfatase; Region: Sulfatase; pfam00884 1001585015152 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1001585015153 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1001585015154 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1001585015155 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1001585015156 Methyltransferase domain; Region: Methyltransf_24; pfam13578 1001585015157 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 1001585015158 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 1001585015159 active site 1001585015160 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1001585015161 active site 1001585015162 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 1001585015163 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1001585015164 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1001585015165 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1001585015166 Walker A/P-loop; other site 1001585015167 ATP binding site [chemical binding]; other site 1001585015168 Q-loop/lid; other site 1001585015169 ABC transporter signature motif; other site 1001585015170 Walker B; other site 1001585015171 D-loop; other site 1001585015172 H-loop/switch region; other site 1001585015173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 1001585015174 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1001585015175 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 1001585015176 Probable Catalytic site; other site 1001585015177 metal-binding site 1001585015178 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1001585015179 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1001585015180 Probable Catalytic site; other site 1001585015181 metal-binding site 1001585015182 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1001585015183 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 1001585015184 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 1001585015185 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 1001585015186 ligand-binding site [chemical binding]; other site 1001585015187 Protein of unknown function (DUF2388); Region: DUF2388; cl09731 1001585015188 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1001585015189 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1001585015190 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1001585015191 Predicted permeases [General function prediction only]; Region: COG0679 1001585015192 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585015193 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 1001585015194 substrate binding pocket [chemical binding]; other site 1001585015195 membrane-bound complex binding site; other site 1001585015196 hinge residues; other site 1001585015197 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 1001585015198 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 1001585015199 Walker A motif; other site 1001585015200 ATP binding site [chemical binding]; other site 1001585015201 Walker B motif; other site 1001585015202 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1001585015203 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1001585015204 PhoU domain; Region: PhoU; pfam01895 1001585015205 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1001585015206 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1001585015207 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1001585015208 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 1001585015209 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1001585015210 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1001585015211 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 1001585015212 homotrimer interaction site [polypeptide binding]; other site 1001585015213 putative active site [active] 1001585015214 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1001585015215 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585015216 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585015217 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585015218 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 1001585015219 dimerization interface [polypeptide binding]; other site 1001585015220 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1001585015221 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1001585015222 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585015223 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585015224 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585015225 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1001585015226 heme-binding site [chemical binding]; other site 1001585015227 PAS domain S-box; Region: sensory_box; TIGR00229 1001585015228 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 1001585015229 putative active site [active] 1001585015230 heme pocket [chemical binding]; other site 1001585015231 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1001585015232 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585015233 metal binding site [ion binding]; metal-binding site 1001585015234 active site 1001585015235 I-site; other site 1001585015236 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 1001585015237 PAS domain; Region: PAS_9; pfam13426 1001585015238 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 1001585015239 putative active site [active] 1001585015240 heme pocket [chemical binding]; other site 1001585015241 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585015242 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585015243 dimer interface [polypeptide binding]; other site 1001585015244 putative CheW interface [polypeptide binding]; other site 1001585015245 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1001585015246 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1001585015247 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1001585015248 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 1001585015249 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 1001585015250 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 1001585015251 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 1001585015252 motif II; other site 1001585015253 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1001585015254 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1001585015255 HlyD family secretion protein; Region: HlyD_3; pfam13437 1001585015256 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1001585015257 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1001585015258 Walker A/P-loop; other site 1001585015259 ATP binding site [chemical binding]; other site 1001585015260 Q-loop/lid; other site 1001585015261 ABC transporter signature motif; other site 1001585015262 Walker B; other site 1001585015263 D-loop; other site 1001585015264 H-loop/switch region; other site 1001585015265 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1001585015266 FtsX-like permease family; Region: FtsX; pfam02687 1001585015267 Outer membrane efflux protein; Region: OEP; pfam02321 1001585015268 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1001585015269 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585015270 Coenzyme A binding pocket [chemical binding]; other site 1001585015271 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1001585015272 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 1001585015273 trimer interface [polypeptide binding]; other site 1001585015274 putative metal binding site [ion binding]; other site 1001585015275 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1001585015276 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1001585015277 active site 1001585015278 Zn binding site [ion binding]; other site 1001585015279 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 1001585015280 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 1001585015281 Protein of unknown function; Region: DUF3658; pfam12395 1001585015282 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1001585015283 Helix-turn-helix domain; Region: HTH_18; pfam12833 1001585015284 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585015285 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1001585015286 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1001585015287 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1001585015288 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 1001585015289 active site clefts [active] 1001585015290 zinc binding site [ion binding]; other site 1001585015291 dimer interface [polypeptide binding]; other site 1001585015292 pyruvate carboxylase subunit B; Validated; Region: PRK09282 1001585015293 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1001585015294 active site 1001585015295 catalytic residues [active] 1001585015296 metal binding site [ion binding]; metal-binding site 1001585015297 homodimer binding site [polypeptide binding]; other site 1001585015298 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 1001585015299 carboxyltransferase (CT) interaction site; other site 1001585015300 biotinylation site [posttranslational modification]; other site 1001585015301 pyruvate carboxylase subunit A; Validated; Region: PRK07178 1001585015302 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1001585015303 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1001585015304 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1001585015305 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585015306 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585015307 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 1001585015308 putative dimerization interface [polypeptide binding]; other site 1001585015309 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1001585015310 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1001585015311 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1001585015312 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1001585015313 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1001585015314 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1001585015315 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1001585015316 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1001585015317 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1001585015318 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 1001585015319 catalytic loop [active] 1001585015320 iron binding site [ion binding]; other site 1001585015321 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1001585015322 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1001585015323 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1001585015324 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 1001585015325 putative active site [active] 1001585015326 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1001585015327 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1001585015328 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1001585015329 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 1001585015330 muropeptide transporter; Validated; Region: ampG; cl17669 1001585015331 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 1001585015332 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 1001585015333 metal binding site [ion binding]; metal-binding site 1001585015334 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1001585015335 metal binding site 2 [ion binding]; metal-binding site 1001585015336 putative DNA binding helix; other site 1001585015337 metal binding site 1 [ion binding]; metal-binding site 1001585015338 dimer interface [polypeptide binding]; other site 1001585015339 structural Zn2+ binding site [ion binding]; other site 1001585015340 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 1001585015341 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1001585015342 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 1001585015343 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1001585015344 ABC-ATPase subunit interface; other site 1001585015345 dimer interface [polypeptide binding]; other site 1001585015346 putative PBP binding regions; other site 1001585015347 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 1001585015348 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1001585015349 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1001585015350 Walker A/P-loop; other site 1001585015351 ATP binding site [chemical binding]; other site 1001585015352 Q-loop/lid; other site 1001585015353 ABC transporter signature motif; other site 1001585015354 Walker B; other site 1001585015355 D-loop; other site 1001585015356 H-loop/switch region; other site 1001585015357 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1001585015358 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 1001585015359 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1001585015360 dimer interface [polypeptide binding]; other site 1001585015361 conserved gate region; other site 1001585015362 ABC-ATPase subunit interface; other site 1001585015363 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1001585015364 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1001585015365 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1001585015366 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585015367 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585015368 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 1001585015369 putative dimerization interface [polypeptide binding]; other site 1001585015370 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 1001585015371 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1001585015372 putative metal binding site [ion binding]; other site 1001585015373 PAS fold; Region: PAS_3; pfam08447 1001585015374 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1001585015375 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 1001585015376 PAS domain; Region: PAS_9; pfam13426 1001585015377 putative active site [active] 1001585015378 heme pocket [chemical binding]; other site 1001585015379 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585015380 metal binding site [ion binding]; metal-binding site 1001585015381 active site 1001585015382 I-site; other site 1001585015383 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 1001585015384 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1001585015385 Part of AAA domain; Region: AAA_19; pfam13245 1001585015386 Family description; Region: UvrD_C_2; pfam13538 1001585015387 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585015388 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1001585015389 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585015390 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585015391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1001585015392 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585015393 Coenzyme A binding pocket [chemical binding]; other site 1001585015394 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1001585015395 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585015396 DNA-binding site [nucleotide binding]; DNA binding site 1001585015397 FCD domain; Region: FCD; pfam07729 1001585015398 aminotransferase; Validated; Region: PRK07046 1001585015399 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 1001585015400 inhibitor-cofactor binding pocket; inhibition site 1001585015401 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585015402 catalytic residue [active] 1001585015403 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1001585015404 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1001585015405 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1001585015406 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 1001585015407 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 1001585015408 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1001585015409 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1001585015410 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1001585015411 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1001585015412 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1001585015413 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 1001585015414 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1001585015415 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1001585015416 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1001585015417 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1001585015418 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1001585015419 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 1001585015420 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 1001585015421 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1001585015422 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1001585015423 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 1001585015424 ligand binding site [chemical binding]; other site 1001585015425 flexible hinge region; other site 1001585015426 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 1001585015427 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1001585015428 metal binding triad; other site 1001585015429 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1001585015430 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1001585015431 active site 1001585015432 catalytic site [active] 1001585015433 substrate binding site [chemical binding]; other site 1001585015434 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 1001585015435 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585015436 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585015437 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_6; cd08423 1001585015438 putative dimerization interface [polypeptide binding]; other site 1001585015439 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1001585015440 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1001585015441 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1001585015442 BCCT family transporter; Region: BCCT; pfam02028 1001585015443 BCCT family transporter; Region: BCCT; pfam02028 1001585015444 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1001585015445 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1001585015446 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 1001585015447 putative active site [active] 1001585015448 catalytic site [active] 1001585015449 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 1001585015450 putative active site [active] 1001585015451 catalytic site [active] 1001585015452 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585015453 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 1001585015454 substrate binding pocket [chemical binding]; other site 1001585015455 membrane-bound complex binding site; other site 1001585015456 hinge residues; other site 1001585015457 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1001585015458 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1001585015459 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1001585015460 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1001585015461 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 1001585015462 N-terminal plug; other site 1001585015463 ligand-binding site [chemical binding]; other site 1001585015464 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 1001585015465 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 1001585015466 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 1001585015467 DctM-like transporters; Region: DctM; pfam06808 1001585015468 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1001585015469 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1001585015470 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1001585015471 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585015472 active site 1001585015473 phosphorylation site [posttranslational modification] 1001585015474 intermolecular recognition site; other site 1001585015475 dimerization interface [polypeptide binding]; other site 1001585015476 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 1001585015477 Walker A motif; other site 1001585015478 ATP binding site [chemical binding]; other site 1001585015479 Walker B motif; other site 1001585015480 arginine finger; other site 1001585015481 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1001585015482 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1001585015483 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 1001585015484 dimer interface [polypeptide binding]; other site 1001585015485 phosphorylation site [posttranslational modification] 1001585015486 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585015487 ATP binding site [chemical binding]; other site 1001585015488 Mg2+ binding site [ion binding]; other site 1001585015489 G-X-G motif; other site 1001585015490 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 1001585015491 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 1001585015492 S-adenosylmethionine binding site [chemical binding]; other site 1001585015493 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1001585015494 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 1001585015495 dimerization interface [polypeptide binding]; other site 1001585015496 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585015497 dimer interface [polypeptide binding]; other site 1001585015498 putative CheW interface [polypeptide binding]; other site 1001585015499 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1001585015500 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 1001585015501 ABC-ATPase subunit interface; other site 1001585015502 dimer interface [polypeptide binding]; other site 1001585015503 putative PBP binding regions; other site 1001585015504 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 1001585015505 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 1001585015506 putative ligand binding residues [chemical binding]; other site 1001585015507 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1001585015508 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1001585015509 Walker A/P-loop; other site 1001585015510 ATP binding site [chemical binding]; other site 1001585015511 Q-loop/lid; other site 1001585015512 ABC transporter signature motif; other site 1001585015513 Walker B; other site 1001585015514 D-loop; other site 1001585015515 H-loop/switch region; other site 1001585015516 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1001585015517 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 1001585015518 N-terminal plug; other site 1001585015519 ligand-binding site [chemical binding]; other site 1001585015520 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1001585015521 dimer interface [polypeptide binding]; other site 1001585015522 [2Fe-2S] cluster binding site [ion binding]; other site 1001585015523 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 1001585015524 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1001585015525 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1001585015526 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585015527 DNA-binding site [nucleotide binding]; DNA binding site 1001585015528 FCD domain; Region: FCD; pfam07729 1001585015529 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1001585015530 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585015531 DNA-binding site [nucleotide binding]; DNA binding site 1001585015532 FCD domain; Region: FCD; pfam07729 1001585015533 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 1001585015534 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1001585015535 active site 1001585015536 putative homodimer interface [polypeptide binding]; other site 1001585015537 SAM binding site [chemical binding]; other site 1001585015538 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1001585015539 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 1001585015540 S-adenosylmethionine binding site [chemical binding]; other site 1001585015541 precorrin-3B synthase; Region: CobG; TIGR02435 1001585015542 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1001585015543 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1001585015544 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 1001585015545 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1001585015546 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1001585015547 active site 1001585015548 SAM binding site [chemical binding]; other site 1001585015549 homodimer interface [polypeptide binding]; other site 1001585015550 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 1001585015551 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1001585015552 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1001585015553 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1001585015554 active site 1001585015555 SAM binding site [chemical binding]; other site 1001585015556 homodimer interface [polypeptide binding]; other site 1001585015557 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 1001585015558 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1001585015559 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1001585015560 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585015561 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585015562 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1001585015563 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1001585015564 conserved cys residue [active] 1001585015565 Helix-turn-helix domain; Region: HTH_18; pfam12833 1001585015566 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585015567 LysE type translocator; Region: LysE; cl00565 1001585015568 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1001585015569 Sel1 repeat; Region: Sel1; cl02723 1001585015570 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1001585015571 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 1001585015572 metabolite-proton symporter; Region: 2A0106; TIGR00883 1001585015573 putative substrate translocation pore; other site 1001585015574 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1001585015575 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 1001585015576 N-terminal plug; other site 1001585015577 ligand-binding site [chemical binding]; other site 1001585015578 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 1001585015579 muropeptide transporter; Validated; Region: ampG; cl17669 1001585015580 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585015581 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585015582 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1001585015583 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1001585015584 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1001585015585 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 1001585015586 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1001585015587 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585015588 Coenzyme A binding pocket [chemical binding]; other site 1001585015589 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 1001585015590 active site 1001585015591 SAM binding site [chemical binding]; other site 1001585015592 homodimer interface [polypeptide binding]; other site 1001585015593 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 1001585015594 metal ion-dependent adhesion site (MIDAS); other site 1001585015595 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 1001585015596 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 1001585015597 Walker A motif; other site 1001585015598 ATP binding site [chemical binding]; other site 1001585015599 Walker B motif; other site 1001585015600 arginine finger; other site 1001585015601 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1001585015602 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 1001585015603 putative substrate translocation pore; other site 1001585015604 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585015605 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1001585015606 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_6; cd08475 1001585015607 putative effector binding pocket; other site 1001585015608 putative dimerization interface [polypeptide binding]; other site 1001585015609 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1001585015610 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1001585015611 Walker A/P-loop; other site 1001585015612 ATP binding site [chemical binding]; other site 1001585015613 ABC transporter signature motif; other site 1001585015614 Walker B; other site 1001585015615 D-loop; other site 1001585015616 H-loop/switch region; other site 1001585015617 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1001585015618 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1001585015619 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1001585015620 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1001585015621 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 1001585015622 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1001585015623 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1001585015624 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1001585015625 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1001585015626 active site 1001585015627 SAM binding site [chemical binding]; other site 1001585015628 homodimer interface [polypeptide binding]; other site 1001585015629 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 1001585015630 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 1001585015631 active site 1001585015632 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1001585015633 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 1001585015634 glutaminase active site [active] 1001585015635 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 1001585015636 dimer interface [polypeptide binding]; other site 1001585015637 active site 1001585015638 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 1001585015639 dimer interface [polypeptide binding]; other site 1001585015640 active site 1001585015641 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1001585015642 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1001585015643 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1001585015644 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1001585015645 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1001585015646 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1001585015647 Substrate binding site; other site 1001585015648 Mg++ binding site; other site 1001585015649 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 1001585015650 active site 1001585015651 substrate binding site [chemical binding]; other site 1001585015652 CoA binding site [chemical binding]; other site 1001585015653 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1001585015654 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1001585015655 gamma subunit interface [polypeptide binding]; other site 1001585015656 epsilon subunit interface [polypeptide binding]; other site 1001585015657 LBP interface [polypeptide binding]; other site 1001585015658 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1001585015659 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1001585015660 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 1001585015661 alpha subunit interaction interface [polypeptide binding]; other site 1001585015662 Walker A motif; other site 1001585015663 ATP binding site [chemical binding]; other site 1001585015664 Walker B motif; other site 1001585015665 inhibitor binding site; inhibition site 1001585015666 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1001585015667 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1001585015668 core domain interface [polypeptide binding]; other site 1001585015669 delta subunit interface [polypeptide binding]; other site 1001585015670 epsilon subunit interface [polypeptide binding]; other site 1001585015671 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1001585015672 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1001585015673 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 1001585015674 beta subunit interaction interface [polypeptide binding]; other site 1001585015675 Walker A motif; other site 1001585015676 ATP binding site [chemical binding]; other site 1001585015677 Walker B motif; other site 1001585015678 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1001585015679 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1001585015680 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1001585015681 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1001585015682 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1001585015683 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1001585015684 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1001585015685 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1001585015686 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 1001585015687 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1001585015688 ParB-like nuclease domain; Region: ParBc; pfam02195 1001585015689 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1001585015690 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 1001585015691 P-loop; other site 1001585015692 Magnesium ion binding site [ion binding]; other site 1001585015693 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 1001585015694 Magnesium ion binding site [ion binding]; other site 1001585015695 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1001585015696 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1001585015697 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1001585015698 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1001585015699 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1001585015700 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1001585015701 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1001585015702 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1001585015703 G1 box; other site 1001585015704 GTP/Mg2+ binding site [chemical binding]; other site 1001585015705 Switch I region; other site 1001585015706 G2 box; other site 1001585015707 Switch II region; other site 1001585015708 G3 box; other site 1001585015709 G4 box; other site 1001585015710 G5 box; other site 1001585015711 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1001585015712 membrane protein insertase; Provisional; Region: PRK01318 1001585015713 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1001585015714 hypothetical protein; Provisional; Region: PRK14371 1001585015715 Ribonuclease P; Region: Ribonuclease_P; cl00457 1001585015716 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399