-- dump date 20120504_155522 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1001585000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1001585000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 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 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585000018 Walker A/P-loop; other site 1001585000019 ATP binding site [chemical binding]; other site 1001585000020 Q-loop/lid; other site 1001585000021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 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 pathogenicity island 1 effector protein SipB; Provisional; Region: PRK15374 1001585000039 Apolipoprotein L; Region: ApoL; pfam05461 1001585000040 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 1001585000041 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1001585000042 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 1001585000043 Walker A/P-loop; other site 1001585000044 ATP binding site [chemical binding]; other site 1001585000045 Q-loop/lid; other site 1001585000046 ABC transporter signature motif; other site 1001585000047 Walker B; other site 1001585000048 D-loop; other site 1001585000049 H-loop/switch region; other site 1001585000050 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1001585000051 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1001585000052 active site 1001585000053 ATP binding site [chemical binding]; other site 1001585000054 substrate binding site [chemical binding]; other site 1001585000055 activation loop (A-loop); other site 1001585000056 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 1001585000057 metal ion-dependent adhesion site (MIDAS); other site 1001585000058 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 1001585000059 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 1001585000060 active site 1001585000061 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 1001585000062 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1001585000063 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 1001585000064 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1001585000065 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1001585000066 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 1001585000067 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1001585000068 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585000069 ligand binding site [chemical binding]; other site 1001585000070 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 1001585000071 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1001585000072 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 1001585000073 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 1001585000074 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 1001585000075 phosphopeptide binding site; other site 1001585000076 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1001585000077 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1001585000078 Protein of unknown function (DUF770); Region: DUF770; cl01402 1001585000079 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 1001585000080 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1001585000081 Protein of unknown function (DUF796); Region: DUF796; cl01226 1001585000082 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 1001585000083 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1001585000084 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1001585000085 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 1001585000086 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 1001585000087 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1001585000088 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585000089 Walker A motif; other site 1001585000090 ATP binding site [chemical binding]; other site 1001585000091 Walker B motif; other site 1001585000092 arginine finger; other site 1001585000093 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585000094 Walker A motif; other site 1001585000095 ATP binding site [chemical binding]; other site 1001585000096 Walker B motif; other site 1001585000097 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1001585000098 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1001585000099 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1001585000100 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1001585000101 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 1001585000102 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 1001585000103 PAAR motif; Region: PAAR_motif; cl15808 1001585000104 RHS Repeat; Region: RHS_repeat; cl11982 1001585000105 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1001585000106 RHS Repeat; Region: RHS_repeat; cl11982 1001585000107 RHS Repeat; Region: RHS_repeat; cl11982 1001585000108 RHS Repeat; Region: RHS_repeat; cl11982 1001585000109 RHS Repeat; Region: RHS_repeat; cl11982 1001585000110 RHS Repeat; Region: RHS_repeat; cl11982 1001585000111 RHS Repeat; Region: RHS_repeat; cl11982 1001585000112 RHS Repeat; Region: RHS_repeat; cl11982 1001585000113 RHS protein; Region: RHS; pfam03527 1001585000114 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1001585000115 Protein of unknown function (DUF4237); Region: DUF4237; pfam14021 1001585000116 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585000117 metal binding site [ion binding]; metal-binding site 1001585000118 active site 1001585000119 I-site; other site 1001585000120 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 1001585000121 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1001585000122 putative acyl-acceptor binding pocket; other site 1001585000123 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 1001585000124 active site 1001585000125 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 1001585000126 active site 1001585000127 catalytic residues [active] 1001585000128 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1001585000129 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585000130 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; cl16911 1001585000131 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 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; cl01059 1001585000147 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 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; cl01260 1001585000152 Predicted integral membrane protein [Function unknown]; Region: COG0392 1001585000153 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 1001585000154 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1001585000155 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 1001585000156 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 1001585000157 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 1001585000158 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; 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 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 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 Helix-turn-helix domains; Region: HTH; cl00088 1001585000207 NMT1-like family; Region: NMT1_2; cl15260 1001585000208 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1001585000209 NlpC/P60 family; Region: NLPC_P60; cl11438 1001585000210 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1001585000211 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1001585000212 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585000213 Coenzyme A binding pocket [chemical binding]; other site 1001585000214 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1001585000215 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 1001585000216 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585000217 DNA-binding site [nucleotide binding]; DNA binding site 1001585000218 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 1001585000219 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585000220 homodimer interface [polypeptide binding]; other site 1001585000221 catalytic residue [active] 1001585000222 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 1001585000223 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1001585000224 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1001585000225 tetramerization interface [polypeptide binding]; other site 1001585000226 NAD(P) binding site [chemical binding]; other site 1001585000227 catalytic residues [active] 1001585000228 hypothetical protein; Provisional; Region: PRK07482 1001585000229 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 1001585000230 inhibitor-cofactor binding pocket; inhibition site 1001585000231 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585000232 catalytic residue [active] 1001585000233 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 1001585000234 binding surface 1001585000235 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1001585000236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585000237 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; cl15357 1001585000238 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585000239 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; cl15357 1001585000240 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1001585000241 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 1001585000242 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 1001585000243 S-adenosylmethionine binding site [chemical binding]; other site 1001585000244 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1001585000245 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1001585000246 putative active site [active] 1001585000247 substrate binding site [chemical binding]; other site 1001585000248 putative cosubstrate binding site; other site 1001585000249 catalytic site [active] 1001585000250 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1001585000251 substrate binding site [chemical binding]; other site 1001585000252 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 1001585000253 active site 1001585000254 catalytic residues [active] 1001585000255 metal binding site [ion binding]; metal-binding site 1001585000256 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1001585000257 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 1001585000258 putative peptidoglycan binding site; other site 1001585000259 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1001585000260 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1001585000261 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1001585000262 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1001585000263 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1001585000264 NADP binding site [chemical binding]; other site 1001585000265 dimer interface [polypeptide binding]; other site 1001585000266 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 1001585000267 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1001585000268 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1001585000269 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1001585000270 shikimate binding site; other site 1001585000271 NAD(P) binding site [chemical binding]; other site 1001585000272 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; cl01562 1001585000273 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1001585000274 Sulfate transporter family; Region: Sulfate_transp; cl15842 1001585000275 Sulfate transporter family; Region: Sulfate_transp; cl15842 1001585000276 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 1001585000277 NMT1-like family; Region: NMT1_2; cl15260 1001585000278 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1001585000279 Sulfatase; Region: Sulfatase; cl10460 1001585000280 choline-sulfatase; Region: chol_sulfatase; TIGR03417 1001585000281 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 1001585000282 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1001585000283 Helix-turn-helix domains; Region: HTH; cl00088 1001585000284 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 1001585000285 dimerization interface [polypeptide binding]; other site 1001585000286 substrate binding pocket [chemical binding]; other site 1001585000287 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 1001585000288 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1001585000289 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585000290 Helix-turn-helix domains; Region: HTH; cl00088 1001585000291 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 1001585000292 dimerization interface [polypeptide binding]; other site 1001585000293 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 1001585000294 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1001585000295 active site 1001585000296 catalytic tetrad [active] 1001585000297 short chain dehydrogenase; Provisional; Region: PRK06123 1001585000298 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585000299 NAD(P) binding site [chemical binding]; other site 1001585000300 active site 1001585000301 putative cation:proton antiport protein; Provisional; Region: PRK10669 1001585000302 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1001585000303 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585000304 Sulfate transporter family; Region: Sulfate_transp; cl15842 1001585000305 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1001585000306 Sulfate transporter family; Region: Sulfate_transp; cl15842 1001585000307 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 1001585000308 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 1001585000309 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 1001585000310 substrate binding site [chemical binding]; other site 1001585000311 active site 1001585000312 catalytic residues [active] 1001585000313 heterodimer interface [polypeptide binding]; other site 1001585000314 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 1001585000315 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1001585000316 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585000317 catalytic residue [active] 1001585000318 Protein of unknown function (DUF3060); Region: DUF3060; pfam11259 1001585000319 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1001585000320 Helix-turn-helix domains; Region: HTH; cl00088 1001585000321 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 1001585000322 dimerization interface [polypeptide binding]; other site 1001585000323 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 1001585000324 FAD binding site [chemical binding]; other site 1001585000325 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 1001585000326 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585000327 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 1001585000328 DNA binding residues [nucleotide binding] 1001585000329 fec operon regulator FecR; Reviewed; Region: PRK09774 1001585000330 FecR protein; Region: FecR; pfam04773 1001585000331 Secretin and TonB N terminus short domain; Region: STN; cl06624 1001585000332 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1001585000333 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 1001585000334 N-terminal plug; other site 1001585000335 ligand-binding site [chemical binding]; other site 1001585000336 Dodecin; Region: Dodecin; cl01328 1001585000337 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1001585000338 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 1001585000339 putative NAD(P) binding site [chemical binding]; other site 1001585000340 active site 1001585000341 putative substrate binding site [chemical binding]; other site 1001585000342 Nucleoside recognition; Region: Gate; cl00486 1001585000343 Nucleoside recognition; Region: Gate; cl00486 1001585000344 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; cl07428 1001585000345 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 1001585000346 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1001585000347 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585000348 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1001585000349 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 1001585000350 DctM-like transporters; Region: DctM; pfam06808 1001585000351 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1001585000352 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 1001585000353 active site 1001585000354 phosphate binding residues; other site 1001585000355 catalytic residues [active] 1001585000356 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 1001585000357 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 1001585000358 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1001585000359 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1001585000360 AIR carboxylase; Region: AIRC; cl00310 1001585000361 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1001585000362 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1001585000363 NAD binding site [chemical binding]; other site 1001585000364 substrate binding site [chemical binding]; other site 1001585000365 catalytic Zn binding site [ion binding]; other site 1001585000366 tetramer interface [polypeptide binding]; other site 1001585000367 structural Zn binding site [ion binding]; other site 1001585000368 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585000369 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585000370 Sulfatase; Region: Sulfatase; cl10460 1001585000371 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl01922 1001585000372 BNR repeat-like domain; Region: BNR_2; pfam13088 1001585000373 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 1001585000374 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 1001585000375 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1001585000376 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 1001585000377 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1001585000378 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 1001585000379 cell density-dependent motility repressor; Provisional; Region: PRK10082 1001585000380 Helix-turn-helix domains; Region: HTH; cl00088 1001585000381 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 1001585000382 dimerization interface [polypeptide binding]; other site 1001585000383 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1001585000384 Aspartase; Region: Aspartase; cd01357 1001585000385 active sites [active] 1001585000386 tetramer interface [polypeptide binding]; other site 1001585000387 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1001585000388 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1001585000389 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 1001585000390 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 1001585000391 metal ion-dependent adhesion site (MIDAS); other site 1001585000392 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 1001585000393 Low-spin heme binding site [chemical binding]; other site 1001585000394 D-pathway; other site 1001585000395 Binuclear center (active site) [active] 1001585000396 K-pathway; other site 1001585000397 Putative proton exit pathway; other site 1001585000398 Putative water exit pathway; other site 1001585000399 Cytochrome c; Region: Cytochrom_C; cl11414 1001585000400 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 1001585000401 Subunit I/III interface [polypeptide binding]; other site 1001585000402 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585000403 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 1001585000404 Cytochrome c; Region: Cytochrom_C; cl11414 1001585000405 FMN-binding domain; Region: FMN_bind; cl01081 1001585000406 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 1001585000407 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1001585000408 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1001585000409 nitrous-oxide reductase; Validated; Region: PRK02888 1001585000410 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 1001585000411 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 1001585000412 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1001585000413 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1001585000414 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1001585000415 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 1001585000416 Walker A/P-loop; other site 1001585000417 ATP binding site [chemical binding]; other site 1001585000418 Q-loop/lid; other site 1001585000419 ABC transporter signature motif; other site 1001585000420 Walker B; other site 1001585000421 D-loop; other site 1001585000422 H-loop/switch region; other site 1001585000423 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1001585000424 NosL; Region: NosL; cl01769 1001585000425 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1001585000426 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 1001585000427 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 1001585000428 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 1001585000429 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 1001585000430 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1001585000431 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 1001585000432 ligand binding site [chemical binding]; other site 1001585000433 flexible hinge region; other site 1001585000434 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 1001585000435 non-specific DNA interactions [nucleotide binding]; other site 1001585000436 DNA binding site [nucleotide binding] 1001585000437 sequence specific DNA binding site [nucleotide binding]; other site 1001585000438 putative cAMP binding site [chemical binding]; other site 1001585000439 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1001585000440 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 1001585000441 ligand binding site [chemical binding]; other site 1001585000442 flexible hinge region; other site 1001585000443 Helix-turn-helix domains; Region: HTH; cl00088 1001585000444 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1001585000445 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1001585000446 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1001585000447 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1001585000448 active site 1001585000449 homodimer interface [polypeptide binding]; other site 1001585000450 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1001585000451 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585000452 Coenzyme A binding pocket [chemical binding]; other site 1001585000453 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 1001585000454 homotrimer interaction site [polypeptide binding]; other site 1001585000455 putative active site [active] 1001585000456 Glutaminase; Region: Glutaminase; cl00907 1001585000457 Membrane transport protein; Region: Mem_trans; cl09117 1001585000458 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1001585000459 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1001585000460 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 1001585000461 Cytochrome c; Region: Cytochrom_C; cl11414 1001585000462 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1001585000463 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 1001585000464 Subunit I/III interface [polypeptide binding]; other site 1001585000465 D-pathway; other site 1001585000466 Subunit I/VIIc interface [polypeptide binding]; other site 1001585000467 Subunit I/IV interface [polypeptide binding]; other site 1001585000468 Subunit I/II interface [polypeptide binding]; other site 1001585000469 Low-spin heme (heme a) binding site [chemical binding]; other site 1001585000470 Subunit I/VIIa interface [polypeptide binding]; other site 1001585000471 Subunit I/VIa interface [polypeptide binding]; other site 1001585000472 Dimer interface; other site 1001585000473 Putative water exit pathway; other site 1001585000474 Binuclear center (heme a3/CuB) [ion binding]; other site 1001585000475 K-pathway; other site 1001585000476 Subunit I/Vb interface [polypeptide binding]; other site 1001585000477 Putative proton exit pathway; other site 1001585000478 Subunit I/VIb interface; other site 1001585000479 Subunit I/VIc interface [polypeptide binding]; other site 1001585000480 Electron transfer pathway; other site 1001585000481 Subunit I/VIIIb interface [polypeptide binding]; other site 1001585000482 Subunit I/VIIb interface [polypeptide binding]; other site 1001585000483 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 1001585000484 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 1001585000485 Subunit III/VIIa interface [polypeptide binding]; other site 1001585000486 Phospholipid binding site [chemical binding]; other site 1001585000487 Subunit I/III interface [polypeptide binding]; other site 1001585000488 Subunit III/VIb interface [polypeptide binding]; other site 1001585000489 Subunit III/VIa interface; other site 1001585000490 Subunit III/Vb interface [polypeptide binding]; other site 1001585000491 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1001585000492 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 1001585000493 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 1001585000494 UbiA prenyltransferase family; Region: UbiA; cl00337 1001585000495 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1001585000496 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 1001585000497 Cu(I) binding site [ion binding]; other site 1001585000498 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 1001585000499 Phosphotransferase enzyme family; Region: APH; pfam01636 1001585000500 putative active site [active] 1001585000501 putative substrate binding site [chemical binding]; other site 1001585000502 ATP binding site [chemical binding]; other site 1001585000503 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 1001585000504 DNA polymerase I; Provisional; Region: PRK05755 1001585000505 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1001585000506 active site 1001585000507 metal binding site 1 [ion binding]; metal-binding site 1001585000508 putative 5' ssDNA interaction site; other site 1001585000509 metal binding site 3; metal-binding site 1001585000510 metal binding site 2 [ion binding]; metal-binding site 1001585000511 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1001585000512 putative DNA binding site [nucleotide binding]; other site 1001585000513 putative metal binding site [ion binding]; other site 1001585000514 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 1001585000515 active site 1001585000516 catalytic site [active] 1001585000517 substrate binding site [chemical binding]; other site 1001585000518 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1001585000519 active site 1001585000520 DNA binding site [nucleotide binding] 1001585000521 catalytic site [active] 1001585000522 Predicted GTPase [General function prediction only]; Region: COG0218 1001585000523 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1001585000524 G1 box; other site 1001585000525 GTP/Mg2+ binding site [chemical binding]; other site 1001585000526 Switch I region; other site 1001585000527 G2 box; other site 1001585000528 G3 box; other site 1001585000529 Switch II region; other site 1001585000530 G4 box; other site 1001585000531 G5 box; other site 1001585000532 Cytochrome c; Region: Cytochrom_C; cl11414 1001585000533 Cytochrome c; Region: Cytochrom_C; cl11414 1001585000534 Cytochrome c; Region: Cytochrom_C; cl11414 1001585000535 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 1001585000536 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1001585000537 catalytic residues [active] 1001585000538 hinge region; other site 1001585000539 alpha helical domain; other site 1001585000540 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1001585000541 putative catalytic site [active] 1001585000542 putative phosphate binding site [ion binding]; other site 1001585000543 putative metal binding site [ion binding]; other site 1001585000544 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585000545 metal binding site [ion binding]; metal-binding site 1001585000546 active site 1001585000547 I-site; other site 1001585000548 xanthine permease; Region: pbuX; TIGR03173 1001585000549 MarC family integral membrane protein; Region: MarC; cl00919 1001585000550 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 1001585000551 amidase catalytic site [active] 1001585000552 Zn binding residues [ion binding]; other site 1001585000553 substrate binding site [chemical binding]; other site 1001585000554 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 1001585000555 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 1001585000556 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585000557 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585000558 active site 1001585000559 phosphorylation site [posttranslational modification] 1001585000560 intermolecular recognition site; other site 1001585000561 dimerization interface [polypeptide binding]; other site 1001585000562 CHASE3 domain; Region: CHASE3; cl05000 1001585000563 GAF domain; Region: GAF; cl15785 1001585000564 GAF domain; Region: GAF_2; pfam13185 1001585000565 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 1001585000566 dimer interface [polypeptide binding]; other site 1001585000567 phosphorylation site [posttranslational modification] 1001585000568 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585000569 ATP binding site [chemical binding]; other site 1001585000570 Mg2+ binding site [ion binding]; other site 1001585000571 G-X-G motif; other site 1001585000572 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585000573 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585000574 active site 1001585000575 phosphorylation site [posttranslational modification] 1001585000576 intermolecular recognition site; other site 1001585000577 dimerization interface [polypeptide binding]; other site 1001585000578 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1001585000579 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585000580 active site 1001585000581 phosphorylation site [posttranslational modification] 1001585000582 intermolecular recognition site; other site 1001585000583 dimerization interface [polypeptide binding]; other site 1001585000584 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585000585 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585000586 active site 1001585000587 phosphorylation site [posttranslational modification] 1001585000588 intermolecular recognition site; other site 1001585000589 dimerization interface [polypeptide binding]; other site 1001585000590 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1001585000591 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1001585000592 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; cl16911 1001585000593 CheB methylesterase; Region: CheB_methylest; pfam01339 1001585000594 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585000595 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585000596 active site 1001585000597 phosphorylation site [posttranslational modification] 1001585000598 intermolecular recognition site; other site 1001585000599 dimerization interface [polypeptide binding]; other site 1001585000600 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 1001585000601 dimer interface [polypeptide binding]; other site 1001585000602 phosphorylation site [posttranslational modification] 1001585000603 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585000604 ATP binding site [chemical binding]; other site 1001585000605 Mg2+ binding site [ion binding]; other site 1001585000606 G-X-G motif; other site 1001585000607 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 1001585000608 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1001585000609 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 1001585000610 putative active site [active] 1001585000611 heme pocket [chemical binding]; other site 1001585000612 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 1001585000613 dimer interface [polypeptide binding]; other site 1001585000614 phosphorylation site [posttranslational modification] 1001585000615 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585000616 ATP binding site [chemical binding]; other site 1001585000617 Mg2+ binding site [ion binding]; other site 1001585000618 G-X-G motif; other site 1001585000619 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1001585000620 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585000621 active site 1001585000622 phosphorylation site [posttranslational modification] 1001585000623 intermolecular recognition site; other site 1001585000624 dimerization interface [polypeptide binding]; other site 1001585000625 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585000626 Walker A motif; other site 1001585000627 ATP binding site [chemical binding]; other site 1001585000628 Walker B motif; other site 1001585000629 arginine finger; other site 1001585000630 Helix-turn-helix domains; Region: HTH; cl00088 1001585000631 BON domain; Region: BON; cl02771 1001585000632 BON domain; Region: BON; cl02771 1001585000633 BON domain; Region: BON; cl02771 1001585000634 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1001585000635 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 1001585000636 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1001585000637 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 1001585000638 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 1001585000639 ABC-ATPase subunit interface; other site 1001585000640 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 1001585000641 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 1001585000642 dimer interface [polypeptide binding]; other site 1001585000643 conserved gate region; other site 1001585000644 putative PBP binding loops; other site 1001585000645 ABC-ATPase subunit interface; other site 1001585000646 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 1001585000647 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 1001585000648 Walker A/P-loop; other site 1001585000649 ATP binding site [chemical binding]; other site 1001585000650 Q-loop/lid; other site 1001585000651 ABC transporter signature motif; other site 1001585000652 Walker B; other site 1001585000653 D-loop; other site 1001585000654 H-loop/switch region; other site 1001585000655 transcriptional regulator PhoU; Provisional; Region: PRK11115 1001585000656 PhoU domain; Region: PhoU; pfam01895 1001585000657 PhoU domain; Region: PhoU; pfam01895 1001585000658 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585000659 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585000660 active site 1001585000661 phosphorylation site [posttranslational modification] 1001585000662 intermolecular recognition site; other site 1001585000663 dimerization interface [polypeptide binding]; other site 1001585000664 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1001585000665 Peptidase family M23; Region: Peptidase_M23; pfam01551 1001585000666 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1001585000667 flagellar capping protein; Reviewed; Region: fliD; PRK08032 1001585000668 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1001585000669 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1001585000670 Flagellar protein FliS; Region: FliS; cl00654 1001585000671 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 1001585000672 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 1001585000673 flagellar biosynthesis sigma factor; Provisional; Region: PRK12427 1001585000674 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585000675 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1001585000676 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 1001585000677 DNA binding residues [nucleotide binding] 1001585000678 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1001585000679 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1001585000680 hypothetical protein; Validated; Region: PRK06778 1001585000681 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1001585000682 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585000683 ligand binding site [chemical binding]; other site 1001585000684 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 1001585000685 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 1001585000686 DNA binding site [nucleotide binding] 1001585000687 flagellin; Provisional; Region: PRK12802 1001585000688 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1001585000689 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1001585000690 Rubredoxin [Energy production and conversion]; Region: COG1773 1001585000691 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 1001585000692 iron binding site [ion binding]; other site 1001585000693 L-lactate permease; Region: Lactate_perm; cl00701 1001585000694 glycolate transporter; Provisional; Region: PRK09695 1001585000695 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 1001585000696 active site 1001585000697 Domain of unknown function (DUF336); Region: DUF336; cl01249 1001585000698 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1001585000699 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 1001585000700 Cysteine-rich domain; Region: CCG; pfam02754 1001585000701 Cysteine-rich domain; Region: CCG; pfam02754 1001585000702 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1001585000703 FAD binding domain; Region: FAD_binding_4; pfam01565 1001585000704 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1001585000705 FAD binding domain; Region: FAD_binding_4; pfam01565 1001585000706 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 1001585000707 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585000708 DNA-binding site [nucleotide binding]; DNA binding site 1001585000709 FCD domain; Region: FCD; cl11656 1001585000710 SAF domain; Region: SAF; cl00555 1001585000711 SAF-like; Region: SAF_2; pfam13144 1001585000712 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 1001585000713 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK12685 1001585000714 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 1001585000715 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1001585000716 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1001585000717 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK09619 1001585000718 FlgD Ig-like domain; Region: FlgD_ig; cl15790 1001585000719 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 1001585000720 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 1001585000721 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1001585000722 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1001585000723 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1001585000724 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 1001585000725 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1001585000726 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1001585000727 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1001585000728 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 1001585000729 Flagellar L-ring protein; Region: FlgH; cl00905 1001585000730 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1001585000731 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1001585000732 Rod binding protein; Region: Rod-binding; cl01626 1001585000733 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 1001585000734 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1001585000735 catalytic residue [active] 1001585000736 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 1001585000737 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1001585000738 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 1001585000739 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1001585000740 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1001585000741 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 1001585000742 PAS fold; Region: PAS_3; pfam08447 1001585000743 putative active site [active] 1001585000744 heme pocket [chemical binding]; other site 1001585000745 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585000746 metal binding site [ion binding]; metal-binding site 1001585000747 active site 1001585000748 I-site; other site 1001585000749 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 1001585000750 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 1001585000751 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 1001585000752 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 1001585000753 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 1001585000754 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 1001585000755 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; cl07913 1001585000756 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1001585000757 Acyl transferase domain; Region: Acyl_transf_1; cl08282 1001585000758 Malonate transporter MadL subunit; Region: MadL; cl04273 1001585000759 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 1001585000760 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585000761 Helix-turn-helix domains; Region: HTH; cl00088 1001585000762 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 1001585000763 putative dimerization interface [polypeptide binding]; other site 1001585000764 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 1001585000765 CoenzymeA binding site [chemical binding]; other site 1001585000766 subunit interaction site [polypeptide binding]; other site 1001585000767 PHB binding site; other site 1001585000768 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1001585000769 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1001585000770 NAD(P) binding site [chemical binding]; other site 1001585000771 Helix-turn-helix domains; Region: HTH; cl00088 1001585000772 putative glutathione S-transferase; Provisional; Region: PRK10357 1001585000773 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 1001585000774 putative C-terminal domain interface [polypeptide binding]; other site 1001585000775 putative GSH binding site (G-site) [chemical binding]; other site 1001585000776 putative dimer interface [polypeptide binding]; other site 1001585000777 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1001585000778 N-terminal domain interface [polypeptide binding]; other site 1001585000779 dimer interface [polypeptide binding]; other site 1001585000780 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1001585000781 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 1001585000782 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585000783 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585000784 dimer interface [polypeptide binding]; other site 1001585000785 putative CheW interface [polypeptide binding]; other site 1001585000786 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 1001585000787 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585000788 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585000789 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585000790 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585000791 DNA-binding site [nucleotide binding]; DNA binding site 1001585000792 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1001585000793 Helix-turn-helix domains; Region: HTH; cl00088 1001585000794 DNA-binding site [nucleotide binding]; DNA binding site 1001585000795 FCD domain; Region: FCD; cl11656 1001585000796 SAF domain; Region: SAF; cl00555 1001585000797 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 1001585000798 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1001585000799 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1001585000800 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 1001585000801 DctM-like transporters; Region: DctM; pfam06808 1001585000802 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585000803 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585000804 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1001585000805 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585000806 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 1001585000807 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1001585000808 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 1001585000809 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 1001585000810 phosphate binding site [ion binding]; other site 1001585000811 Dehydratase family; Region: ILVD_EDD; cl00340 1001585000812 DctM-like transporters; Region: DctM; pfam06808 1001585000813 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 1001585000814 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1001585000815 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585000816 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585000817 Helix-turn-helix domains; Region: HTH; cl00088 1001585000818 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1001585000819 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 1001585000820 dimerization interface [polypeptide binding]; other site 1001585000821 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1001585000822 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 1001585000823 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1001585000824 NMT1-like family; Region: NMT1_2; cl15260 1001585000825 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1001585000826 Helix-turn-helix domains; Region: HTH; cl00088 1001585000827 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 1001585000828 putative dimerization interface [polypeptide binding]; other site 1001585000829 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 1001585000830 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1001585000831 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1001585000832 Helix-turn-helix domains; Region: HTH; cl00088 1001585000833 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 1001585000834 dimerization interface [polypeptide binding]; other site 1001585000835 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1001585000836 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 1001585000837 putative active site [active] 1001585000838 metal binding site [ion binding]; metal-binding site 1001585000839 Helix-turn-helix domains; Region: HTH; cl00088 1001585000840 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 1001585000841 dimerization interface [polypeptide binding]; other site 1001585000842 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 1001585000843 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1001585000844 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1001585000845 dimer interface [polypeptide binding]; other site 1001585000846 NADP binding site [chemical binding]; other site 1001585000847 catalytic residues [active] 1001585000848 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585000849 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585000850 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1001585000851 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1001585000852 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 1001585000853 DNA binding residues [nucleotide binding] 1001585000854 WYL domain; Region: WYL; cl14852 1001585000855 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1001585000856 Sel1 repeat; Region: Sel1; cl02723 1001585000857 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 1001585000858 GAF domain; Region: GAF; cl15785 1001585000859 Phytochrome region; Region: PHY; pfam00360 1001585000860 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 1001585000861 dimer interface [polypeptide binding]; other site 1001585000862 phosphorylation site [posttranslational modification] 1001585000863 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585000864 ATP binding site [chemical binding]; other site 1001585000865 Mg2+ binding site [ion binding]; other site 1001585000866 G-X-G motif; other site 1001585000867 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 1001585000868 heme binding pocket [chemical binding]; other site 1001585000869 heme ligand [chemical binding]; other site 1001585000870 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1001585000871 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1001585000872 tetramerization interface [polypeptide binding]; other site 1001585000873 NAD(P) binding site [chemical binding]; other site 1001585000874 catalytic residues [active] 1001585000875 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 1001585000876 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 1001585000877 inhibitor-cofactor binding pocket; inhibition site 1001585000878 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585000879 catalytic residue [active] 1001585000880 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585000881 Helix-turn-helix domains; Region: HTH; cl00088 1001585000882 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 1001585000883 putative substrate translocation pore; other site 1001585000884 Cupin domain; Region: Cupin_2; cl09118 1001585000885 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 1001585000886 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1001585000887 NAD(P) binding site [chemical binding]; other site 1001585000888 catalytic residues [active] 1001585000889 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 1001585000890 putative substrate translocation pore; other site 1001585000891 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 1001585000892 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585000893 DNA-binding site [nucleotide binding]; DNA binding site 1001585000894 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 1001585000895 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585000896 homodimer interface [polypeptide binding]; other site 1001585000897 catalytic residue [active] 1001585000898 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 1001585000899 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585000900 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1001585000901 Flagellin N-methylase; Region: FliB; cl00497 1001585000902 RNA polymerase sigma factor; Reviewed; Region: PRK12527 1001585000903 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1001585000904 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1001585000905 FecR protein; Region: FecR; pfam04773 1001585000906 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1001585000907 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 1001585000908 N-terminal plug; other site 1001585000909 ligand-binding site [chemical binding]; other site 1001585000910 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1001585000911 Helix-turn-helix domains; Region: HTH; cl00088 1001585000912 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1001585000913 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585000914 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 1001585000915 homotrimer interaction site [polypeptide binding]; other site 1001585000916 putative active site [active] 1001585000917 alanine racemase; Reviewed; Region: dadX; PRK03646 1001585000918 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1001585000919 active site 1001585000920 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1001585000921 substrate binding site [chemical binding]; other site 1001585000922 catalytic residues [active] 1001585000923 dimer interface [polypeptide binding]; other site 1001585000924 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1001585000925 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 1001585000926 non-specific DNA binding site [nucleotide binding]; other site 1001585000927 salt bridge; other site 1001585000928 sequence-specific DNA binding site [nucleotide binding]; other site 1001585000929 Cupin domain; Region: Cupin_2; cl09118 1001585000930 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 1001585000931 Cytochrome c; Region: Cytochrom_C; cl11414 1001585000932 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 1001585000933 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 1001585000934 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 1001585000935 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1001585000936 active site 1001585000937 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 1001585000938 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1001585000939 Family description; Region: UvrD_C_2; cl15862 1001585000940 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585000941 metal binding site [ion binding]; metal-binding site 1001585000942 active site 1001585000943 I-site; other site 1001585000944 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 1001585000945 multidrug efflux protein NorA; Provisional; Region: PRK00187 1001585000946 MatE; Region: MatE; cl10513 1001585000947 MatE; Region: MatE; cl10513 1001585000948 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1001585000949 Helix-turn-helix domains; Region: HTH; cl00088 1001585000950 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 1001585000951 dimerization interface [polypeptide binding]; other site 1001585000952 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 1001585000953 dimerization interface [polypeptide binding]; other site 1001585000954 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585000955 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585000956 dimer interface [polypeptide binding]; other site 1001585000957 putative CheW interface [polypeptide binding]; other site 1001585000958 Mg chelatase-related protein; Region: TIGR00368 1001585000959 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 1001585000960 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585000961 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1001585000962 Membrane fusogenic activity; Region: BMFP; cl01115 1001585000963 Nitrogen regulatory protein P-II; Region: P-II; cl00412 1001585000964 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1001585000965 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1001585000966 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 1001585000967 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 1001585000968 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 1001585000969 motif II; other site 1001585000970 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1001585000971 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 1001585000972 active site 1001585000973 DNA binding site [nucleotide binding] 1001585000974 Int/Topo IB signature motif; other site 1001585000975 GAF domain; Region: GAF; cl15785 1001585000976 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1001585000977 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1001585000978 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1001585000979 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1001585000980 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1001585000981 active site 1001585000982 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1001585000983 substrate binding site [chemical binding]; other site 1001585000984 catalytic residues [active] 1001585000985 dimer interface [polypeptide binding]; other site 1001585000986 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585000987 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585000988 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585000989 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cd00503 1001585000990 putative iron binding site [ion binding]; other site 1001585000991 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 1001585000992 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1001585000993 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1001585000994 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 process of...; Region: Lipase_3; cd00519 1001585000995 active site flap/lid [active] 1001585000996 nucleophilic elbow; other site 1001585000997 catalytic triad [active] 1001585000998 adenylate cyclase; Provisional; Region: cyaA; PRK09450 1001585000999 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1001585001000 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1001585001001 adenylate cyclase; Provisional; Region: cyaA; PRK09450 1001585001002 Phosphate-starvation-inducible E; Region: PsiE; cl01264 1001585001003 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 1001585001004 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585001005 substrate binding pocket [chemical binding]; other site 1001585001006 membrane-bound complex binding site; other site 1001585001007 hinge residues; other site 1001585001008 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1001585001009 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585001010 Coenzyme A binding pocket [chemical binding]; other site 1001585001011 argininosuccinate lyase; Provisional; Region: PRK00855 1001585001012 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1001585001013 active sites [active] 1001585001014 tetramer interface [polypeptide binding]; other site 1001585001015 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1001585001016 Histidine kinase; Region: His_kinase; pfam06580 1001585001017 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1001585001018 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585001019 active site 1001585001020 phosphorylation site [posttranslational modification] 1001585001021 intermolecular recognition site; other site 1001585001022 dimerization interface [polypeptide binding]; other site 1001585001023 LytTr DNA-binding domain; Region: LytTR; cl04498 1001585001024 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1001585001025 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 1001585001026 domain interfaces; other site 1001585001027 active site 1001585001028 uroporphyrinogen-III synthase; Validated; Region: PRK05752 1001585001029 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 1001585001030 active site 1001585001031 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1001585001032 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 1001585001033 HemY protein N-terminus; Region: HemY_N; pfam07219 1001585001034 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 1001585001035 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; cl11478 1001585001036 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1001585001037 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1001585001038 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 1001585001039 Protein of unknown function (DUF2390); Region: DUF2390; cl02376 1001585001040 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1001585001041 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585001042 Walker A/P-loop; other site 1001585001043 ATP binding site [chemical binding]; other site 1001585001044 Q-loop/lid; other site 1001585001045 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 1001585001046 ABC transporter signature motif; other site 1001585001047 Walker B; other site 1001585001048 D-loop; other site 1001585001049 ABC transporter; Region: ABC_tran_2; pfam12848 1001585001050 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 1001585001051 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1001585001052 LysE type translocator; Region: LysE; cl00565 1001585001053 Cytochrome c; Region: Cytochrom_C; cl11414 1001585001054 Iron permease FTR1 family; Region: FTR1; cl00475 1001585001055 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 1001585001056 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 1001585001057 CoenzymeA binding site [chemical binding]; other site 1001585001058 subunit interaction site [polypeptide binding]; other site 1001585001059 PHB binding site; other site 1001585001060 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 1001585001061 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 1001585001062 conserved cys residue [active] 1001585001063 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 1001585001064 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1001585001065 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 1001585001066 dimer interface [polypeptide binding]; other site 1001585001067 active site 1001585001068 aspartate-rich active site metal binding site; other site 1001585001069 allosteric magnesium binding site [ion binding]; other site 1001585001070 Schiff base residues; other site 1001585001071 polyphosphate kinase; Provisional; Region: PRK05443 1001585001072 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1001585001073 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1001585001074 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1001585001075 putative active site [active] 1001585001076 catalytic site [active] 1001585001077 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1001585001078 putative domain interface [polypeptide binding]; other site 1001585001079 putative active site [active] 1001585001080 catalytic site [active] 1001585001081 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1001585001082 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 1001585001083 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1001585001084 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 1001585001085 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1001585001086 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 1001585001087 Walker A/P-loop; other site 1001585001088 ATP binding site [chemical binding]; other site 1001585001089 Q-loop/lid; other site 1001585001090 ABC transporter signature motif; other site 1001585001091 Walker B; other site 1001585001092 D-loop; other site 1001585001093 H-loop/switch region; other site 1001585001094 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 1001585001095 dimer interface [polypeptide binding]; other site 1001585001096 conserved gate region; other site 1001585001097 putative PBP binding loops; other site 1001585001098 ABC-ATPase subunit interface; other site 1001585001099 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 1001585001100 dimer interface [polypeptide binding]; other site 1001585001101 conserved gate region; other site 1001585001102 ABC-ATPase subunit interface; other site 1001585001103 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585001104 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 1001585001105 substrate binding pocket [chemical binding]; other site 1001585001106 membrane-bound complex binding site; other site 1001585001107 hinge residues; other site 1001585001108 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1001585001109 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585001110 DNA-binding site [nucleotide binding]; DNA binding site 1001585001111 FCD domain; Region: FCD; cl11656 1001585001112 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 1001585001113 catalytic residues [active] 1001585001114 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1001585001115 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 1001585001116 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 1001585001117 RNA binding site [nucleotide binding]; other site 1001585001118 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 1001585001119 multimer interface [polypeptide binding]; other site 1001585001120 Walker A motif; other site 1001585001121 ATP binding site [chemical binding]; other site 1001585001122 Walker B motif; other site 1001585001123 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1001585001124 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1001585001125 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 1001585001126 catalytic loop [active] 1001585001127 iron binding site [ion binding]; other site 1001585001128 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 1001585001129 FAD binding pocket [chemical binding]; other site 1001585001130 FAD binding motif [chemical binding]; other site 1001585001131 phosphate binding motif [ion binding]; other site 1001585001132 beta-alpha-beta structure motif; other site 1001585001133 NAD binding pocket [chemical binding]; other site 1001585001134 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1001585001135 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1001585001136 NAD(P) binding site [chemical binding]; other site 1001585001137 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 1001585001138 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1001585001139 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1001585001140 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585001141 Walker A/P-loop; other site 1001585001142 ATP binding site [chemical binding]; other site 1001585001143 Q-loop/lid; other site 1001585001144 ABC transporter signature motif; other site 1001585001145 Walker B; other site 1001585001146 D-loop; other site 1001585001147 H-loop/switch region; other site 1001585001148 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585001149 Walker A/P-loop; other site 1001585001150 ATP binding site [chemical binding]; other site 1001585001151 Q-loop/lid; other site 1001585001152 ABC transporter signature motif; other site 1001585001153 Walker B; other site 1001585001154 D-loop; other site 1001585001155 H-loop/switch region; other site 1001585001156 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1001585001157 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1001585001158 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 1001585001159 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 1001585001160 CHASE domain; Region: CHASE; cl01369 1001585001161 PAS domain S-box; Region: sensory_box; TIGR00229 1001585001162 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585001163 metal binding site [ion binding]; metal-binding site 1001585001164 active site 1001585001165 I-site; other site 1001585001166 EVE domain; Region: EVE; cl00728 1001585001167 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 1001585001168 Cell division protein ZapA; Region: ZapA; cl01146 1001585001169 TIGR02449 family protein; Region: TIGR02449 1001585001170 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 1001585001171 proline aminopeptidase P II; Provisional; Region: PRK10879 1001585001172 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 1001585001173 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 1001585001174 active site 1001585001175 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 1001585001176 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585001177 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 1001585001178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585001179 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 1001585001180 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 1001585001181 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1001585001182 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 1001585001183 dimer interface [polypeptide binding]; other site 1001585001184 conserved gate region; other site 1001585001185 putative PBP binding loops; other site 1001585001186 ABC-ATPase subunit interface; other site 1001585001187 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 1001585001188 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1001585001189 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1001585001190 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 1001585001191 lipoyl attachment site [posttranslational modification]; other site 1001585001192 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 1001585001193 dimerization interface [polypeptide binding]; other site 1001585001194 putative DNA binding site [nucleotide binding]; other site 1001585001195 putative Zn2+ binding site [ion binding]; other site 1001585001196 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 1001585001197 Sulphur transport; Region: Sulf_transp; cl01018 1001585001198 Sulphur transport; Region: Sulf_transp; cl01018 1001585001199 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 1001585001200 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 1001585001201 agmatine deiminase; Region: agmatine_aguA; TIGR03380 1001585001202 N-carbamolyputrescine amidase; Region: PLN02747 1001585001203 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 1001585001204 putative active site; other site 1001585001205 catalytic triad [active] 1001585001206 putative dimer interface [polypeptide binding]; other site 1001585001207 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585001208 Helix-turn-helix domains; Region: HTH; cl00088 1001585001209 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1001585001210 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 1001585001211 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1001585001212 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1001585001213 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1001585001214 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1001585001215 putative aminotransferase; Validated; Region: PRK07480 1001585001216 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 1001585001217 inhibitor-cofactor binding pocket; inhibition site 1001585001218 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585001219 catalytic residue [active] 1001585001220 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1001585001221 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 1001585001222 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1001585001223 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 1001585001224 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 1001585001225 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585001226 Walker A/P-loop; other site 1001585001227 ATP binding site [chemical binding]; other site 1001585001228 Q-loop/lid; other site 1001585001229 ABC transporter signature motif; other site 1001585001230 Walker B; other site 1001585001231 D-loop; other site 1001585001232 H-loop/switch region; other site 1001585001233 TOBE domain; Region: TOBE_2; cl01440 1001585001234 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 1001585001235 dimer interface [polypeptide binding]; other site 1001585001236 conserved gate region; other site 1001585001237 putative PBP binding loops; other site 1001585001238 ABC-ATPase subunit interface; other site 1001585001239 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1001585001240 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 1001585001241 dimer interface [polypeptide binding]; other site 1001585001242 conserved gate region; other site 1001585001243 putative PBP binding loops; other site 1001585001244 ABC-ATPase subunit interface; other site 1001585001245 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1001585001246 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1001585001247 putative active site [active] 1001585001248 putative metal binding residues [ion binding]; other site 1001585001249 signature motif; other site 1001585001250 putative triphosphate binding site [ion binding]; other site 1001585001251 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1001585001252 Phosphate transporter family; Region: PHO4; cl00396 1001585001253 Phosphate transporter family; Region: PHO4; cl00396 1001585001254 acetylornithine deacetylase; Provisional; Region: PRK05111 1001585001255 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1001585001256 metal binding site [ion binding]; metal-binding site 1001585001257 putative dimer interface [polypeptide binding]; other site 1001585001258 N-acetylglutamate synthase; Validated; Region: PRK05279 1001585001259 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 1001585001260 putative feedback inhibition sensing region; other site 1001585001261 putative nucleotide binding site [chemical binding]; other site 1001585001262 putative substrate binding site [chemical binding]; other site 1001585001263 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585001264 Coenzyme A binding pocket [chemical binding]; other site 1001585001265 Ribosome modulation factor; Region: RMF; cl01207 1001585001266 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 1001585001267 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 1001585001268 CoenzymeA binding site [chemical binding]; other site 1001585001269 subunit interaction site [polypeptide binding]; other site 1001585001270 PHB binding site; other site 1001585001271 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1001585001272 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1001585001273 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 1001585001274 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 1001585001275 RNA binding site [nucleotide binding]; other site 1001585001276 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585001277 active site 1001585001278 phosphorylation site [posttranslational modification] 1001585001279 intermolecular recognition site; other site 1001585001280 dimerization interface [polypeptide binding]; other site 1001585001281 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 1001585001282 DNA binding site [nucleotide binding] 1001585001283 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1001585001284 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 1001585001285 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585001286 ATP binding site [chemical binding]; other site 1001585001287 Mg2+ binding site [ion binding]; other site 1001585001288 G-X-G motif; other site 1001585001289 MASE1; Region: MASE1; pfam05231 1001585001290 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 1001585001291 PAS domain; Region: PAS_9; pfam13426 1001585001292 putative active site [active] 1001585001293 heme pocket [chemical binding]; other site 1001585001294 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 1001585001295 PAS domain; Region: PAS_9; pfam13426 1001585001296 putative active site [active] 1001585001297 heme pocket [chemical binding]; other site 1001585001298 PAS domain S-box; Region: sensory_box; TIGR00229 1001585001299 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585001300 metal binding site [ion binding]; metal-binding site 1001585001301 active site 1001585001302 I-site; other site 1001585001303 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 1001585001304 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1001585001305 dimer interface [polypeptide binding]; other site 1001585001306 catalytic triad [active] 1001585001307 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1001585001308 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1001585001309 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 1001585001310 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 1001585001311 RNA binding surface [nucleotide binding]; other site 1001585001312 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 1001585001313 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1001585001314 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 1001585001315 dimerization interface [polypeptide binding]; other site 1001585001316 domain crossover interface; other site 1001585001317 redox-dependent activation switch; other site 1001585001318 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1001585001319 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 1001585001320 active site 1001585001321 substrate-binding site [chemical binding]; other site 1001585001322 metal-binding site [ion binding] 1001585001323 ATP binding site [chemical binding]; other site 1001585001324 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 1001585001325 ATP binding site [chemical binding]; other site 1001585001326 putative Mg++ binding site [ion binding]; other site 1001585001327 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 1001585001328 nucleotide binding region [chemical binding]; other site 1001585001329 ATP-binding site [chemical binding]; other site 1001585001330 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1001585001331 Protein of unknown function (DUF330); Region: DUF330; cl01135 1001585001332 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1001585001333 mce related protein; Region: MCE; pfam02470 1001585001334 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1001585001335 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585001336 Walker A/P-loop; other site 1001585001337 ATP binding site [chemical binding]; other site 1001585001338 Q-loop/lid; other site 1001585001339 ABC transporter signature motif; other site 1001585001340 Walker B; other site 1001585001341 D-loop; other site 1001585001342 H-loop/switch region; other site 1001585001343 Permease; Region: Permease; cl00510 1001585001344 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1001585001345 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585001346 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 1001585001347 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1001585001348 active site 1001585001349 catalytic tetrad [active] 1001585001350 ATP/ADP translocase [Energy production and conversion]; Region: COG3202; cl03940 1001585001351 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585001352 Helix-turn-helix domains; Region: HTH; cl00088 1001585001353 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 1001585001354 dimerization interface [polypeptide binding]; other site 1001585001355 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1001585001356 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585001357 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1001585001358 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1001585001359 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1001585001360 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1001585001361 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585001362 active site 1001585001363 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1001585001364 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1001585001365 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 1001585001366 putative active site [active] 1001585001367 metal binding site [ion binding]; metal-binding site 1001585001368 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 1001585001369 active site 1001585001370 Helix-turn-helix domains; Region: HTH; cl00088 1001585001371 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 1001585001372 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1001585001373 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 1001585001374 putative dimer interface [polypeptide binding]; other site 1001585001375 [2Fe-2S] cluster binding site [ion binding]; other site 1001585001376 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 1001585001377 putative dimer interface [polypeptide binding]; other site 1001585001378 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1001585001379 SLBB domain; Region: SLBB; pfam10531 1001585001380 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 1001585001381 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1001585001382 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 1001585001383 catalytic loop [active] 1001585001384 iron binding site [ion binding]; other site 1001585001385 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 1001585001386 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 1001585001387 [4Fe-4S] binding site [ion binding]; other site 1001585001388 molybdopterin cofactor binding site; other site 1001585001389 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 1001585001390 molybdopterin cofactor binding site; other site 1001585001391 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 1001585001392 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 1001585001393 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1001585001394 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 1001585001395 motif II; other site 1001585001396 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1001585001397 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 1001585001398 dimer interface [polypeptide binding]; other site 1001585001399 ADP-ribose binding site [chemical binding]; other site 1001585001400 active site 1001585001401 nudix motif; other site 1001585001402 metal binding site [ion binding]; metal-binding site 1001585001403 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 1001585001404 active site 1001585001405 '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) thioesters as...; Region: elong_cond_enzymes; cd00828 1001585001406 active site 1001585001407 dihydroorotase; Validated; Region: pyrC; PRK09357 1001585001408 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 1001585001409 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 1001585001410 active site 1001585001411 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1001585001412 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1001585001413 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585001414 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1001585001415 active site 1001585001416 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 1001585001417 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 1001585001418 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1001585001419 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1001585001420 glutathione synthetase; Provisional; Region: PRK05246 1001585001421 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1001585001422 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1001585001423 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585001424 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585001425 active site 1001585001426 phosphorylation site [posttranslational modification] 1001585001427 intermolecular recognition site; other site 1001585001428 dimerization interface [polypeptide binding]; other site 1001585001429 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585001430 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585001431 active site 1001585001432 phosphorylation site [posttranslational modification] 1001585001433 intermolecular recognition site; other site 1001585001434 dimerization interface [polypeptide binding]; other site 1001585001435 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 1001585001436 putative CheA interaction surface; other site 1001585001437 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1001585001438 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585001439 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585001440 dimer interface [polypeptide binding]; other site 1001585001441 putative CheW interface [polypeptide binding]; other site 1001585001442 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1001585001443 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 1001585001444 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; cl16911 1001585001445 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1001585001446 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 1001585001447 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1001585001448 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 1001585001449 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 1001585001450 putative binding surface; other site 1001585001451 active site 1001585001452 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 1001585001453 putative binding surface; other site 1001585001454 active site 1001585001455 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 1001585001456 putative binding surface; other site 1001585001457 active site 1001585001458 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1001585001459 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585001460 ATP binding site [chemical binding]; other site 1001585001461 Mg2+ binding site [ion binding]; other site 1001585001462 G-X-G motif; other site 1001585001463 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 1001585001464 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585001465 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585001466 active site 1001585001467 phosphorylation site [posttranslational modification] 1001585001468 intermolecular recognition site; other site 1001585001469 dimerization interface [polypeptide binding]; other site 1001585001470 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 1001585001471 CheB methylesterase; Region: CheB_methylest; pfam01339 1001585001472 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 1001585001473 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1001585001474 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1001585001475 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 1001585001476 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 1001585001477 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 1001585001478 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 1001585001479 inhibitor-cofactor binding pocket; inhibition site 1001585001480 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585001481 catalytic residue [active] 1001585001482 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 1001585001483 YceI-like domain; Region: YceI; cl01001 1001585001484 helicase 45; Provisional; Region: PTZ00424 1001585001485 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 1001585001486 ATP binding site [chemical binding]; other site 1001585001487 Mg++ binding site [ion binding]; other site 1001585001488 motif III; other site 1001585001489 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 1001585001490 nucleotide binding region [chemical binding]; other site 1001585001491 ATP-binding site [chemical binding]; other site 1001585001492 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585001493 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 1001585001494 substrate binding pocket [chemical binding]; other site 1001585001495 membrane-bound complex binding site; other site 1001585001496 hinge residues; other site 1001585001497 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1001585001498 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1001585001499 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 1001585001500 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 1001585001501 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 1001585001502 FAD binding site [chemical binding]; other site 1001585001503 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1001585001504 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585001505 oligomerization interface [polypeptide binding]; other site 1001585001506 active site 1001585001507 NAD+ binding site [chemical binding]; other site 1001585001508 MAPEG family; Region: MAPEG; cl09190 1001585001509 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1001585001510 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585001511 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585001512 dimer interface [polypeptide binding]; other site 1001585001513 putative CheW interface [polypeptide binding]; other site 1001585001514 Cytochrome C'; Region: Cytochrom_C_2; cl01610 1001585001515 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 1001585001516 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 1001585001517 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 1001585001518 nucleotide binding pocket [chemical binding]; other site 1001585001519 K-X-D-G motif; other site 1001585001520 catalytic site [active] 1001585001521 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1001585001522 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1001585001523 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1001585001524 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1001585001525 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1001585001526 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 1001585001527 putative DNA binding site [nucleotide binding]; other site 1001585001528 dimerization interface [polypeptide binding]; other site 1001585001529 putative Zn2+ binding site [ion binding]; other site 1001585001530 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1001585001531 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 1001585001532 S-adenosylmethionine binding site [chemical binding]; other site 1001585001533 Helix-turn-helix domains; Region: HTH; cl00088 1001585001534 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1001585001535 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 1001585001536 putative dimerization interface [polypeptide binding]; other site 1001585001537 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 1001585001538 gating phenylalanine in ion channel; other site 1001585001539 transketolase; Reviewed; Region: PRK12753 1001585001540 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 1001585001541 TPP-binding site [chemical binding]; other site 1001585001542 dimer interface [polypeptide binding]; other site 1001585001543 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 1001585001544 PYR/PP interface [polypeptide binding]; other site 1001585001545 dimer interface [polypeptide binding]; other site 1001585001546 TPP binding site [chemical binding]; other site 1001585001547 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1001585001548 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 1001585001549 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585001550 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 1001585001551 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 1001585001552 Phosphoglycerate kinase; Region: PGK; pfam00162 1001585001553 substrate binding site [chemical binding]; other site 1001585001554 hinge regions; other site 1001585001555 ADP binding site [chemical binding]; other site 1001585001556 catalytic site [active] 1001585001557 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 1001585001558 hypothetical protein; Provisional; Region: PRK08185 1001585001559 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 1001585001560 intersubunit interface [polypeptide binding]; other site 1001585001561 active site 1001585001562 zinc binding site [ion binding]; other site 1001585001563 Na+ binding site [ion binding]; other site 1001585001564 Alginate lyase; Region: Alginate_lyase2; pfam08787 1001585001565 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1001585001566 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1001585001567 Protein of unknown function DUF45; Region: DUF45; cl00636 1001585001568 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 1001585001569 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1001585001570 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1001585001571 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1001585001572 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585001573 metal binding site [ion binding]; metal-binding site 1001585001574 active site 1001585001575 I-site; other site 1001585001576 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 1001585001577 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1001585001578 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 1001585001579 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585001580 Helix-turn-helix domains; Region: HTH; cl00088 1001585001581 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1001585001582 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1001585001583 N-terminal domain interface [polypeptide binding]; other site 1001585001584 dimer interface [polypeptide binding]; other site 1001585001585 substrate binding pocket (H-site) [chemical binding]; other site 1001585001586 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1001585001587 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 1001585001588 C-terminal domain interface [polypeptide binding]; other site 1001585001589 GSH binding site (G-site) [chemical binding]; other site 1001585001590 dimer interface [polypeptide binding]; other site 1001585001591 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1001585001592 N-terminal domain interface [polypeptide binding]; other site 1001585001593 putative dimer interface [polypeptide binding]; other site 1001585001594 active site 1001585001595 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1001585001596 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 1001585001597 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585001598 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; cl15357 1001585001599 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; cl15357 1001585001600 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; cl15357 1001585001601 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 1001585001602 HI0933-like protein; Region: HI0933_like; pfam03486 1001585001603 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585001604 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585001605 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 1001585001606 substrate binding pocket [chemical binding]; other site 1001585001607 membrane-bound complex binding site; other site 1001585001608 hinge residues; other site 1001585001609 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 1001585001610 active site 1001585001611 phosphorylation site [posttranslational modification] 1001585001612 intermolecular recognition site; other site 1001585001613 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585001614 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585001615 active site 1001585001616 phosphorylation site [posttranslational modification] 1001585001617 intermolecular recognition site; other site 1001585001618 dimerization interface [polypeptide binding]; other site 1001585001619 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585001620 metal binding site [ion binding]; metal-binding site 1001585001621 active site 1001585001622 I-site; other site 1001585001623 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1001585001624 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 1001585001625 ATP binding site [chemical binding]; other site 1001585001626 Mg++ binding site [ion binding]; other site 1001585001627 motif III; other site 1001585001628 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 1001585001629 nucleotide binding region [chemical binding]; other site 1001585001630 ATP-binding site [chemical binding]; other site 1001585001631 DbpA RNA binding domain; Region: DbpA; pfam03880 1001585001632 putative transporter; Provisional; Region: PRK10504 1001585001633 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 1001585001634 putative substrate translocation pore; other site 1001585001635 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 1001585001636 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1001585001637 choline dehydrogenase; Validated; Region: PRK02106 1001585001638 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1001585001639 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1001585001640 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 1001585001641 tetrameric interface [polypeptide binding]; other site 1001585001642 NAD binding site [chemical binding]; other site 1001585001643 catalytic residues [active] 1001585001644 transcriptional regulator BetI; Validated; Region: PRK00767 1001585001645 Helix-turn-helix domains; Region: HTH; cl00088 1001585001646 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 1001585001647 NMT1-like family; Region: NMT1_2; cl15260 1001585001648 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1001585001649 NMT1-like family; Region: NMT1_2; cl15260 1001585001650 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1001585001651 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 1001585001652 dimer interface [polypeptide binding]; other site 1001585001653 conserved gate region; other site 1001585001654 putative PBP binding loops; other site 1001585001655 ABC-ATPase subunit interface; other site 1001585001656 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1001585001657 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 1001585001658 Walker A/P-loop; other site 1001585001659 ATP binding site [chemical binding]; other site 1001585001660 Q-loop/lid; other site 1001585001661 ABC transporter signature motif; other site 1001585001662 Walker B; other site 1001585001663 D-loop; other site 1001585001664 H-loop/switch region; other site 1001585001665 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 1001585001666 NMT1-like family; Region: NMT1_2; cl15260 1001585001667 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1001585001668 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1001585001669 conserved cys residue [active] 1001585001670 probable amidohydrolase EF_0837/AHA_3915; Region: EF_0837; TIGR03583 1001585001671 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585001672 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585001673 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 1001585001674 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1001585001675 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 1001585001676 Ligand binding site [chemical binding]; other site 1001585001677 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1001585001678 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 1001585001679 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1001585001680 Cysteine-rich domain; Region: CCG; pfam02754 1001585001681 Cysteine-rich domain; Region: CCG; pfam02754 1001585001682 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1001585001683 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 1001585001684 putative active site [active] 1001585001685 putative FMN binding site [chemical binding]; other site 1001585001686 putative substrate binding site [chemical binding]; other site 1001585001687 putative catalytic residue [active] 1001585001688 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585001689 Heme NO binding; Region: HNOB; cl15268 1001585001690 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 1001585001691 active site 1001585001692 dimer interface [polypeptide binding]; other site 1001585001693 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1001585001694 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1001585001695 conserved cys residue [active] 1001585001696 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1001585001697 NMT1-like family; Region: NMT1_2; cl15260 1001585001698 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 1001585001699 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 1001585001700 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585001701 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1001585001702 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 1001585001703 active site 1001585001704 Flagellin N-methylase; Region: FliB; cl00497 1001585001705 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 1001585001706 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 1001585001707 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 1001585001708 PAS fold; Region: PAS; pfam00989 1001585001709 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1001585001710 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585001711 metal binding site [ion binding]; metal-binding site 1001585001712 active site 1001585001713 I-site; other site 1001585001714 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 1001585001715 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 1001585001716 active site 1001585001717 catalytic triad [active] 1001585001718 oxyanion hole [active] 1001585001719 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 1001585001720 fructose-1,6-bisphosphatase family protein; Region: PLN02628 1001585001721 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 1001585001722 AMP binding site [chemical binding]; other site 1001585001723 metal binding site [ion binding]; metal-binding site 1001585001724 active site 1001585001725 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 1001585001726 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 1001585001727 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 1001585001728 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1001585001729 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585001730 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 1001585001731 putative active site [active] 1001585001732 dimerization interface [polypeptide binding]; other site 1001585001733 putative tRNAtyr binding site [nucleotide binding]; other site 1001585001734 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 1001585001735 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 1001585001736 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1001585001737 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1001585001738 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1001585001739 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 1001585001740 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 1001585001741 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1001585001742 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1001585001743 SCP-2 sterol transfer family; Region: SCP2; cl01225 1001585001744 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 1001585001745 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 1001585001746 S-adenosylmethionine binding site [chemical binding]; other site 1001585001747 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; cl16911 1001585001748 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 1001585001749 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 1001585001750 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 1001585001751 Helix-turn-helix domains; Region: HTH; cl00088 1001585001752 Bacterial transcriptional repressor; Region: TetR; pfam13972 1001585001753 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 1001585001754 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1001585001755 poly(3-hydroxyalkanoate) depolymerase; Region: PHA_depoly_arom; TIGR02240 1001585001756 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585001757 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 1001585001758 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1001585001759 Protein of unknown function (DUF971); Region: DUF971; cl01414 1001585001760 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1001585001761 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585001762 Walker A motif; other site 1001585001763 ATP binding site [chemical binding]; other site 1001585001764 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585001765 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1001585001766 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 1001585001767 active site 1001585001768 HslU subunit interaction site [polypeptide binding]; other site 1001585001769 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 1001585001770 Sporulation related domain; Region: SPOR; cl10051 1001585001771 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 1001585001772 arginine-tRNA ligase; Region: PLN02286 1001585001773 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1001585001774 active site 1001585001775 HIGH motif; other site 1001585001776 KMSK motif region; other site 1001585001777 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1001585001778 tRNA binding surface [nucleotide binding]; other site 1001585001779 anticodon binding site; other site 1001585001780 primosome assembly protein PriA; Validated; Region: PRK05580 1001585001781 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 1001585001782 ATP binding site [chemical binding]; other site 1001585001783 putative Mg++ binding site [ion binding]; other site 1001585001784 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585001785 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 1001585001786 Staphylococcal nuclease homologues; Region: SNc; smart00318 1001585001787 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1001585001788 Catalytic site; other site 1001585001789 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 1001585001790 Peptidase family M48; Region: Peptidase_M48; cl12018 1001585001791 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1001585001792 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1001585001793 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1001585001794 putative NAD(P) binding site [chemical binding]; other site 1001585001795 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1001585001796 Transglycosylase; Region: Transgly; cl07896 1001585001797 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1001585001798 Competence protein A; Region: Competence_A; pfam11104 1001585001799 Cell division protein FtsA; Region: FtsA; cl11496 1001585001800 Pilus assembly protein, PilO; Region: PilO; cl01234 1001585001801 Pilus assembly protein, PilP; Region: PilP; pfam04351 1001585001802 AMIN domain; Region: AMIN; pfam11741 1001585001803 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1001585001804 Secretin and TonB N terminus short domain; Region: STN; cl06624 1001585001805 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1001585001806 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1001585001807 shikimate kinase; Reviewed; Region: aroK; PRK00131 1001585001808 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 1001585001809 ADP binding site [chemical binding]; other site 1001585001810 magnesium binding site [ion binding]; other site 1001585001811 putative shikimate binding site; other site 1001585001812 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1001585001813 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1001585001814 active site 1001585001815 dimer interface [polypeptide binding]; other site 1001585001816 metal binding site [ion binding]; metal-binding site 1001585001817 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 1001585001818 Sporulation related domain; Region: SPOR; cl10051 1001585001819 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1001585001820 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 1001585001821 active site 1001585001822 dimer interface [polypeptide binding]; other site 1001585001823 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1001585001824 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 1001585001825 active site 1001585001826 FMN binding site [chemical binding]; other site 1001585001827 substrate binding site [chemical binding]; other site 1001585001828 3Fe-4S cluster binding site [ion binding]; other site 1001585001829 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 1001585001830 domain interface; other site 1001585001831 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 1001585001832 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585001833 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585001834 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1001585001835 PAS domain; Region: PAS_9; pfam13426 1001585001836 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1001585001837 PAS domain; Region: PAS_9; pfam13426 1001585001838 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1001585001839 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 1001585001840 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585001841 Walker A motif; other site 1001585001842 ATP binding site [chemical binding]; other site 1001585001843 Walker B motif; other site 1001585001844 arginine finger; other site 1001585001845 NMT1-like family; Region: NMT1_2; cl15260 1001585001846 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1001585001847 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 1001585001848 dimer interface [polypeptide binding]; other site 1001585001849 conserved gate region; other site 1001585001850 putative PBP binding loops; other site 1001585001851 ABC-ATPase subunit interface; other site 1001585001852 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1001585001853 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 1001585001854 Walker A/P-loop; other site 1001585001855 ATP binding site [chemical binding]; other site 1001585001856 Q-loop/lid; other site 1001585001857 ABC transporter signature motif; other site 1001585001858 Walker B; other site 1001585001859 D-loop; other site 1001585001860 H-loop/switch region; other site 1001585001861 cyanate hydratase; Validated; Region: PRK02866 1001585001862 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 1001585001863 oligomer interface [polypeptide binding]; other site 1001585001864 active site 1001585001865 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1001585001866 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 1001585001867 substrate binding site [chemical binding]; other site 1001585001868 active site 1001585001869 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 1001585001870 'initiating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are characterized by the...; Region: init_cond_enzymes; cd00827 1001585001871 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 1001585001872 dimer interface [polypeptide binding]; other site 1001585001873 active site 1001585001874 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 1001585001875 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 1001585001876 active site 1001585001877 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1001585001878 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1001585001879 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1001585001880 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585001881 Walker A/P-loop; other site 1001585001882 ATP binding site [chemical binding]; other site 1001585001883 Q-loop/lid; other site 1001585001884 ABC transporter signature motif; other site 1001585001885 Walker B; other site 1001585001886 D-loop; other site 1001585001887 H-loop/switch region; other site 1001585001888 Phospholipid methyltransferase; Region: PEMT; cl00763 1001585001889 VirB8 protein; Region: VirB8; cl01500 1001585001890 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 1001585001891 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 1001585001892 dimer interface [polypeptide binding]; other site 1001585001893 active site 1001585001894 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1001585001895 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1001585001896 NAD(P) binding site [chemical binding]; other site 1001585001897 homotetramer interface [polypeptide binding]; other site 1001585001898 homodimer interface [polypeptide binding]; other site 1001585001899 active site 1001585001900 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 1001585001901 putative active site 1 [active] 1001585001902 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 1001585001903 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 1001585001904 dimer interface [polypeptide binding]; other site 1001585001905 active site 1001585001906 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 1001585001907 S-adenosylmethionine binding site [chemical binding]; other site 1001585001908 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; cl16911 1001585001909 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1001585001910 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585001911 Predicted exporter [General function prediction only]; Region: COG4258 1001585001912 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 1001585001913 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 1001585001914 active site 1001585001915 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1001585001916 active sites [active] 1001585001917 tetramer interface [polypeptide binding]; other site 1001585001918 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1001585001919 putative acyl-acceptor binding pocket; other site 1001585001920 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1001585001921 Ligand binding site; other site 1001585001922 Putative Catalytic site; other site 1001585001923 DXD motif; other site 1001585001924 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585001925 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 1001585001926 active site 2 [active] 1001585001927 dimer interface [polypeptide binding]; other site 1001585001928 active site 1 [active] 1001585001929 Predicted membrane protein [Function unknown]; Region: COG4648 1001585001930 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1001585001931 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1001585001932 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1001585001933 putative acyl-acceptor binding pocket; other site 1001585001934 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 1001585001935 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1001585001936 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 1001585001937 P-loop; other site 1001585001938 Magnesium ion binding site [ion binding]; other site 1001585001939 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 1001585001940 Magnesium ion binding site [ion binding]; other site 1001585001941 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 1001585001942 Ligand Binding Site [chemical binding]; other site 1001585001943 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 1001585001944 Ligand Binding Site [chemical binding]; other site 1001585001945 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 1001585001946 CoenzymeA binding site [chemical binding]; other site 1001585001947 subunit interaction site [polypeptide binding]; other site 1001585001948 PHB binding site; other site 1001585001949 thioredoxin 2; Provisional; Region: PRK10996 1001585001950 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 1001585001951 catalytic residues [active] 1001585001952 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 1001585001953 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 1001585001954 homodimer interface [polypeptide binding]; other site 1001585001955 substrate-cofactor binding pocket; other site 1001585001956 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585001957 catalytic residue [active] 1001585001958 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; cl15357 1001585001959 transmembrane helices; other site 1001585001960 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; cl15357 1001585001961 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; cl15357 1001585001962 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 1001585001963 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 1001585001964 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 1001585001965 hypothetical protein; Provisional; Region: PRK11281 1001585001966 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1001585001967 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1001585001968 potassium/proton antiporter; Reviewed; Region: PRK05326 1001585001969 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1001585001970 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; cl15357 1001585001971 Transporter associated domain; Region: CorC_HlyC; cl08393 1001585001972 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1001585001973 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1001585001974 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585001975 active site 1001585001976 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1001585001977 Nitronate monooxygenase; Region: NMO; pfam03060 1001585001978 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 1001585001979 FMN binding site [chemical binding]; other site 1001585001980 substrate binding site [chemical binding]; other site 1001585001981 putative catalytic residue [active] 1001585001982 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1001585001983 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1001585001984 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1001585001985 Zn2+ binding site [ion binding]; other site 1001585001986 Mg2+ binding site [ion binding]; other site 1001585001987 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 1001585001988 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1001585001989 GAF domain; Region: GAF; cl15785 1001585001990 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 1001585001991 PAS domain; Region: PAS_9; pfam13426 1001585001992 putative active site [active] 1001585001993 heme pocket [chemical binding]; other site 1001585001994 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585001995 metal binding site [ion binding]; metal-binding site 1001585001996 active site 1001585001997 I-site; other site 1001585001998 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 1001585001999 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 1001585002000 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1001585002001 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 1001585002002 E3 interaction surface; other site 1001585002003 lipoyl attachment site [posttranslational modification]; other site 1001585002004 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 1001585002005 E3 interaction surface; other site 1001585002006 lipoyl attachment site [posttranslational modification]; other site 1001585002007 e3 binding domain; Region: E3_binding; pfam02817 1001585002008 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 1001585002009 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1001585002010 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 1001585002011 dimer interface [polypeptide binding]; other site 1001585002012 TPP-binding site [chemical binding]; other site 1001585002013 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1001585002014 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1001585002015 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1001585002016 metal binding triad; other site 1001585002017 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1001585002018 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1001585002019 metal binding triad; other site 1001585002020 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1001585002021 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 1001585002022 homodimer interface [polypeptide binding]; other site 1001585002023 substrate-cofactor binding pocket; other site 1001585002024 catalytic residue [active] 1001585002025 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1001585002026 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 1001585002027 putative active site [active] 1001585002028 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1001585002029 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 1001585002030 putative active site [active] 1001585002031 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1001585002032 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 1001585002033 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1001585002034 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1001585002035 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1001585002036 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1001585002037 active site 1001585002038 ATP binding site [chemical binding]; other site 1001585002039 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 1001585002040 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1001585002041 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 1001585002042 putative ADP-binding pocket [chemical binding]; other site 1001585002043 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 1001585002044 trimer interface [polypeptide binding]; other site 1001585002045 active site 1001585002046 substrate binding site [chemical binding]; other site 1001585002047 CoA binding site [chemical binding]; other site 1001585002048 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 1001585002049 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 1001585002050 active site 1001585002051 substrate binding site [chemical binding]; other site 1001585002052 ATP binding site [chemical binding]; other site 1001585002053 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1001585002054 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1001585002055 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 1001585002056 Walker A/P-loop; other site 1001585002057 ATP binding site [chemical binding]; other site 1001585002058 Q-loop/lid; other site 1001585002059 ABC transporter signature motif; other site 1001585002060 Walker B; other site 1001585002061 D-loop; other site 1001585002062 H-loop/switch region; other site 1001585002063 Mig-14; Region: Mig-14; pfam07395 1001585002064 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1001585002065 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 1001585002066 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1001585002067 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 1001585002068 putative ribose interaction site [chemical binding]; other site 1001585002069 putative ADP binding site [chemical binding]; other site 1001585002070 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1001585002071 active site 1001585002072 nucleotide binding site [chemical binding]; other site 1001585002073 HIGH motif; other site 1001585002074 KMSKS motif; other site 1001585002075 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585002076 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585002077 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585002078 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585002079 active site 1001585002080 Protein of unknown function (DUF330); Region: DUF330; cl01135 1001585002081 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1001585002082 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 1001585002083 CAP-like domain; other site 1001585002084 active site 1001585002085 primary dimer interface [polypeptide binding]; other site 1001585002086 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1001585002087 catalytic motif [active] 1001585002088 Catalytic residue [active] 1001585002089 SdiA-regulated; Region: SdiA-regulated; cd09971 1001585002090 putative active site [active] 1001585002091 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1001585002092 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585002093 ATP binding site [chemical binding]; other site 1001585002094 Mg2+ binding site [ion binding]; other site 1001585002095 G-X-G motif; other site 1001585002096 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 1001585002097 anchoring element; other site 1001585002098 dimer interface [polypeptide binding]; other site 1001585002099 ATP binding site [chemical binding]; other site 1001585002100 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 1001585002101 active site 1001585002102 metal binding site [ion binding]; metal-binding site 1001585002103 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1001585002104 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1001585002105 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1001585002106 hexamer interface [polypeptide binding]; other site 1001585002107 active site 1001585002108 metal binding site [ion binding]; metal-binding site 1001585002109 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 1001585002110 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1001585002111 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 1001585002112 dimer interface [polypeptide binding]; other site 1001585002113 ADP-ribose binding site [chemical binding]; other site 1001585002114 active site 1001585002115 nudix motif; other site 1001585002116 metal binding site [ion binding]; metal-binding site 1001585002117 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1001585002118 ThiC-associated domain; Region: ThiC-associated; pfam13667 1001585002119 ThiC family; Region: ThiC; cl08031 1001585002120 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 1001585002121 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1001585002122 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 1001585002123 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585002124 Helix-turn-helix domains; Region: HTH; cl00088 1001585002125 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 1001585002126 dimerization interface [polypeptide binding]; other site 1001585002127 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1001585002128 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1001585002129 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585002130 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 1001585002131 active site 1001585002132 catalytic tetrad [active] 1001585002133 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 1001585002134 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 1001585002135 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 1001585002136 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1001585002137 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 1001585002138 motif II; other site 1001585002139 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1001585002140 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585002141 active site 1001585002142 phosphorylation site [posttranslational modification] 1001585002143 intermolecular recognition site; other site 1001585002144 dimerization interface [polypeptide binding]; other site 1001585002145 PAS domain S-box; Region: sensory_box; TIGR00229 1001585002146 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 1001585002147 putative active site [active] 1001585002148 heme pocket [chemical binding]; other site 1001585002149 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585002150 metal binding site [ion binding]; metal-binding site 1001585002151 active site 1001585002152 I-site; other site 1001585002153 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 1001585002154 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 1001585002155 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 1001585002156 active site residue [active] 1001585002157 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 1001585002158 active site residue [active] 1001585002159 HDOD domain; Region: HDOD; pfam08668 1001585002160 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1001585002161 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1001585002162 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1001585002163 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1001585002164 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585002165 ligand binding site [chemical binding]; other site 1001585002166 GTPase RsgA; Reviewed; Region: PRK12288 1001585002167 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 1001585002168 RNA binding site [nucleotide binding]; other site 1001585002169 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1001585002170 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1001585002171 GTP/Mg2+ binding site [chemical binding]; other site 1001585002172 G4 box; other site 1001585002173 G5 box; other site 1001585002174 G1 box; other site 1001585002175 Switch I region; other site 1001585002176 G2 box; other site 1001585002177 G3 box; other site 1001585002178 Switch II region; other site 1001585002179 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1001585002180 catalytic site [active] 1001585002181 putative active site [active] 1001585002182 putative substrate binding site [chemical binding]; other site 1001585002183 dimer interface [polypeptide binding]; other site 1001585002184 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 1001585002185 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1001585002186 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 1001585002187 putative carbohydrate kinase; Provisional; Region: PRK10565 1001585002188 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 1001585002189 putative substrate binding site [chemical binding]; other site 1001585002190 putative ATP binding site [chemical binding]; other site 1001585002191 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1001585002192 AMIN domain; Region: AMIN; pfam11741 1001585002193 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1001585002194 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 1001585002195 active site 1001585002196 metal binding site [ion binding]; metal-binding site 1001585002197 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 1001585002198 putative peptidoglycan binding site; other site 1001585002199 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1001585002200 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1001585002201 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 1001585002202 ATP binding site [chemical binding]; other site 1001585002203 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 1001585002204 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1001585002205 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585002206 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 1001585002207 Sm1 motif; other site 1001585002208 intra - hexamer interaction site; other site 1001585002209 inter - hexamer interaction site [polypeptide binding]; other site 1001585002210 nucleotide binding pocket [chemical binding]; other site 1001585002211 Sm2 motif; other site 1001585002212 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1001585002213 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1001585002214 HflX GTPase family; Region: HflX; cd01878 1001585002215 G1 box; other site 1001585002216 GTP/Mg2+ binding site [chemical binding]; other site 1001585002217 Switch I region; other site 1001585002218 G2 box; other site 1001585002219 G3 box; other site 1001585002220 Switch II region; other site 1001585002221 G4 box; other site 1001585002222 G5 box; other site 1001585002223 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1001585002224 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 1001585002225 HflK protein; Region: hflK; TIGR01933 1001585002226 FtsH protease regulator HflC; Provisional; Region: PRK11029 1001585002227 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 1001585002228 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 1001585002229 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 1001585002230 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 1001585002231 dimer interface [polypeptide binding]; other site 1001585002232 motif 1; other site 1001585002233 active site 1001585002234 motif 2; other site 1001585002235 motif 3; other site 1001585002236 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1001585002237 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 1001585002238 GDP-binding site [chemical binding]; other site 1001585002239 ACT binding site; other site 1001585002240 IMP binding site; other site 1001585002241 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 1001585002242 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585002243 dimer interface [polypeptide binding]; other site 1001585002244 putative CheW interface [polypeptide binding]; other site 1001585002245 ribonuclease R; Region: RNase_R; TIGR02063 1001585002246 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 1001585002247 RNB domain; Region: RNB; pfam00773 1001585002248 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 1001585002249 RNA binding site [nucleotide binding]; other site 1001585002250 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1001585002251 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 1001585002252 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 1001585002253 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 1001585002254 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 1001585002255 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1001585002256 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1001585002257 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1001585002258 replicative DNA helicase; Provisional; Region: PRK05748 1001585002259 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1001585002260 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 1001585002261 Walker A motif; other site 1001585002262 ATP binding site [chemical binding]; other site 1001585002263 Walker B motif; other site 1001585002264 DNA binding loops [nucleotide binding] 1001585002265 alanine racemase; Reviewed; Region: alr; PRK00053 1001585002266 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1001585002267 active site 1001585002268 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1001585002269 substrate binding site [chemical binding]; other site 1001585002270 catalytic residues [active] 1001585002271 dimer interface [polypeptide binding]; other site 1001585002272 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1001585002273 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1001585002274 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585002275 metal binding site [ion binding]; metal-binding site 1001585002276 active site 1001585002277 I-site; other site 1001585002278 hypothetical protein; Provisional; Region: PRK01254 1001585002279 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1001585002280 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1001585002281 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1001585002282 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 1001585002283 S-adenosylmethionine binding site [chemical binding]; other site 1001585002284 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 1001585002285 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 1001585002286 Cytochrome c; Region: Cytochrom_C; cl11414 1001585002287 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1001585002288 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 1001585002289 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 1001585002290 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 1001585002291 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 1001585002292 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 1001585002293 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1001585002294 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1001585002295 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1001585002296 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 1001585002297 Phage Tail Collar Domain; Region: Collar; pfam07484 1001585002298 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1001585002299 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1001585002300 Cupin domain; Region: Cupin_2; cl09118 1001585002301 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 1001585002302 active site 1001585002303 putative substrate binding region [chemical binding]; other site 1001585002304 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 1001585002305 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 1001585002306 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1001585002307 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 1001585002308 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 1001585002309 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 1001585002310 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 1001585002311 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1001585002312 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1001585002313 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 1001585002314 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 1001585002315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 1001585002316 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1001585002317 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 1001585002318 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 1001585002319 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1001585002320 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 1001585002321 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 1001585002322 Protein of unknown function (DUF808); Region: DUF808; cl01002 1001585002323 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1001585002324 LysE type translocator; Region: LysE; cl00565 1001585002325 Glycerophosphodiester phosphodiesterase domain of Streptomyces coelicolor cytoplasmic phosphodiesterases UgpQ2 and similar proteins; Region: GDPD_cytoplasmic_ScUgpQ2_like; cd08561 1001585002326 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 1001585002327 putative active site [active] 1001585002328 catalytic site [active] 1001585002329 putative metal binding site [ion binding]; other site 1001585002330 HupE / UreJ protein; Region: HupE_UreJ; cl01011 1001585002331 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585002332 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1001585002333 UreF; Region: UreF; pfam01730 1001585002334 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 1001585002335 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 1001585002336 dimer interface [polypeptide binding]; other site 1001585002337 catalytic residues [active] 1001585002338 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1001585002339 Helix-turn-helix domains; Region: HTH; cl00088 1001585002340 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 1001585002341 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1001585002342 FAD binding pocket [chemical binding]; other site 1001585002343 FAD binding motif [chemical binding]; other site 1001585002344 phosphate binding motif [ion binding]; other site 1001585002345 beta-alpha-beta structure motif; other site 1001585002346 NAD binding pocket [chemical binding]; other site 1001585002347 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 1001585002348 catalytic loop [active] 1001585002349 iron binding site [ion binding]; other site 1001585002350 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1001585002351 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 1001585002352 putative di-iron ligands [ion binding]; other site 1001585002353 Membrane transport protein; Region: Mem_trans; cl09117 1001585002354 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585002355 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1001585002356 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 1001585002357 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 1001585002358 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1001585002359 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585002360 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1001585002361 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1001585002362 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 1001585002363 NAD(P) binding site [chemical binding]; other site 1001585002364 catalytic residues [active] 1001585002365 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1001585002366 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 1001585002367 putative active site [active] 1001585002368 metal binding site [ion binding]; metal-binding site 1001585002369 putative chaperone; Provisional; Region: PRK11678 1001585002370 Predicted integral membrane protein [Function unknown]; Region: COG0392 1001585002371 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1001585002372 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1001585002373 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1001585002374 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585002375 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 1001585002376 substrate binding pocket [chemical binding]; other site 1001585002377 membrane-bound complex binding site; other site 1001585002378 hinge residues; other site 1001585002379 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585002380 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 1001585002381 substrate binding pocket [chemical binding]; other site 1001585002382 membrane-bound complex binding site; other site 1001585002383 hinge residues; other site 1001585002384 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 1001585002385 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 1001585002386 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 1001585002387 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 1001585002388 tetramer interface [polypeptide binding]; other site 1001585002389 active site 1001585002390 Mg2+/Mn2+ binding site [ion binding]; other site 1001585002391 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1001585002392 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 1001585002393 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 1001585002394 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1001585002395 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 1001585002396 subunit interactions [polypeptide binding]; other site 1001585002397 active site 1001585002398 flap region; other site 1001585002399 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 1001585002400 gamma-beta subunit interface [polypeptide binding]; other site 1001585002401 alpha-beta subunit interface [polypeptide binding]; other site 1001585002402 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1001585002403 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585002404 Coenzyme A binding pocket [chemical binding]; other site 1001585002405 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 1001585002406 alpha-gamma subunit interface [polypeptide binding]; other site 1001585002407 beta-gamma subunit interface [polypeptide binding]; other site 1001585002408 UreD urease accessory protein; Region: UreD; cl00530 1001585002409 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1001585002410 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 1001585002411 Walker A/P-loop; other site 1001585002412 ATP binding site [chemical binding]; other site 1001585002413 Q-loop/lid; other site 1001585002414 ABC transporter signature motif; other site 1001585002415 Walker B; other site 1001585002416 D-loop; other site 1001585002417 H-loop/switch region; other site 1001585002418 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1001585002419 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 1001585002420 Walker A/P-loop; other site 1001585002421 ATP binding site [chemical binding]; other site 1001585002422 Q-loop/lid; other site 1001585002423 ABC transporter signature motif; other site 1001585002424 Walker B; other site 1001585002425 D-loop; other site 1001585002426 H-loop/switch region; other site 1001585002427 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 1001585002428 TM-ABC transporter signature motif; other site 1001585002429 HEAT repeats; Region: HEAT_2; pfam13646 1001585002430 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 1001585002431 TM-ABC transporter signature motif; other site 1001585002432 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1001585002433 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1001585002434 putative ligand binding site [chemical binding]; other site 1001585002435 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1001585002436 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585002437 DNA-binding site [nucleotide binding]; DNA binding site 1001585002438 FCD domain; Region: FCD; cl11656 1001585002439 allophanate hydrolase; Provisional; Region: PRK08186 1001585002440 Amidase; Region: Amidase; cl11426 1001585002441 MarC family integral membrane protein; Region: MarC; cl00919 1001585002442 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1001585002443 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1001585002444 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585002445 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 1001585002446 dimer interface [polypeptide binding]; other site 1001585002447 phosphorylation site [posttranslational modification] 1001585002448 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585002449 ATP binding site [chemical binding]; other site 1001585002450 Mg2+ binding site [ion binding]; other site 1001585002451 G-X-G motif; other site 1001585002452 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585002453 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585002454 active site 1001585002455 phosphorylation site [posttranslational modification] 1001585002456 intermolecular recognition site; other site 1001585002457 dimerization interface [polypeptide binding]; other site 1001585002458 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585002459 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585002460 active site 1001585002461 phosphorylation site [posttranslational modification] 1001585002462 intermolecular recognition site; other site 1001585002463 dimerization interface [polypeptide binding]; other site 1001585002464 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1001585002465 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1001585002466 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1001585002467 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1001585002468 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1001585002469 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 1001585002470 purine monophosphate binding site [chemical binding]; other site 1001585002471 dimer interface [polypeptide binding]; other site 1001585002472 putative catalytic residues [active] 1001585002473 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1001585002474 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1001585002475 Helix-turn-helix domains; Region: HTH; cl00088 1001585002476 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1001585002477 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 1001585002478 FMN binding site [chemical binding]; other site 1001585002479 active site 1001585002480 catalytic residues [active] 1001585002481 substrate binding site [chemical binding]; other site 1001585002482 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 1001585002483 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 1001585002484 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1001585002485 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; cl16911 1001585002486 Domain of unknown function (DUF4272); Region: DUF4272; pfam14094 1001585002487 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1001585002488 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1001585002489 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1001585002490 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 1001585002491 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1001585002492 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 1001585002493 carboxyltransferase (CT) interaction site; other site 1001585002494 biotinylation site [posttranslational modification]; other site 1001585002495 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 1001585002496 active site 1001585002497 trimer interface [polypeptide binding]; other site 1001585002498 dimer interface [polypeptide binding]; other site 1001585002499 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 1001585002500 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1001585002501 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 1001585002502 DsbD alpha interface [polypeptide binding]; other site 1001585002503 catalytic residues [active] 1001585002504 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585002505 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585002506 dimer interface [polypeptide binding]; other site 1001585002507 putative CheW interface [polypeptide binding]; other site 1001585002508 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 1001585002509 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 1001585002510 active site 1001585002511 phosphorylation site [posttranslational modification] 1001585002512 intermolecular recognition site; other site 1001585002513 dimerization interface [polypeptide binding]; other site 1001585002514 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585002515 active site 1001585002516 phosphorylation site [posttranslational modification] 1001585002517 intermolecular recognition site; other site 1001585002518 dimerization interface [polypeptide binding]; other site 1001585002519 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585002520 metal binding site [ion binding]; metal-binding site 1001585002521 active site 1001585002522 I-site; other site 1001585002523 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 1001585002524 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 1001585002525 nudix motif; other site 1001585002526 translation initiation factor Sui1; Validated; Region: PRK06824 1001585002527 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1001585002528 putative rRNA binding site [nucleotide binding]; other site 1001585002529 arginine decarboxylase; Provisional; Region: PRK05354 1001585002530 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1001585002531 dimer interface [polypeptide binding]; other site 1001585002532 active site 1001585002533 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1001585002534 catalytic residues [active] 1001585002535 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1001585002536 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 1001585002537 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585002538 DNA-binding site [nucleotide binding]; DNA binding site 1001585002539 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 1001585002540 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585002541 homodimer interface [polypeptide binding]; other site 1001585002542 catalytic residue [active] 1001585002543 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585002544 Coenzyme A binding pocket [chemical binding]; other site 1001585002545 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1001585002546 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1001585002547 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 1001585002548 GAF domain; Region: GAF; cl15785 1001585002549 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585002550 metal binding site [ion binding]; metal-binding site 1001585002551 active site 1001585002552 I-site; other site 1001585002553 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1001585002554 MatE; Region: MatE; cl10513 1001585002555 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1001585002556 MG2 domain; Region: A2M_N; pfam01835 1001585002557 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 1001585002558 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1001585002559 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 1001585002560 surface patch; other site 1001585002561 thioester region; other site 1001585002562 specificity defining residues; other site 1001585002563 Transposase IS200 like; Region: Y1_Tnp; cl00848 1001585002564 penicillin-binding protein 1C; Provisional; Region: PRK11240 1001585002565 Transglycosylase; Region: Transgly; cl07896 1001585002566 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1001585002567 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1001585002568 Cache domain; Region: Cache_1; pfam02743 1001585002569 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 1001585002570 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585002571 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585002572 dimer interface [polypeptide binding]; other site 1001585002573 putative CheW interface [polypeptide binding]; other site 1001585002574 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585002575 metal binding site [ion binding]; metal-binding site 1001585002576 active site 1001585002577 I-site; other site 1001585002578 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 1001585002579 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 1001585002580 molybdopterin cofactor binding site; other site 1001585002581 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 1001585002582 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 1001585002583 molybdopterin cofactor binding site; other site 1001585002584 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1001585002585 4Fe-4S binding domain; Region: Fer4; cl02805 1001585002586 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1001585002587 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 1001585002588 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1001585002589 Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]; Region: FdhE; COG3058 1001585002590 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1001585002591 selenocysteine synthase; Provisional; Region: PRK04311 1001585002592 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 1001585002593 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1001585002594 catalytic residue [active] 1001585002595 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1001585002596 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1001585002597 G1 box; other site 1001585002598 putative GEF interaction site [polypeptide binding]; other site 1001585002599 GTP/Mg2+ binding site [chemical binding]; other site 1001585002600 Switch I region; other site 1001585002601 G2 box; other site 1001585002602 G3 box; other site 1001585002603 Switch II region; other site 1001585002604 G4 box; other site 1001585002605 G5 box; other site 1001585002606 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 1001585002607 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 1001585002608 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1001585002609 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1001585002610 Protein of unknown function, DUF606; Region: DUF606; cl01273 1001585002611 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 1001585002612 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; cl09155 1001585002613 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1001585002614 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1001585002615 active site 1001585002616 catalytic triad [active] 1001585002617 dimer interface [polypeptide binding]; other site 1001585002618 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585002619 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585002620 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 1001585002621 DctM-like transporters; Region: DctM; pfam06808 1001585002622 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1001585002623 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 1001585002624 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1001585002625 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585002626 hypothetical protein; Validated; Region: PRK06201 1001585002627 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 1001585002628 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585002629 Helix-turn-helix domains; Region: HTH; cl00088 1001585002630 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 1001585002631 dimerization interface [polypeptide binding]; other site 1001585002632 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1001585002633 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585002634 Coenzyme A binding pocket [chemical binding]; other site 1001585002635 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1001585002636 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1001585002637 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 1001585002638 S-adenosylmethionine binding site [chemical binding]; other site 1001585002639 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 1001585002640 enoyl-CoA hydratase; Region: PLN02864 1001585002641 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 1001585002642 active site 2 [active] 1001585002643 active site 1 [active] 1001585002644 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585002645 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585002646 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585002647 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 1001585002648 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585002649 NAD(P) binding site [chemical binding]; other site 1001585002650 active site 1001585002651 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 1001585002652 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 1001585002653 dimer interface [polypeptide binding]; other site 1001585002654 active site 1001585002655 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1001585002656 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1001585002657 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1001585002658 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 1001585002659 Cache domain; Region: Cache_1; pfam02743 1001585002660 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 1001585002661 dimerization interface [polypeptide binding]; other site 1001585002662 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585002663 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585002664 dimer interface [polypeptide binding]; other site 1001585002665 putative CheW interface [polypeptide binding]; other site 1001585002666 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 1001585002667 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 1001585002668 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 1001585002669 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 1001585002670 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 1001585002671 S-adenosylmethionine binding site [chemical binding]; other site 1001585002672 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1001585002673 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585002674 DNA-binding site [nucleotide binding]; DNA binding site 1001585002675 FCD domain; Region: FCD; cl11656 1001585002676 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1001585002677 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 1001585002678 substrate binding pocket [chemical binding]; other site 1001585002679 membrane-bound complex binding site; other site 1001585002680 hinge residues; other site 1001585002681 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1001585002682 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 1001585002683 dimer interface [polypeptide binding]; other site 1001585002684 conserved gate region; other site 1001585002685 putative PBP binding loops; other site 1001585002686 ABC-ATPase subunit interface; other site 1001585002687 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 1001585002688 dimer interface [polypeptide binding]; other site 1001585002689 conserved gate region; other site 1001585002690 putative PBP binding loops; other site 1001585002691 ABC-ATPase subunit interface; other site 1001585002692 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1001585002693 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 1001585002694 Walker A/P-loop; other site 1001585002695 ATP binding site [chemical binding]; other site 1001585002696 Q-loop/lid; other site 1001585002697 ABC transporter signature motif; other site 1001585002698 Walker B; other site 1001585002699 D-loop; other site 1001585002700 H-loop/switch region; other site 1001585002701 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 1001585002702 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1001585002703 catalytic residue [active] 1001585002704 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 1001585002705 ferredoxin-NADP reductase; Provisional; Region: PRK10926 1001585002706 FAD binding pocket [chemical binding]; other site 1001585002707 FAD binding motif [chemical binding]; other site 1001585002708 phosphate binding motif [ion binding]; other site 1001585002709 beta-alpha-beta structure motif; other site 1001585002710 NAD binding pocket [chemical binding]; other site 1001585002711 Domain of unknown function DUF21; Region: DUF21; pfam01595 1001585002712 FOG: CBS domain [General function prediction only]; Region: COG0517 1001585002713 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 1001585002714 Protein of unknown function (DUF465); Region: DUF465; cl01070 1001585002715 Protein of unknown function (DUF465); Region: DUF465; cl01070 1001585002716 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585002717 Coenzyme A binding pocket [chemical binding]; other site 1001585002718 DNA repair protein RadA; Provisional; Region: PRK11823 1001585002719 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 1001585002720 Walker A motif/ATP binding site; other site 1001585002721 ATP binding site [chemical binding]; other site 1001585002722 Walker B motif; other site 1001585002723 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 1001585002724 PilZ domain; Region: PilZ; cl01260 1001585002725 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 1001585002726 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1001585002727 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 1001585002728 dimer interface [polypeptide binding]; other site 1001585002729 active site 1001585002730 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1001585002731 folate binding site [chemical binding]; other site 1001585002732 PAS domain S-box; Region: sensory_box; TIGR00229 1001585002733 PAS domain S-box; Region: sensory_box; TIGR00229 1001585002734 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 1001585002735 putative active site [active] 1001585002736 heme pocket [chemical binding]; other site 1001585002737 PAS domain S-box; Region: sensory_box; TIGR00229 1001585002738 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1001585002739 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 1001585002740 PAS domain; Region: PAS_9; pfam13426 1001585002741 putative active site [active] 1001585002742 heme pocket [chemical binding]; other site 1001585002743 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585002744 metal binding site [ion binding]; metal-binding site 1001585002745 active site 1001585002746 I-site; other site 1001585002747 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 1001585002748 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1001585002749 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 1001585002750 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 1001585002751 ABC transporter; Region: ABC_tran_2; pfam12848 1001585002752 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 1001585002753 PilZ domain; Region: PilZ; cl01260 1001585002754 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 1001585002755 K+ potassium transporter; Region: K_trans; cl15781 1001585002756 potassium uptake protein; Region: kup; TIGR00794 1001585002757 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1001585002758 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585002759 Protein of unknown function (DUF3094); Region: DUF3094; pfam11293 1001585002760 MOSC domain; Region: MOSC; pfam03473 1001585002761 Protein of unknown function (DUF1780); Region: DUF1780; pfam08682 1001585002762 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 1001585002763 Domain of unknown function (DUF329); Region: DUF329; cl01144 1001585002764 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1001585002765 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 1001585002766 CoA-binding site [chemical binding]; other site 1001585002767 ATP-binding [chemical binding]; other site 1001585002768 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 1001585002769 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1001585002770 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 1001585002771 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1001585002772 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 1001585002773 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 1001585002774 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 1001585002775 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1001585002776 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 1001585002777 Walker A motif; other site 1001585002778 ATP binding site [chemical binding]; other site 1001585002779 Walker B motif; other site 1001585002780 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 1001585002781 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 1001585002782 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1001585002783 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585002784 Walker A/P-loop; other site 1001585002785 ATP binding site [chemical binding]; other site 1001585002786 Q-loop/lid; other site 1001585002787 ABC transporter signature motif; other site 1001585002788 Walker B; other site 1001585002789 D-loop; other site 1001585002790 H-loop/switch region; other site 1001585002791 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 1001585002792 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 1001585002793 dimerization interface [polypeptide binding]; other site 1001585002794 active site 1001585002795 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 1001585002796 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 1001585002797 amidase catalytic site [active] 1001585002798 Zn binding residues [ion binding]; other site 1001585002799 substrate binding site [chemical binding]; other site 1001585002800 CobD/Cbib protein; Region: CobD_Cbib; cl00561 1001585002801 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 1001585002802 dimerization interface [polypeptide binding]; other site 1001585002803 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585002804 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585002805 dimer interface [polypeptide binding]; other site 1001585002806 putative CheW interface [polypeptide binding]; other site 1001585002807 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1001585002808 active site 1001585002809 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1001585002810 AsmA-like C-terminal region; Region: AsmA_2; cl15864 1001585002811 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 1001585002812 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1001585002813 DNA binding site [nucleotide binding] 1001585002814 domain linker motif; other site 1001585002815 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1001585002816 dimerization interface [polypeptide binding]; other site 1001585002817 ligand binding site [chemical binding]; other site 1001585002818 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 1001585002819 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 1001585002820 active site 1001585002821 phosphorylation site [posttranslational modification] 1001585002822 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 1001585002823 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; cl00206 1001585002824 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1001585002825 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1001585002826 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 1001585002827 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; cl09155 1001585002828 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1001585002829 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 1001585002830 putative substrate binding site [chemical binding]; other site 1001585002831 putative ATP binding site [chemical binding]; other site 1001585002832 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 1001585002833 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 1001585002834 active site 1001585002835 P-loop; other site 1001585002836 phosphorylation site [posttranslational modification] 1001585002837 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 1001585002838 active site 1001585002839 P-loop; other site 1001585002840 phosphorylation site [posttranslational modification] 1001585002841 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1001585002842 NAD-dependent deacetylase; Provisional; Region: PRK00481 1001585002843 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 1001585002844 NAD+ binding site [chemical binding]; other site 1001585002845 substrate binding site [chemical binding]; other site 1001585002846 Zn binding site [ion binding]; other site 1001585002847 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1001585002848 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1001585002849 Trp docking motif [polypeptide binding]; other site 1001585002850 putative active site [active] 1001585002851 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1001585002852 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1001585002853 G1 box; other site 1001585002854 putative GEF interaction site [polypeptide binding]; other site 1001585002855 GTP/Mg2+ binding site [chemical binding]; other site 1001585002856 Switch I region; other site 1001585002857 G2 box; other site 1001585002858 G3 box; other site 1001585002859 Switch II region; other site 1001585002860 G4 box; other site 1001585002861 G5 box; other site 1001585002862 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 1001585002863 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1001585002864 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 1001585002865 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 1001585002866 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1001585002867 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1001585002868 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 1001585002869 FAD binding pocket [chemical binding]; other site 1001585002870 FAD binding motif [chemical binding]; other site 1001585002871 catalytic residues [active] 1001585002872 NAD binding pocket [chemical binding]; other site 1001585002873 phosphate binding motif [ion binding]; other site 1001585002874 beta-alpha-beta structure motif; other site 1001585002875 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1001585002876 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 1001585002877 dimer interface [polypeptide binding]; other site 1001585002878 active site 1001585002879 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1001585002880 catalytic residues [active] 1001585002881 substrate binding site [chemical binding]; other site 1001585002882 bifunctional enterobactin receptor/adhesin protein; Provisional; Region: PRK13486 1001585002883 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 1001585002884 N-terminal plug; other site 1001585002885 ligand-binding site [chemical binding]; other site 1001585002886 LamB/YcsF family; Region: LamB_YcsF; cl00664 1001585002887 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 1001585002888 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1001585002889 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1001585002890 NAD binding site [chemical binding]; other site 1001585002891 substrate binding site [chemical binding]; other site 1001585002892 putative active site [active] 1001585002893 transcriptional regulator; Provisional; Region: PRK10632 1001585002894 Helix-turn-helix domains; Region: HTH; cl00088 1001585002895 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 1001585002896 putative effector binding pocket; other site 1001585002897 dimerization interface [polypeptide binding]; other site 1001585002898 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 1001585002899 ATP binding site [chemical binding]; other site 1001585002900 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1001585002901 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1001585002902 DNA binding residues [nucleotide binding] 1001585002903 dimer interface [polypeptide binding]; other site 1001585002904 copper binding site [ion binding]; other site 1001585002905 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 1001585002906 metal-binding site [ion binding] 1001585002907 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1001585002908 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 1001585002909 metal-binding site [ion binding] 1001585002910 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1001585002911 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1001585002912 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 1001585002913 metal-binding site [ion binding] 1001585002914 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1001585002915 Helix-turn-helix domains; Region: HTH; cl00088 1001585002916 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 1001585002917 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1001585002918 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 1001585002919 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 1001585002920 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1001585002921 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 1001585002922 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1001585002923 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 1001585002924 Protein of unknown function, DUF; Region: DUF411; cl01142 1001585002925 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; cl16911 1001585002926 tRNA (uracil-5-)-methyltransferase; Region: trmA_only; TIGR02143 1001585002927 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1001585002928 DJ-1 family protein; Region: not_thiJ; TIGR01383 1001585002929 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 1001585002930 conserved cys residue [active] 1001585002931 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1001585002932 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1001585002933 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585002934 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1001585002935 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 1001585002936 DNA binding site [nucleotide binding] 1001585002937 active site 1001585002938 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1001585002939 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585002940 active site 1001585002941 phosphorylation site [posttranslational modification] 1001585002942 dimerization interface [polypeptide binding]; other site 1001585002943 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1001585002944 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1001585002945 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585002946 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1001585002947 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1001585002948 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585002949 active site 1001585002950 phosphorylation site [posttranslational modification] 1001585002951 intermolecular recognition site; other site 1001585002952 dimerization interface [polypeptide binding]; other site 1001585002953 Helix-turn-helix domains; Region: HTH; cl00088 1001585002954 Membrane transport protein; Region: Mem_trans; cl09117 1001585002955 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1001585002956 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1001585002957 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1001585002958 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 1001585002959 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1001585002960 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1001585002961 GatB domain; Region: GatB_Yqey; cl11497 1001585002962 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1001585002963 Amidase; Region: Amidase; cl11426 1001585002964 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 1001585002965 rod shape-determining protein MreB; Provisional; Region: PRK13927 1001585002966 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 1001585002967 ATP binding site [chemical binding]; other site 1001585002968 profilin binding site; other site 1001585002969 rod shape-determining protein MreC; Provisional; Region: PRK13922 1001585002970 rod shape-determining protein MreC; Region: MreC; pfam04085 1001585002971 rod shape-determining protein MreD; Region: MreD; cl01087 1001585002972 Maf-like protein; Region: Maf; pfam02545 1001585002973 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 1001585002974 active site 1001585002975 dimer interface [polypeptide binding]; other site 1001585002976 ribonuclease G; Provisional; Region: PRK11712 1001585002977 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 1001585002978 homodimer interface [polypeptide binding]; other site 1001585002979 oligonucleotide binding site [chemical binding]; other site 1001585002980 TIGR02099 family protein; Region: TIGR02099 1001585002981 AsmA-like C-terminal region; Region: AsmA_2; cl15864 1001585002982 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1001585002983 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1001585002984 putative active site [active] 1001585002985 catalytic triad [active] 1001585002986 dimer interface [polypeptide binding]; other site 1001585002987 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 1001585002988 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 1001585002989 Protein of unknown function (DUF615); Region: DUF615; cl01147 1001585002990 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 1001585002991 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 1001585002992 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 1001585002993 dimerization domain swap beta strand [polypeptide binding]; other site 1001585002994 regulatory protein interface [polypeptide binding]; other site 1001585002995 active site 1001585002996 regulatory phosphorylation site [posttranslational modification]; other site 1001585002997 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 1001585002998 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 1001585002999 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 1001585003000 active site 1001585003001 phosphorylation site [posttranslational modification] 1001585003002 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 1001585003003 30S subunit binding site; other site 1001585003004 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1001585003005 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1001585003006 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1001585003007 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1001585003008 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1001585003009 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 1001585003010 Walker A/P-loop; other site 1001585003011 ATP binding site [chemical binding]; other site 1001585003012 Q-loop/lid; other site 1001585003013 ABC transporter signature motif; other site 1001585003014 Walker B; other site 1001585003015 D-loop; other site 1001585003016 H-loop/switch region; other site 1001585003017 OstA-like protein; Region: OstA; cl00844 1001585003018 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1001585003019 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 1001585003020 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1001585003021 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 1001585003022 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1001585003023 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 1001585003024 putative active site [active] 1001585003025 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 1001585003026 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1001585003027 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 1001585003028 Walker A/P-loop; other site 1001585003029 ATP binding site [chemical binding]; other site 1001585003030 Q-loop/lid; other site 1001585003031 ABC transporter signature motif; other site 1001585003032 Walker B; other site 1001585003033 D-loop; other site 1001585003034 H-loop/switch region; other site 1001585003035 Permease; Region: Permease; cl00510 1001585003036 mce related protein; Region: MCE; pfam02470 1001585003037 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 1001585003038 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 1001585003039 anti sigma factor interaction site; other site 1001585003040 regulatory phosphorylation site [posttranslational modification]; other site 1001585003041 BolA-like protein; Region: BolA; cl00386 1001585003042 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1001585003043 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 1001585003044 hinge; other site 1001585003045 active site 1001585003046 ATP phosphoribosyltransferase; Region: HisG; cl15266 1001585003047 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 1001585003048 histidinol dehydrogenase; Region: hisD; TIGR00069 1001585003049 NAD binding site [chemical binding]; other site 1001585003050 dimerization interface [polypeptide binding]; other site 1001585003051 product binding site; other site 1001585003052 substrate binding site [chemical binding]; other site 1001585003053 zinc binding site [ion binding]; other site 1001585003054 catalytic residues [active] 1001585003055 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1001585003056 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 1001585003057 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585003058 homodimer interface [polypeptide binding]; other site 1001585003059 catalytic residue [active] 1001585003060 serine endoprotease; Provisional; Region: PRK10898 1001585003061 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1001585003062 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 1001585003063 protein binding site [polypeptide binding]; other site 1001585003064 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1001585003065 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1001585003066 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1001585003067 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 1001585003068 Active Sites [active] 1001585003069 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1001585003070 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1001585003071 CysD dimerization site [polypeptide binding]; other site 1001585003072 G1 box; other site 1001585003073 putative GEF interaction site [polypeptide binding]; other site 1001585003074 GTP/Mg2+ binding site [chemical binding]; other site 1001585003075 Switch I region; other site 1001585003076 G2 box; other site 1001585003077 G3 box; other site 1001585003078 Switch II region; other site 1001585003079 G4 box; other site 1001585003080 G5 box; other site 1001585003081 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 1001585003082 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 1001585003083 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 1001585003084 ligand-binding site [chemical binding]; other site 1001585003085 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 1001585003086 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1001585003087 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 1001585003088 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1001585003089 active site 1001585003090 HIGH motif; other site 1001585003091 dimer interface [polypeptide binding]; other site 1001585003092 KMSKS motif; other site 1001585003093 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 1001585003094 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1001585003095 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1001585003096 conserved cys residue [active] 1001585003097 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585003098 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585003099 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585003100 active site 1001585003101 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 1001585003102 Active_site [active] 1001585003103 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 1001585003104 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 1001585003105 active site 1001585003106 catalytic tetrad [active] 1001585003107 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 1001585003108 23S rRNA interface [nucleotide binding]; other site 1001585003109 L3 interface [polypeptide binding]; other site 1001585003110 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 1001585003111 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 1001585003112 [2Fe-2S] cluster binding site [ion binding]; other site 1001585003113 cytochrome b; Provisional; Region: CYTB; MTH00145 1001585003114 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 1001585003115 Qi binding site; other site 1001585003116 intrachain domain interface; other site 1001585003117 interchain domain interface [polypeptide binding]; other site 1001585003118 heme bH binding site [chemical binding]; other site 1001585003119 heme bL binding site [chemical binding]; other site 1001585003120 Qo binding site; other site 1001585003121 Cytochrome b(C-terminus)/b6/petD: 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_C; cl00193 1001585003122 interchain domain interface [polypeptide binding]; other site 1001585003123 intrachain domain interface; other site 1001585003124 Qi binding site; other site 1001585003125 Qo binding site; other site 1001585003126 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 1001585003127 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1001585003128 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 1001585003129 C-terminal domain interface [polypeptide binding]; other site 1001585003130 putative GSH binding site (G-site) [chemical binding]; other site 1001585003131 dimer interface [polypeptide binding]; other site 1001585003132 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1001585003133 dimer interface [polypeptide binding]; other site 1001585003134 N-terminal domain interface [polypeptide binding]; other site 1001585003135 Stringent starvation protein B; Region: SspB; cl01120 1001585003136 outer membrane lipoprotein; Provisional; Region: PRK11023 1001585003137 BON domain; Region: BON; cl02771 1001585003138 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 1001585003139 dimer interface [polypeptide binding]; other site 1001585003140 active site 1001585003141 Restriction endonuclease; Region: Mrr_cat; cl00516 1001585003142 LppC putative lipoprotein; Region: LppC; pfam04348 1001585003143 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1001585003144 putative ligand binding site [chemical binding]; other site 1001585003145 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 1001585003146 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 1001585003147 MraZ protein; Region: MraZ; pfam02381 1001585003148 MraZ protein; Region: MraZ; pfam02381 1001585003149 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1001585003150 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; cl16911 1001585003151 Septum formation initiator; Region: DivIC; cl11433 1001585003152 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 1001585003153 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1001585003154 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1001585003155 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1001585003156 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1001585003157 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1001585003158 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1001585003159 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1001585003160 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 1001585003161 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1001585003162 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1001585003163 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1001585003164 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 1001585003165 Mg++ binding site [ion binding]; other site 1001585003166 putative catalytic motif [active] 1001585003167 putative substrate binding site [chemical binding]; other site 1001585003168 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 1001585003169 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1001585003170 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1001585003171 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1001585003172 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 1001585003173 active site 1001585003174 homodimer interface [polypeptide binding]; other site 1001585003175 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1001585003176 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1001585003177 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1001585003178 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1001585003179 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1001585003180 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1001585003181 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1001585003182 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1001585003183 Cell division protein FtsQ; Region: FtsQ; pfam03799 1001585003184 cell division protein FtsA; Region: ftsA; TIGR01174 1001585003185 Cell division protein FtsA; Region: FtsA; cl11496 1001585003186 Cell division protein FtsA; Region: FtsA; cl11496 1001585003187 cell division protein FtsZ; Validated; Region: PRK09330 1001585003188 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 1001585003189 nucleotide binding site [chemical binding]; other site 1001585003190 SulA interaction site; other site 1001585003191 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 1001585003192 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1001585003193 Protein of unknown function (DUF721); Region: DUF721; cl02324 1001585003194 Peptidase family M23; Region: Peptidase_M23; pfam01551 1001585003195 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13103 1001585003196 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585003197 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 1001585003198 SEC-C motif; Region: SEC-C; pfam02810 1001585003199 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 1001585003200 heterotetramer interface [polypeptide binding]; other site 1001585003201 active site pocket [active] 1001585003202 cleavage site 1001585003203 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 1001585003204 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1001585003205 putative C-terminal domain interface [polypeptide binding]; other site 1001585003206 putative GSH binding site (G-site) [chemical binding]; other site 1001585003207 putative dimer interface [polypeptide binding]; other site 1001585003208 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1001585003209 putative N-terminal domain interface [polypeptide binding]; other site 1001585003210 putative dimer interface [polypeptide binding]; other site 1001585003211 putative substrate binding pocket (H-site) [chemical binding]; other site 1001585003212 hypothetical protein; Provisional; Region: PRK08999 1001585003213 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 1001585003214 active site 1001585003215 8-oxo-dGMP binding site [chemical binding]; other site 1001585003216 nudix motif; other site 1001585003217 metal binding site [ion binding]; metal-binding site 1001585003218 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 1001585003219 thiamine phosphate binding site [chemical binding]; other site 1001585003220 active site 1001585003221 pyrophosphate binding site [ion binding]; other site 1001585003222 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 1001585003223 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 1001585003224 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1001585003225 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1001585003226 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 1001585003227 dimer interface [polypeptide binding]; other site 1001585003228 phosphorylation site [posttranslational modification] 1001585003229 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585003230 ATP binding site [chemical binding]; other site 1001585003231 Mg2+ binding site [ion binding]; other site 1001585003232 G-X-G motif; other site 1001585003233 2-dehydropantoate 2-reductase; Provisional; Region: PRK05708 1001585003234 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585003235 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1001585003236 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1001585003237 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585003238 active site 1001585003239 phosphorylation site [posttranslational modification] 1001585003240 intermolecular recognition site; other site 1001585003241 dimerization interface [polypeptide binding]; other site 1001585003242 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585003243 metal binding site [ion binding]; metal-binding site 1001585003244 active site 1001585003245 I-site; other site 1001585003246 Protein of unknown function (DUF520); Region: DUF520; cl00723 1001585003247 mechanosensitive channel MscS; Provisional; Region: PRK10334 1001585003248 Conserved TM helix; Region: TM_helix; pfam05552 1001585003249 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1001585003250 muropeptide transporter; Validated; Region: ampG; PRK11010 1001585003251 muropeptide transporter; Validated; Region: ampG; PRK11010 1001585003252 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 1001585003253 active site 1001585003254 DNA binding site [nucleotide binding] 1001585003255 Protein of unknown function, DUF481; Region: DUF481; cl01213 1001585003256 Protein of unknown function, DUF481; Region: DUF481; cl01213 1001585003257 uracil-xanthine permease; Region: ncs2; TIGR00801 1001585003258 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1001585003259 active site 1001585003260 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1001585003261 active site 1001585003262 putative transporter; Provisional; Region: PRK11660 1001585003263 Sulfate transporter family; Region: Sulfate_transp; cl15842 1001585003264 Sulfate transporter family; Region: Sulfate_transp; cl15842 1001585003265 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 1001585003266 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 1001585003267 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1001585003268 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1001585003269 riboflavin kinase/FMN adenylyltransferase; Region: ribF; TIGR00083 1001585003270 active site 1001585003271 Riboflavin kinase; Region: Flavokinase; cl03312 1001585003272 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1001585003273 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1001585003274 active site 1001585003275 HIGH motif; other site 1001585003276 nucleotide binding site [chemical binding]; other site 1001585003277 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1001585003278 active site 1001585003279 KMSKS motif; other site 1001585003280 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1001585003281 tRNA binding surface [nucleotide binding]; other site 1001585003282 anticodon binding site; other site 1001585003283 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1001585003284 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 1001585003285 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 1001585003286 LytB protein; Region: LYTB; cl00507 1001585003287 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 1001585003288 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1001585003289 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 1001585003290 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 1001585003291 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 1001585003292 PilX N-terminal; Region: PilX_N; pfam14341 1001585003293 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 1001585003294 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 1001585003295 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 1001585003296 Type II transport protein GspH; Region: GspH; pfam12019 1001585003297 Type II transport protein GspH; Region: GspH; pfam12019 1001585003298 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1001585003299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585003300 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1001585003301 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585003302 active site 1001585003303 phosphorylation site [posttranslational modification] 1001585003304 intermolecular recognition site; other site 1001585003305 dimerization interface [polypeptide binding]; other site 1001585003306 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585003307 Walker A motif; other site 1001585003308 ATP binding site [chemical binding]; other site 1001585003309 Walker B motif; other site 1001585003310 arginine finger; other site 1001585003311 Helix-turn-helix domains; Region: HTH; cl00088 1001585003312 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1001585003313 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1001585003314 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 1001585003315 dimer interface [polypeptide binding]; other site 1001585003316 phosphorylation site [posttranslational modification] 1001585003317 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585003318 ATP binding site [chemical binding]; other site 1001585003319 Mg2+ binding site [ion binding]; other site 1001585003320 G-X-G motif; other site 1001585003321 Nuclear pore assembly and biogenesis; Region: Apq12; pfam12716 1001585003322 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1001585003323 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1001585003324 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 1001585003325 RNA binding surface [nucleotide binding]; other site 1001585003326 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1001585003327 active site 1001585003328 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1001585003329 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1001585003330 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585003331 Helix-turn-helix domains; Region: HTH; cl00088 1001585003332 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 1001585003333 putative active site [active] 1001585003334 putative FMN binding site [chemical binding]; other site 1001585003335 putative substrate binding site [chemical binding]; other site 1001585003336 putative catalytic residue [active] 1001585003337 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1001585003338 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 1001585003339 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585003340 Helix-turn-helix domains; Region: HTH; cl00088 1001585003341 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 1001585003342 substrate binding pocket [chemical binding]; other site 1001585003343 dimerization interface [polypeptide binding]; other site 1001585003344 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 1001585003345 hydrophobic ligand binding site; other site 1001585003346 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 1001585003347 thioredoxin reductase; Provisional; Region: PRK10262 1001585003348 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585003349 Predicted ATPase [General function prediction only]; Region: COG4637 1001585003350 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585003351 Walker A/P-loop; other site 1001585003352 ATP binding site [chemical binding]; other site 1001585003353 short chain dehydrogenase; Provisional; Region: PRK05693 1001585003354 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1001585003355 NADP binding site [chemical binding]; other site 1001585003356 active site 1001585003357 steroid binding site; other site 1001585003358 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1001585003359 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1001585003360 Substrate binding site; other site 1001585003361 Cupin domain; Region: Cupin_2; cl09118 1001585003362 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 1001585003363 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 1001585003364 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; cd00244 1001585003365 active site 1001585003366 Right handed beta helix region; Region: Beta_helix; pfam13229 1001585003367 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1001585003368 Pes-10; Region: Pes-10; pfam07149 1001585003369 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1001585003370 PilZ domain; Region: PilZ; cl01260 1001585003371 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 1001585003372 lipoyl-biotinyl attachment site [posttranslational modification]; other site 1001585003373 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 1001585003374 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1001585003375 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 1001585003376 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 1001585003377 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1001585003378 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585003379 Protein of unknown function (DUF328); Region: DUF328; cl01143 1001585003380 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1001585003381 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1001585003382 putative active site [active] 1001585003383 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585003384 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 1001585003385 trimer interface [polypeptide binding]; other site 1001585003386 dimer interface [polypeptide binding]; other site 1001585003387 putative active site [active] 1001585003388 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1001585003389 MoaE interaction surface [polypeptide binding]; other site 1001585003390 MoeB interaction surface [polypeptide binding]; other site 1001585003391 thiocarboxylated glycine; other site 1001585003392 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 1001585003393 MoaE homodimer interface [polypeptide binding]; other site 1001585003394 MoaD interaction [polypeptide binding]; other site 1001585003395 active site residues [active] 1001585003396 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 1001585003397 active site 1001585003398 metal binding site [ion binding]; metal-binding site 1001585003399 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1001585003400 EamA-like transporter family; Region: EamA; cl01037 1001585003401 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1001585003402 EamA-like transporter family; Region: EamA; cl01037 1001585003403 Excalibur calcium-binding domain; Region: Excalibur; cl05460 1001585003404 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1001585003405 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 1001585003406 catalytic residues [active] 1001585003407 integrase; Provisional; Region: int; PHA02601 1001585003408 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 1001585003409 active site 1001585003410 DNA binding site [nucleotide binding] 1001585003411 Int/Topo IB signature motif; other site 1001585003412 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585003413 Protein of unknown function (DUF2523); Region: DUF2523; cl10291 1001585003414 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 1001585003415 active site 1001585003416 8-oxo-dGMP binding site [chemical binding]; other site 1001585003417 nudix motif; other site 1001585003418 metal binding site [ion binding]; metal-binding site 1001585003419 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 1001585003420 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 1001585003421 active site 1001585003422 AAA domain; Region: AAA_21; pfam13304 1001585003423 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585003424 Q-loop/lid; other site 1001585003425 ABC transporter signature motif; other site 1001585003426 Walker B; other site 1001585003427 D-loop; other site 1001585003428 H-loop/switch region; other site 1001585003429 GTP-binding protein YchF; Reviewed; Region: PRK09601 1001585003430 YchF GTPase; Region: YchF; cd01900 1001585003431 G1 box; other site 1001585003432 GTP/Mg2+ binding site [chemical binding]; other site 1001585003433 Switch I region; other site 1001585003434 G2 box; other site 1001585003435 Switch II region; other site 1001585003436 G3 box; other site 1001585003437 G4 box; other site 1001585003438 G5 box; other site 1001585003439 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 1001585003440 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 1001585003441 putative active site [active] 1001585003442 catalytic residue [active] 1001585003443 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1001585003444 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1001585003445 5S rRNA interface [nucleotide binding]; other site 1001585003446 CTC domain interface [polypeptide binding]; other site 1001585003447 L16 interface [polypeptide binding]; other site 1001585003448 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1001585003449 ribose-phosphate pyrophosphokinase; Region: PLN02369 1001585003450 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1001585003451 active site 1001585003452 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1001585003453 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1001585003454 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1001585003455 outer membrane lipoprotein LolB; Region: lolB; TIGR00548 1001585003456 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1001585003457 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 1001585003458 binding surface 1001585003459 TPR motif; other site 1001585003460 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 1001585003461 TPR motif; other site 1001585003462 binding surface 1001585003463 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 1001585003464 binding surface 1001585003465 TPR motif; other site 1001585003466 TPR repeat; Region: TPR_11; pfam13414 1001585003467 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 1001585003468 binding surface 1001585003469 TPR motif; other site 1001585003470 TPR repeat; Region: TPR_11; pfam13414 1001585003471 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1001585003472 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1001585003473 tRNA; other site 1001585003474 putative tRNA binding site [nucleotide binding]; other site 1001585003475 putative NADP binding site [chemical binding]; other site 1001585003476 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1001585003477 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1001585003478 RF-1 domain; Region: RF-1; cl02875 1001585003479 RF-1 domain; Region: RF-1; cl02875 1001585003480 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1001585003481 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 1001585003482 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1001585003483 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 1001585003484 ATP binding site [chemical binding]; other site 1001585003485 substrate interface [chemical binding]; other site 1001585003486 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1001585003487 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1001585003488 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585003489 Helix-turn-helix domains; Region: HTH; cl00088 1001585003490 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 1001585003491 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 1001585003492 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 1001585003493 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 1001585003494 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 1001585003495 Low-spin heme binding site [chemical binding]; other site 1001585003496 Putative water exit pathway; other site 1001585003497 Binuclear center (active site) [active] 1001585003498 Putative proton exit pathway; other site 1001585003499 Flagellin N-methylase; Region: FliB; cl00497 1001585003500 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 1001585003501 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1001585003502 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 1001585003503 S-adenosylmethionine binding site [chemical binding]; other site 1001585003504 Uncharacterized conserved protein [Function unknown]; Region: COG3496 1001585003505 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 1001585003506 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 1001585003507 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585003508 short chain dehydrogenase; Provisional; Region: PRK06101 1001585003509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585003510 NAD(P) binding site [chemical binding]; other site 1001585003511 active site 1001585003512 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 1001585003513 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 1001585003514 DNA photolyase; Region: DNA_photolyase; pfam00875 1001585003515 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 1001585003516 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 1001585003517 DNA binding residues [nucleotide binding] 1001585003518 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1001585003519 B12 binding domain; Region: B12-binding_2; cl03653 1001585003520 Protein of unknown function (DUF523); Region: DUF523; cl00733 1001585003521 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 1001585003522 Tryptophan-rich protein (DUF2389); Region: DUF2389; cl09726 1001585003523 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585003524 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 1001585003525 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585003526 TIGR01777 family protein; Region: yfcH 1001585003527 NAD(P) binding site [chemical binding]; other site 1001585003528 active site 1001585003529 ferrochelatase; Reviewed; Region: hemH; PRK00035 1001585003530 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 1001585003531 C-terminal domain interface [polypeptide binding]; other site 1001585003532 active site 1001585003533 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 1001585003534 active site 1001585003535 N-terminal domain interface [polypeptide binding]; other site 1001585003536 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 1001585003537 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1001585003538 putative substrate translocation pore; other site 1001585003539 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 1001585003540 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585003541 substrate binding pocket [chemical binding]; other site 1001585003542 membrane-bound complex binding site; other site 1001585003543 hinge residues; other site 1001585003544 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1001585003545 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1001585003546 PhnA protein; Region: PhnA; pfam03831 1001585003547 Peptidase C26; Region: Peptidase_C26; pfam07722 1001585003548 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1001585003549 catalytic triad [active] 1001585003550 Late embryogenesis abundant protein; Region: LEA_2; cl12118 1001585003551 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 1001585003552 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1001585003553 classical (c) SDRs; Region: SDR_c; cd05233 1001585003554 NAD(P) binding site [chemical binding]; other site 1001585003555 active site 1001585003556 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585003557 Helix-turn-helix domains; Region: HTH; cl00088 1001585003558 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 1001585003559 CoenzymeA binding site [chemical binding]; other site 1001585003560 subunit interaction site [polypeptide binding]; other site 1001585003561 PHB binding site; other site 1001585003562 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1001585003563 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 1001585003564 putative substrate translocation pore; other site 1001585003565 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 1001585003566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585003567 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585003568 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1001585003569 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 1001585003570 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 1001585003571 putative substrate binding site [chemical binding]; other site 1001585003572 nucleotide binding site [chemical binding]; other site 1001585003573 nucleotide binding site [chemical binding]; other site 1001585003574 homodimer interface [polypeptide binding]; other site 1001585003575 ornithine carbamoyltransferase; Validated; Region: PRK02102 1001585003576 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1001585003577 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585003578 Amidinotransferase; Region: Amidinotransf; cl12043 1001585003579 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1001585003580 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 1001585003581 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 1001585003582 Proline dehydrogenase; Region: Pro_dh; cl03282 1001585003583 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1001585003584 Glutamate binding site [chemical binding]; other site 1001585003585 NAD binding site [chemical binding]; other site 1001585003586 catalytic residues [active] 1001585003587 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1001585003588 transcriptional regulator; Provisional; Region: PRK10632 1001585003589 Helix-turn-helix domains; Region: HTH; cl00088 1001585003590 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 1001585003591 putative effector binding pocket; other site 1001585003592 dimerization interface [polypeptide binding]; other site 1001585003593 LysE type translocator; Region: LysE; cl00565 1001585003594 ACT domain; Region: ACT_3; pfam10000 1001585003595 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1001585003596 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1001585003597 Helix-turn-helix domains; Region: HTH; cl00088 1001585003598 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 1001585003599 dimerization interface [polypeptide binding]; other site 1001585003600 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1001585003601 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585003602 NAD(P) binding site [chemical binding]; other site 1001585003603 active site 1001585003604 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 1001585003605 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 1001585003606 FMN binding site [chemical binding]; other site 1001585003607 active site 1001585003608 substrate binding site [chemical binding]; other site 1001585003609 catalytic residue [active] 1001585003610 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 1001585003611 dimerization interface [polypeptide binding]; other site 1001585003612 putative DNA binding site [nucleotide binding]; other site 1001585003613 putative Zn2+ binding site [ion binding]; other site 1001585003614 Protein of unknown function, DUF479; Region: DUF479; cl01203 1001585003615 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1001585003616 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 1001585003617 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1001585003618 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1001585003619 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1001585003620 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1001585003621 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 1001585003622 Ligand Binding Site [chemical binding]; other site 1001585003623 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 1001585003624 Ligand Binding Site [chemical binding]; other site 1001585003625 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1001585003626 putative acyl-acceptor binding pocket; other site 1001585003627 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1001585003628 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585003629 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1001585003630 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1001585003631 YceI-like domain; Region: YceI; cl01001 1001585003632 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1001585003633 PLD-like domain; Region: PLDc_2; pfam13091 1001585003634 putative active site [active] 1001585003635 catalytic site [active] 1001585003636 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1001585003637 PLD-like domain; Region: PLDc_2; pfam13091 1001585003638 putative active site [active] 1001585003639 catalytic site [active] 1001585003640 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585003641 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585003642 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585003643 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1001585003644 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1001585003645 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1001585003646 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 1001585003647 DNA binding residues [nucleotide binding] 1001585003648 dimerization interface [polypeptide binding]; other site 1001585003649 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 1001585003650 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 1001585003651 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 1001585003652 dimer interface [polypeptide binding]; other site 1001585003653 active site 1001585003654 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 1001585003655 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 1001585003656 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585003657 Helix-turn-helix domains; Region: HTH; cl00088 1001585003658 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 1001585003659 putative dimerization interface [polypeptide binding]; other site 1001585003660 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585003661 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1001585003662 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 1001585003663 active sites [active] 1001585003664 tetramer interface [polypeptide binding]; other site 1001585003665 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1001585003666 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585003667 Helix-turn-helix domains; Region: HTH; cl00088 1001585003668 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 1001585003669 putative dimerization interface [polypeptide binding]; other site 1001585003670 putative substrate binding pocket [chemical binding]; other site 1001585003671 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1001585003672 Ligand binding site; other site 1001585003673 metal-binding site 1001585003674 TIGR03549 family protein; Region: TIGR03549 1001585003675 OsmC-like protein; Region: OsmC; cl00767 1001585003676 bacteriocin biosynthesis docking scaffold, SagD family; Region: docking_ocin; cl09146 1001585003677 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585003678 Helix-turn-helix domains; Region: HTH; cl00088 1001585003679 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 1001585003680 putative dimerization interface [polypeptide binding]; other site 1001585003681 PrpF protein; Region: PrpF; pfam04303 1001585003682 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1001585003683 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585003684 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1001585003685 NMT1-like family; Region: NMT1_2; cl15260 1001585003686 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1001585003687 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 1001585003688 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1001585003689 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585003690 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585003691 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 1001585003692 dimerization interface [polypeptide binding]; other site 1001585003693 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 1001585003694 dimer interface [polypeptide binding]; other site 1001585003695 phosphorylation site [posttranslational modification] 1001585003696 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585003697 ATP binding site [chemical binding]; other site 1001585003698 Mg2+ binding site [ion binding]; other site 1001585003699 G-X-G motif; other site 1001585003700 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1001585003701 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585003702 active site 1001585003703 phosphorylation site [posttranslational modification] 1001585003704 intermolecular recognition site; other site 1001585003705 dimerization interface [polypeptide binding]; other site 1001585003706 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 1001585003707 DNA binding site [nucleotide binding] 1001585003708 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1001585003709 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 1001585003710 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 1001585003711 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1001585003712 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1001585003713 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 1001585003714 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 1001585003715 putative substrate translocation pore; other site 1001585003716 Secretin and TonB N terminus short domain; Region: STN; cl06624 1001585003717 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1001585003718 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 1001585003719 N-terminal plug; other site 1001585003720 ligand-binding site [chemical binding]; other site 1001585003721 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1001585003722 FecR protein; Region: FecR; pfam04773 1001585003723 RNA polymerase sigma factor; Reviewed; Region: PRK12523 1001585003724 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585003725 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 1001585003726 DNA binding residues [nucleotide binding] 1001585003727 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 1001585003728 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1001585003729 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 1001585003730 active site 1001585003731 DNA binding site [nucleotide binding] 1001585003732 Int/Topo IB signature motif; other site 1001585003733 Arc-like DNA binding domain; Region: Arc; pfam03869 1001585003734 integrase; Provisional; Region: int; PHA02601 1001585003735 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 1001585003736 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 1001585003737 active site 1001585003738 DNA binding site [nucleotide binding] 1001585003739 Int/Topo IB signature motif; other site 1001585003740 Cache domain; Region: Cache_1; pfam02743 1001585003741 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1001585003742 PAS fold; Region: PAS_3; pfam08447 1001585003743 putative active site [active] 1001585003744 heme pocket [chemical binding]; other site 1001585003745 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 1001585003746 dimer interface [polypeptide binding]; other site 1001585003747 phosphorylation site [posttranslational modification] 1001585003748 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585003749 ATP binding site [chemical binding]; other site 1001585003750 Mg2+ binding site [ion binding]; other site 1001585003751 G-X-G motif; other site 1001585003752 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585003753 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585003754 active site 1001585003755 phosphorylation site [posttranslational modification] 1001585003756 intermolecular recognition site; other site 1001585003757 dimerization interface [polypeptide binding]; other site 1001585003758 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 1001585003759 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1001585003760 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1001585003761 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 1001585003762 Divalent cation transporter; Region: MgtE; cl00786 1001585003763 AAA domain; Region: AAA_32; pfam13654 1001585003764 ATP-dependent protease Lon; Provisional; Region: PRK13765 1001585003765 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 1001585003766 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 1001585003767 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 1001585003768 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 1001585003769 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 1001585003770 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; cl01792 1001585003771 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1001585003772 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 1001585003773 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585003774 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585003775 dimer interface [polypeptide binding]; other site 1001585003776 putative CheW interface [polypeptide binding]; other site 1001585003777 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1001585003778 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585003779 active site 1001585003780 phosphorylation site [posttranslational modification] 1001585003781 intermolecular recognition site; other site 1001585003782 dimerization interface [polypeptide binding]; other site 1001585003783 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1001585003784 Zn2+ binding site [ion binding]; other site 1001585003785 Mg2+ binding site [ion binding]; other site 1001585003786 Cache domain; Region: Cache_1; pfam02743 1001585003787 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585003788 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 1001585003789 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 1001585003790 dimer interface [polypeptide binding]; other site 1001585003791 phosphorylation site [posttranslational modification] 1001585003792 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585003793 ATP binding site [chemical binding]; other site 1001585003794 Mg2+ binding site [ion binding]; other site 1001585003795 G-X-G motif; other site 1001585003796 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1001585003797 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1001585003798 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 1001585003799 multidrug efflux protein; Reviewed; Region: PRK09579 1001585003800 Protein export membrane protein; Region: SecD_SecF; cl14618 1001585003801 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1001585003802 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 1001585003803 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 1001585003804 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 1001585003805 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585003806 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585003807 dimer interface [polypeptide binding]; other site 1001585003808 putative CheW interface [polypeptide binding]; other site 1001585003809 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1001585003810 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 1001585003811 active site pocket [active] 1001585003812 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1001585003813 Helix-turn-helix domains; Region: HTH; cl00088 1001585003814 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 1001585003815 putative dimerization interface [polypeptide binding]; other site 1001585003816 putative substrate binding pocket [chemical binding]; other site 1001585003817 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 1001585003818 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1001585003819 NMT1-like family; Region: NMT1_2; cl15260 1001585003820 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1001585003821 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 1001585003822 active site 1001585003823 tetramer interface [polypeptide binding]; other site 1001585003824 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 1001585003825 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1001585003826 putative active site [active] 1001585003827 catalytic residue [active] 1001585003828 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1001585003829 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 1001585003830 active site 1001585003831 tetramer interface [polypeptide binding]; other site 1001585003832 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 1001585003833 D-galactonate transporter; Region: 2A0114; TIGR00893 1001585003834 putative substrate translocation pore; other site 1001585003835 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1001585003836 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1001585003837 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1001585003838 FAD binding domain; Region: FAD_binding_4; pfam01565 1001585003839 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1001585003840 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585003841 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1001585003842 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 1001585003843 Walker A/P-loop; other site 1001585003844 ATP binding site [chemical binding]; other site 1001585003845 Q-loop/lid; other site 1001585003846 ABC transporter signature motif; other site 1001585003847 Walker B; other site 1001585003848 D-loop; other site 1001585003849 H-loop/switch region; other site 1001585003850 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1001585003851 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; cl02325 1001585003852 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1001585003853 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585003854 Walker A motif; other site 1001585003855 ATP binding site [chemical binding]; other site 1001585003856 Walker B motif; other site 1001585003857 arginine finger; other site 1001585003858 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 1001585003859 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585003860 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585003861 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585003862 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 1001585003863 dimer interface [polypeptide binding]; other site 1001585003864 active site 1001585003865 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 1001585003866 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1001585003867 active site 1001585003868 metal binding site [ion binding]; metal-binding site 1001585003869 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1001585003870 active site 1001585003871 Septum formation topological specificity factor MinE; Region: MinE; cl00538 1001585003872 cell division inhibitor MinD; Provisional; Region: PRK10818 1001585003873 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 1001585003874 Switch I; other site 1001585003875 Switch II; other site 1001585003876 septum formation inhibitor; Reviewed; Region: minC; PRK00339 1001585003877 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1001585003878 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1001585003879 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1001585003880 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1001585003881 putative acyl-acceptor binding pocket; other site 1001585003882 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1001585003883 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1001585003884 active site 1001585003885 nucleophile elbow; other site 1001585003886 Pirin-related protein [General function prediction only]; Region: COG1741 1001585003887 Cupin domain; Region: Cupin_2; cl09118 1001585003888 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1001585003889 VacJ like lipoprotein; Region: VacJ; cl01073 1001585003890 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 1001585003891 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 1001585003892 short chain dehydrogenase; Provisional; Region: PRK05650 1001585003893 classical (c) SDRs; Region: SDR_c; cd05233 1001585003894 NAD(P) binding site [chemical binding]; other site 1001585003895 active site 1001585003896 cyanate transporter; Region: CynX; TIGR00896 1001585003897 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 1001585003898 putative substrate translocation pore; other site 1001585003899 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 1001585003900 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 1001585003901 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 1001585003902 dimer interface [polypeptide binding]; other site 1001585003903 substrate binding site [chemical binding]; other site 1001585003904 metal binding sites [ion binding]; metal-binding site 1001585003905 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1001585003906 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1001585003907 Sodium:solute symporter family; Region: SSF; cl00456 1001585003908 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1001585003909 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 1001585003910 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1001585003911 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1001585003912 Transglycosylase; Region: Transgly; cl07896 1001585003913 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1001585003914 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 1001585003915 S-adenosylmethionine binding site [chemical binding]; other site 1001585003916 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 1001585003917 active site 1001585003918 metal binding site [ion binding]; metal-binding site 1001585003919 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 1001585003920 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1001585003921 active site 1001585003922 catalytic tetrad [active] 1001585003923 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1001585003924 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 1001585003925 dimer interface [polypeptide binding]; other site 1001585003926 motif 1; other site 1001585003927 active site 1001585003928 motif 2; other site 1001585003929 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 1001585003930 putative deacylase active site [active] 1001585003931 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 attaches...; Region: class_II_aaRS-like_core; cl00268 1001585003932 active site 1001585003933 motif 3; other site 1001585003934 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 1001585003935 anticodon binding site; other site 1001585003936 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 1001585003937 CoenzymeA binding site [chemical binding]; other site 1001585003938 subunit interaction site [polypeptide binding]; other site 1001585003939 PHB binding site; other site 1001585003940 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585003941 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 1001585003942 SlyX; Region: SlyX; cl01090 1001585003943 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 1001585003944 DNA-binding site [nucleotide binding]; DNA binding site 1001585003945 RNA-binding motif; other site 1001585003946 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585003947 metal binding site [ion binding]; metal-binding site 1001585003948 active site 1001585003949 I-site; other site 1001585003950 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1001585003951 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1001585003952 dimerization interface [polypeptide binding]; other site 1001585003953 DPS ferroxidase diiron center [ion binding]; other site 1001585003954 ion pore; other site 1001585003955 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1001585003956 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 1001585003957 dimer interface [polypeptide binding]; other site 1001585003958 anticodon binding site; other site 1001585003959 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 1001585003960 homodimer interface [polypeptide binding]; other site 1001585003961 motif 1; other site 1001585003962 active site 1001585003963 motif 2; other site 1001585003964 GAD domain; Region: GAD; pfam02938 1001585003965 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 attaches...; Region: class_II_aaRS-like_core; cl00268 1001585003966 active site 1001585003967 motif 3; other site 1001585003968 Transcriptional regulator; Region: Transcrip_reg; cl00361 1001585003969 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 1001585003970 active site 1001585003971 putative DNA-binding cleft [nucleotide binding]; other site 1001585003972 dimer interface [polypeptide binding]; other site 1001585003973 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1001585003974 RuvA N terminal domain; Region: RuvA_N; pfam01330 1001585003975 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1001585003976 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1001585003977 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585003978 Walker A motif; other site 1001585003979 ATP binding site [chemical binding]; other site 1001585003980 Walker B motif; other site 1001585003981 arginine finger; other site 1001585003982 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1001585003983 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 1001585003984 active site 1001585003985 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1001585003986 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1001585003987 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1001585003988 translocation protein TolB; Provisional; Region: tolB; PRK00178 1001585003989 TolB amino-terminal domain; Region: TolB_N; cl00639 1001585003990 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1001585003991 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1001585003992 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1001585003993 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585003994 ligand binding site [chemical binding]; other site 1001585003995 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1001585003996 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1001585003997 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 1001585003998 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 1001585003999 FeS/SAM binding site; other site 1001585004000 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 1001585004001 Ligand Binding Site [chemical binding]; other site 1001585004002 Quinolinate synthetase A protein; Region: NadA; cl00420 1001585004003 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1001585004004 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1001585004005 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1001585004006 Beta-Casp domain; Region: Beta-Casp; cl12567 1001585004007 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1001585004008 Domain of unknown function (DUF4146); Region: DUF4146; pfam13652 1001585004009 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 1001585004010 DTW domain; Region: DTW; cl01221 1001585004011 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1001585004012 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585004013 active site 1001585004014 phosphorylation site [posttranslational modification] 1001585004015 intermolecular recognition site; other site 1001585004016 dimerization interface [polypeptide binding]; other site 1001585004017 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 1001585004018 DNA binding residues [nucleotide binding] 1001585004019 dimerization interface [polypeptide binding]; other site 1001585004020 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 1001585004021 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1001585004022 Helix-turn-helix domains; Region: HTH; cl00088 1001585004023 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 1001585004024 putative dimerization interface [polypeptide binding]; other site 1001585004025 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1001585004026 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 1001585004027 FAD binding pocket [chemical binding]; other site 1001585004028 FAD binding motif [chemical binding]; other site 1001585004029 phosphate binding motif [ion binding]; other site 1001585004030 beta-alpha-beta structure motif; other site 1001585004031 NAD binding pocket [chemical binding]; other site 1001585004032 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 1001585004033 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 1001585004034 substrate binding site [chemical binding]; other site 1001585004035 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1001585004036 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585004037 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585004038 Helix-turn-helix domains; Region: HTH; cl00088 1001585004039 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 1001585004040 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1001585004041 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1001585004042 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1001585004043 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; cl00161 1001585004044 folate binding site [chemical binding]; other site 1001585004045 NADP+ binding site [chemical binding]; other site 1001585004046 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 1001585004047 helicase 45; Provisional; Region: PTZ00424 1001585004048 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 1001585004049 ATP binding site [chemical binding]; other site 1001585004050 Mg++ binding site [ion binding]; other site 1001585004051 motif III; other site 1001585004052 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 1001585004053 nucleotide binding region [chemical binding]; other site 1001585004054 ATP-binding site [chemical binding]; other site 1001585004055 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1001585004056 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 1001585004057 Walker A/P-loop; other site 1001585004058 ATP binding site [chemical binding]; other site 1001585004059 Q-loop/lid; other site 1001585004060 ABC transporter signature motif; other site 1001585004061 Walker B; other site 1001585004062 D-loop; other site 1001585004063 H-loop/switch region; other site 1001585004064 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 1001585004065 RF-1 domain; Region: RF-1; cl02875 1001585004066 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 1001585004067 active site 1001585004068 dimer interfaces [polypeptide binding]; other site 1001585004069 catalytic residues [active] 1001585004070 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585004071 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1001585004072 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 1001585004073 Dehydratase family; Region: ILVD_EDD; cl00340 1001585004074 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1001585004075 Putative exonuclease, RdgC; Region: RdgC; cl01122 1001585004076 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1001585004077 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1001585004078 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 1001585004079 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 1001585004080 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 1001585004081 non-specific DNA binding site [nucleotide binding]; other site 1001585004082 salt bridge; other site 1001585004083 sequence-specific DNA binding site [nucleotide binding]; other site 1001585004084 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 1001585004085 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 1001585004086 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585004087 metal binding site [ion binding]; metal-binding site 1001585004088 active site 1001585004089 I-site; other site 1001585004090 carboxy-terminal protease; Provisional; Region: PRK11186 1001585004091 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1001585004092 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 1001585004093 protein binding site [polypeptide binding]; other site 1001585004094 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1001585004095 Catalytic dyad [active] 1001585004096 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1001585004097 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1001585004098 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1001585004099 NAD(P) binding site [chemical binding]; other site 1001585004100 peroxiredoxin; Region: AhpC; TIGR03137 1001585004101 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 1001585004102 dimer interface [polypeptide binding]; other site 1001585004103 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1001585004104 catalytic triad [active] 1001585004105 peroxidatic and resolving cysteines [active] 1001585004106 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1001585004107 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 1001585004108 catalytic residue [active] 1001585004109 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 1001585004110 catalytic residues [active] 1001585004111 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585004112 hypothetical protein; Provisional; Region: PRK11171 1001585004113 Cupin domain; Region: Cupin_2; cl09118 1001585004114 Cupin domain; Region: Cupin_2; cl09118 1001585004115 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585004116 Helix-turn-helix domains; Region: HTH; cl00088 1001585004117 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 1001585004118 dimerization interface [polypeptide binding]; other site 1001585004119 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1001585004120 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1001585004121 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1001585004122 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585004123 Walker A/P-loop; other site 1001585004124 ATP binding site [chemical binding]; other site 1001585004125 Q-loop/lid; other site 1001585004126 ABC transporter signature motif; other site 1001585004127 Walker B; other site 1001585004128 D-loop; other site 1001585004129 H-loop/switch region; other site 1001585004130 TOBE domain; Region: TOBE_2; cl01440 1001585004131 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 1001585004132 dimer interface [polypeptide binding]; other site 1001585004133 conserved gate region; other site 1001585004134 putative PBP binding loops; other site 1001585004135 ABC-ATPase subunit interface; other site 1001585004136 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 1001585004137 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 1001585004138 dimer interface [polypeptide binding]; other site 1001585004139 conserved gate region; other site 1001585004140 putative PBP binding loops; other site 1001585004141 ABC-ATPase subunit interface; other site 1001585004142 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 1001585004143 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1001585004144 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 1001585004145 transcriptional regulator protein; Region: phnR; TIGR03337 1001585004146 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585004147 DNA-binding site [nucleotide binding]; DNA binding site 1001585004148 UTRA domain; Region: UTRA; cl01230 1001585004149 YCII-related domain; Region: YCII; cl00999 1001585004150 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1001585004151 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 1001585004152 Sel1 repeat; Region: Sel1; cl02723 1001585004153 Sel1 repeat; Region: Sel1; cl02723 1001585004154 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 1001585004155 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1001585004156 active site 1001585004157 Zn binding site [ion binding]; other site 1001585004158 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585004159 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 1001585004160 putative substrate binding pocket [chemical binding]; other site 1001585004161 trimer interface [polypeptide binding]; other site 1001585004162 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1001585004163 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1001585004164 DNA binding residues [nucleotide binding] 1001585004165 dimer interface [polypeptide binding]; other site 1001585004166 [2Fe-2S] cluster binding site [ion binding]; other site 1001585004167 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1001585004168 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 1001585004169 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1001585004170 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1001585004171 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 1001585004172 dimer interface [polypeptide binding]; other site 1001585004173 active site 1001585004174 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1001585004175 folate binding site [chemical binding]; other site 1001585004176 glycine dehydrogenase; Provisional; Region: PRK05367 1001585004177 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 1001585004178 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585004179 tetramer interface [polypeptide binding]; other site 1001585004180 catalytic residue [active] 1001585004181 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 1001585004182 tetramer interface [polypeptide binding]; other site 1001585004183 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585004184 catalytic residue [active] 1001585004185 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 1001585004186 lipoyl attachment site [posttranslational modification]; other site 1001585004187 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1001585004188 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 1001585004189 E-class dimer interface [polypeptide binding]; other site 1001585004190 P-class dimer interface [polypeptide binding]; other site 1001585004191 active site 1001585004192 Cu2+ binding site [ion binding]; other site 1001585004193 Zn2+ binding site [ion binding]; other site 1001585004194 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1001585004195 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 1001585004196 putative aromatic amino acid binding site; other site 1001585004197 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585004198 Walker A motif; other site 1001585004199 ATP binding site [chemical binding]; other site 1001585004200 Walker B motif; other site 1001585004201 arginine finger; other site 1001585004202 DNA-specific endonuclease I; Provisional; Region: PRK15137 1001585004203 Endonuclease I; Region: Endonuclease_1; cl01003 1001585004204 Sodium:solute symporter family; Region: SSF; cl00456 1001585004205 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 1001585004206 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 1001585004207 catalytic residues [active] 1001585004208 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1001585004209 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 1001585004210 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585004211 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 1001585004212 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 1001585004213 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1001585004214 active site 1001585004215 uracil binding [chemical binding]; other site 1001585004216 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 1001585004217 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585004218 metal binding site [ion binding]; metal-binding site 1001585004219 active site 1001585004220 I-site; other site 1001585004221 urea carboxylase; Region: urea_carbox; TIGR02712 1001585004222 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1001585004223 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1001585004224 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 1001585004225 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 1001585004226 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 1001585004227 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 1001585004228 carboxyltransferase (CT) interaction site; other site 1001585004229 biotinylation site [posttranslational modification]; other site 1001585004230 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 1001585004231 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 1001585004232 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 1001585004233 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 1001585004234 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1001585004235 NMT1-like family; Region: NMT1_2; cl15260 1001585004236 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1001585004237 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 1001585004238 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 1001585004239 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 1001585004240 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 1001585004241 Walker A/P-loop; other site 1001585004242 ATP binding site [chemical binding]; other site 1001585004243 Q-loop/lid; other site 1001585004244 ABC transporter signature motif; other site 1001585004245 Walker B; other site 1001585004246 D-loop; other site 1001585004247 H-loop/switch region; other site 1001585004248 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 1001585004249 O-Antigen ligase; Region: Wzy_C; cl04850 1001585004250 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 1001585004251 Hpr binding site; other site 1001585004252 active site 1001585004253 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 1001585004254 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1001585004255 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 1001585004256 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585004257 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 1001585004258 metal ion-dependent adhesion site (MIDAS); other site 1001585004259 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 1001585004260 active site 1001585004261 dimer interface [polypeptide binding]; other site 1001585004262 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 1001585004263 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 1001585004264 Ligand Binding Site [chemical binding]; other site 1001585004265 Molecular Tunnel; other site 1001585004266 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; cl16911 1001585004267 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 1001585004268 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1001585004269 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585004270 NAD(P) binding site [chemical binding]; other site 1001585004271 active site 1001585004272 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 1001585004273 active site 1001585004274 dimer interface [polypeptide binding]; other site 1001585004275 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 1001585004276 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 1001585004277 Ligand Binding Site [chemical binding]; other site 1001585004278 Molecular Tunnel; other site 1001585004279 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1001585004280 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 1001585004281 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; cl16911 1001585004282 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1001585004283 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1001585004284 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585004285 Walker A/P-loop; other site 1001585004286 ATP binding site [chemical binding]; other site 1001585004287 Q-loop/lid; other site 1001585004288 ABC transporter signature motif; other site 1001585004289 Walker B; other site 1001585004290 D-loop; other site 1001585004291 H-loop/switch region; other site 1001585004292 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 1001585004293 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 1001585004294 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 1001585004295 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585004296 metal binding site [ion binding]; metal-binding site 1001585004297 active site 1001585004298 I-site; other site 1001585004299 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 1001585004300 VCBS repeat; Region: VCBS_repeat; TIGR01965 1001585004301 VCBS repeat; Region: VCBS_repeat; TIGR01965 1001585004302 VCBS repeat; Region: VCBS_repeat; TIGR01965 1001585004303 VCBS repeat; Region: VCBS_repeat; TIGR01965 1001585004304 VCBS repeat; Region: VCBS_repeat; TIGR01965 1001585004305 VCBS repeat; Region: VCBS_repeat; TIGR01965 1001585004306 VCBS repeat; Region: VCBS_repeat; TIGR01965 1001585004307 VCBS repeat; Region: VCBS_repeat; TIGR01965 1001585004308 VCBS repeat; Region: VCBS_repeat; TIGR01965 1001585004309 VCBS repeat; Region: VCBS_repeat; TIGR01965 1001585004310 PA14 domain; Region: PA14; cl08459 1001585004311 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 1001585004312 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 1001585004313 Ca2+ binding site [ion binding]; other site 1001585004314 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 1001585004315 Ca2+ binding site [ion binding]; other site 1001585004316 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 1001585004317 Ca2+ binding site [ion binding]; other site 1001585004318 PA14 domain; Region: PA14; cl08459 1001585004319 type 1 secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 1001585004320 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1001585004321 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1001585004322 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 1001585004323 putative active site [active] 1001585004324 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1001585004325 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 1001585004326 Walker A/P-loop; other site 1001585004327 ATP binding site [chemical binding]; other site 1001585004328 Q-loop/lid; other site 1001585004329 ABC transporter signature motif; other site 1001585004330 Walker B; other site 1001585004331 D-loop; other site 1001585004332 H-loop/switch region; other site 1001585004333 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1001585004334 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 1001585004335 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 1001585004336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585004337 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1001585004338 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1001585004339 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 1001585004340 substrate binding site [chemical binding]; other site 1001585004341 oxyanion hole (OAH) forming residues; other site 1001585004342 trimer interface [polypeptide binding]; other site 1001585004343 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; cl15762 1001585004344 enoyl-CoA hydratase; Provisional; Region: PRK09076 1001585004345 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 1001585004346 substrate binding site [chemical binding]; other site 1001585004347 oxyanion hole (OAH) forming residues; other site 1001585004348 trimer interface [polypeptide binding]; other site 1001585004349 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585004350 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 1001585004351 substrate binding pocket [chemical binding]; other site 1001585004352 FAD binding site [chemical binding]; other site 1001585004353 catalytic base [active] 1001585004354 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1001585004355 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 1001585004356 putative ligand binding site [chemical binding]; other site 1001585004357 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1001585004358 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1001585004359 tetrameric interface [polypeptide binding]; other site 1001585004360 NAD binding site [chemical binding]; other site 1001585004361 catalytic residues [active] 1001585004362 Cupin domain; Region: Cupin_2; cl09118 1001585004363 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1001585004364 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585004365 HDOD domain; Region: HDOD; pfam08668 1001585004366 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1001585004367 ligand binding site [chemical binding]; other site 1001585004368 active site 1001585004369 UGI interface [polypeptide binding]; other site 1001585004370 catalytic site [active] 1001585004371 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 1001585004372 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 1001585004373 Walker A/P-loop; other site 1001585004374 ATP binding site [chemical binding]; other site 1001585004375 Q-loop/lid; other site 1001585004376 ABC transporter signature motif; other site 1001585004377 Walker B; other site 1001585004378 D-loop; other site 1001585004379 H-loop/switch region; other site 1001585004380 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1001585004381 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 1001585004382 Walker A/P-loop; other site 1001585004383 ATP binding site [chemical binding]; other site 1001585004384 Q-loop/lid; other site 1001585004385 ABC transporter signature motif; other site 1001585004386 Walker B; other site 1001585004387 D-loop; other site 1001585004388 H-loop/switch region; other site 1001585004389 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1001585004390 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1001585004391 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 1001585004392 TM-ABC transporter signature motif; other site 1001585004393 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 1001585004394 TM-ABC transporter signature motif; other site 1001585004395 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 1001585004396 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 1001585004397 dimerization interface [polypeptide binding]; other site 1001585004398 ligand binding site [chemical binding]; other site 1001585004399 Protein of unknown function (DUF2288); Region: DUF2288; cl02399 1001585004400 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 1001585004401 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1001585004402 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1001585004403 dimer interface [polypeptide binding]; other site 1001585004404 catalytic site [active] 1001585004405 putative active site [active] 1001585004406 putative substrate binding site [chemical binding]; other site 1001585004407 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 1001585004408 active site 1001585004409 substrate binding pocket [chemical binding]; other site 1001585004410 dimer interface [polypeptide binding]; other site 1001585004411 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585004412 ligand binding site [chemical binding]; other site 1001585004413 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 1001585004414 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 1001585004415 ANP binding site [chemical binding]; other site 1001585004416 Substrate Binding Site II [chemical binding]; other site 1001585004417 Substrate Binding Site I [chemical binding]; other site 1001585004418 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1001585004419 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1001585004420 dimer interface [polypeptide binding]; other site 1001585004421 active site 1001585004422 glutathione binding site [chemical binding]; other site 1001585004423 metal binding site [ion binding]; metal-binding site 1001585004424 endonuclease III; Provisional; Region: PRK10702 1001585004425 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1001585004426 minor groove reading motif; other site 1001585004427 helix-hairpin-helix signature motif; other site 1001585004428 substrate binding pocket [chemical binding]; other site 1001585004429 active site 1001585004430 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 1001585004431 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 1001585004432 FMN-binding domain; Region: FMN_bind; cl01081 1001585004433 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 1001585004434 electron transport complex protein RnfC; Provisional; Region: PRK05035 1001585004435 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 1001585004436 SLBB domain; Region: SLBB; pfam10531 1001585004437 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 1001585004438 electron transport complex protein RnfC; Provisional; Region: PRK05035 1001585004439 Membrane fusogenic activity; Region: BMFP; cl01115 1001585004440 ferredoxin; Provisional; Region: PRK08764 1001585004441 Putative Fe-S cluster; Region: FeS; pfam04060 1001585004442 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1001585004443 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 1001585004444 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 1001585004445 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 1001585004446 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1001585004447 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1001585004448 active site 1001585004449 HIGH motif; other site 1001585004450 KMSKS motif; other site 1001585004451 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1001585004452 tRNA binding surface [nucleotide binding]; other site 1001585004453 anticodon binding site; other site 1001585004454 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 1001585004455 dimer interface [polypeptide binding]; other site 1001585004456 putative tRNA-binding site [nucleotide binding]; other site 1001585004457 antiporter inner membrane protein; Provisional; Region: PRK11670 1001585004458 Domain of unknown function DUF59; Region: DUF59; cl00941 1001585004459 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 1001585004460 Walker A motif; other site 1001585004461 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 1001585004462 DNA-binding site [nucleotide binding]; DNA binding site 1001585004463 RNA-binding motif; other site 1001585004464 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1001585004465 trimer interface [polypeptide binding]; other site 1001585004466 active site 1001585004467 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1001585004468 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 1001585004469 homodimer interface [polypeptide binding]; other site 1001585004470 NAD binding pocket [chemical binding]; other site 1001585004471 ATP binding pocket [chemical binding]; other site 1001585004472 Mg binding site [ion binding]; other site 1001585004473 active-site loop [active] 1001585004474 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1001585004475 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 1001585004476 active site 1001585004477 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 1001585004478 catalytic triad [active] 1001585004479 metal binding site [ion binding]; metal-binding site 1001585004480 conserved cis-peptide bond; other site 1001585004481 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 1001585004482 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 1001585004483 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1001585004484 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 1001585004485 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 1001585004486 active site 1001585004487 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 1001585004488 SEC-C motif; Region: SEC-C; pfam02810 1001585004489 Late embryogenesis abundant protein; Region: LEA_2; cl12118 1001585004490 hypothetical protein; Provisional; Region: PRK00183 1001585004491 SEC-C motif; Region: SEC-C; pfam02810 1001585004492 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585004493 ligand binding site [chemical binding]; other site 1001585004494 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 1001585004495 Copper resistance protein D; Region: CopD; cl00563 1001585004496 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 1001585004497 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585004498 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585004499 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 1001585004500 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 1001585004501 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 1001585004502 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 1001585004503 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 1001585004504 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 1001585004505 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1001585004506 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1001585004507 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1001585004508 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585004509 ligand binding site [chemical binding]; other site 1001585004510 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1001585004511 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1001585004512 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1001585004513 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 1001585004514 putative kissing complex interaction region; other site 1001585004515 putative RNA binding sites [nucleotide binding]; other site 1001585004516 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1001585004517 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1001585004518 Helix-turn-helix domains; Region: HTH; cl00088 1001585004519 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 1001585004520 GntP family permease; Region: GntP_permease; pfam02447 1001585004521 Glycerate kinase family; Region: Gly_kinase; cl00841 1001585004522 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1001585004523 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1001585004524 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 1001585004525 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1001585004526 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1001585004527 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 1001585004528 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1001585004529 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 1001585004530 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 1001585004531 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 1001585004532 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 1001585004533 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1001585004534 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1001585004535 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1001585004536 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585004537 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 1001585004538 putative substrate translocation pore; other site 1001585004539 Predicted membrane protein [Function unknown]; Region: COG3650 1001585004540 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 1001585004541 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 1001585004542 probable active site [active] 1001585004543 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1001585004544 Putative ammonia monooxygenase; Region: AmoA; pfam05145 1001585004545 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1001585004546 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 1001585004547 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1001585004548 NMT1-like family; Region: NMT1_2; cl15260 1001585004549 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585004550 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1001585004551 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585004552 active site 1001585004553 phosphorylation site [posttranslational modification] 1001585004554 intermolecular recognition site; other site 1001585004555 dimerization interface [polypeptide binding]; other site 1001585004556 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 1001585004557 DNA binding site [nucleotide binding] 1001585004558 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1001585004559 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 1001585004560 dimer interface [polypeptide binding]; other site 1001585004561 phosphorylation site [posttranslational modification] 1001585004562 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585004563 ATP binding site [chemical binding]; other site 1001585004564 G-X-G motif; other site 1001585004565 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 1001585004566 substrate binding pocket [chemical binding]; other site 1001585004567 membrane-bound complex binding site; other site 1001585004568 hinge residues; other site 1001585004569 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1001585004570 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1001585004571 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1001585004572 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 1001585004573 L-aspartate oxidase; Provisional; Region: PRK09077 1001585004574 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585004575 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1001585004576 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 1001585004577 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585004578 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 1001585004579 DNA binding residues [nucleotide binding] 1001585004580 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 1001585004581 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1001585004582 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 1001585004583 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 1001585004584 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 1001585004585 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1001585004586 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1001585004587 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 1001585004588 protein binding site [polypeptide binding]; other site 1001585004589 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 1001585004590 protein binding site [polypeptide binding]; other site 1001585004591 GTP-binding protein LepA; Provisional; Region: PRK05433 1001585004592 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1001585004593 G1 box; other site 1001585004594 putative GEF interaction site [polypeptide binding]; other site 1001585004595 GTP/Mg2+ binding site [chemical binding]; other site 1001585004596 Switch I region; other site 1001585004597 G2 box; other site 1001585004598 G3 box; other site 1001585004599 Switch II region; other site 1001585004600 G4 box; other site 1001585004601 G5 box; other site 1001585004602 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 1001585004603 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 1001585004604 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1001585004605 signal peptidase I; Provisional; Region: PRK10861 1001585004606 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 1001585004607 Catalytic site [active] 1001585004608 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 1001585004609 ribonuclease III; Reviewed; Region: rnc; PRK00102 1001585004610 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 1001585004611 dimerization interface [polypeptide binding]; other site 1001585004612 active site 1001585004613 metal binding site [ion binding]; metal-binding site 1001585004614 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 1001585004615 dsRNA binding site [nucleotide binding]; other site 1001585004616 GTPase Era; Reviewed; Region: era; PRK00089 1001585004617 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1001585004618 G1 box; other site 1001585004619 GTP/Mg2+ binding site [chemical binding]; other site 1001585004620 Switch I region; other site 1001585004621 G2 box; other site 1001585004622 Switch II region; other site 1001585004623 G3 box; other site 1001585004624 G4 box; other site 1001585004625 G5 box; other site 1001585004626 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 1001585004627 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1001585004628 Recombination protein O N terminal; Region: RecO_N; cl15812 1001585004629 Recombination protein O C terminal; Region: RecO_C; pfam02565 1001585004630 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 1001585004631 active site 1001585004632 hydrophilic channel; other site 1001585004633 dimerization interface [polypeptide binding]; other site 1001585004634 catalytic residues [active] 1001585004635 active site lid [active] 1001585004636 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585004637 Helix-turn-helix domains; Region: HTH; cl00088 1001585004638 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 1001585004639 dimerization interface [polypeptide binding]; other site 1001585004640 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1001585004641 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 1001585004642 S-adenosylmethionine binding site [chemical binding]; other site 1001585004643 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 1001585004644 S-adenosylmethionine binding site [chemical binding]; other site 1001585004645 YhhN-like protein; Region: YhhN; cl01505 1001585004646 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 1001585004647 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585004648 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1001585004649 ATP-dependent helicase HepA; Validated; Region: PRK04914 1001585004650 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 1001585004651 ATP binding site [chemical binding]; other site 1001585004652 putative Mg++ binding site [ion binding]; other site 1001585004653 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 1001585004654 nucleotide binding region [chemical binding]; other site 1001585004655 ATP-binding site [chemical binding]; other site 1001585004656 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 1001585004657 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1001585004658 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 1001585004659 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 1001585004660 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 1001585004661 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 1001585004662 cytosine deaminase; Provisional; Region: PRK09230 1001585004663 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 1001585004664 active site 1001585004665 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 1001585004666 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1001585004667 Helix-turn-helix domains; Region: HTH; cl00088 1001585004668 Sodium:solute symporter family; Region: SSF; cl00456 1001585004669 (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 1001585004670 dimer interaction site [polypeptide binding]; other site 1001585004671 substrate-binding tunnel; other site 1001585004672 active site 1001585004673 catalytic site [active] 1001585004674 substrate binding site [chemical binding]; other site 1001585004675 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1001585004676 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585004677 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585004678 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 1001585004679 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585004680 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1001585004681 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 1001585004682 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585004683 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1001585004684 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 1001585004685 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585004686 DNA-binding site [nucleotide binding]; DNA binding site 1001585004687 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 1001585004688 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585004689 homodimer interface [polypeptide binding]; other site 1001585004690 catalytic residue [active] 1001585004691 benzoate transporter; Region: benE; TIGR00843 1001585004692 Benzoate membrane transport protein; Region: BenE; pfam03594 1001585004693 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1001585004694 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1001585004695 catalytic residue [active] 1001585004696 acetylornithine aminotransferase; Provisional; Region: PRK02627 1001585004697 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 1001585004698 inhibitor-cofactor binding pocket; inhibition site 1001585004699 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585004700 catalytic residue [active] 1001585004701 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1001585004702 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 1001585004703 dimer interface [polypeptide binding]; other site 1001585004704 active site 1001585004705 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1001585004706 folate binding site [chemical binding]; other site 1001585004707 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 1001585004708 Cache domain; Region: Cache_2; cl07034 1001585004709 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 1001585004710 dimerization interface [polypeptide binding]; other site 1001585004711 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585004712 dimer interface [polypeptide binding]; other site 1001585004713 putative CheW interface [polypeptide binding]; other site 1001585004714 putative cyanate transporter; Provisional; Region: cynX; PRK09705 1001585004715 putative cyanate transporter; Provisional; Region: cynX; PRK09705 1001585004716 Helix-turn-helix domains; Region: HTH; cl00088 1001585004717 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1001585004718 hypothetical protein; Provisional; Region: PRK06815 1001585004719 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 1001585004720 tetramer interface [polypeptide binding]; other site 1001585004721 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585004722 catalytic residue [active] 1001585004723 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585004724 ectoine utilization protein EutC; Validated; Region: PRK08291 1001585004725 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1001585004726 YheO-like PAS domain; Region: PAS_6; pfam08348 1001585004727 Helix-turn-helix domains; Region: HTH; cl00088 1001585004728 transcriptional regulator; Provisional; Region: PRK10632 1001585004729 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 1001585004730 putative effector binding pocket; other site 1001585004731 putative dimerization interface [polypeptide binding]; other site 1001585004732 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 1001585004733 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1001585004734 putative substrate translocation pore; other site 1001585004735 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1001585004736 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1001585004737 trimer interface [polypeptide binding]; other site 1001585004738 active site 1001585004739 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 1001585004740 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 1001585004741 ATP binding site [chemical binding]; other site 1001585004742 putative Mg++ binding site [ion binding]; other site 1001585004743 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 1001585004744 nucleotide binding region [chemical binding]; other site 1001585004745 ATP-binding site [chemical binding]; other site 1001585004746 Helicase associated domain (HA2); Region: HA2; cl04503 1001585004747 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1001585004748 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1001585004749 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1001585004750 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1001585004751 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 1001585004752 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 1001585004753 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1001585004754 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1001585004755 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 1001585004756 D-pathway; other site 1001585004757 Putative ubiquinol binding site [chemical binding]; other site 1001585004758 Low-spin heme (heme b) binding site [chemical binding]; other site 1001585004759 Putative water exit pathway; other site 1001585004760 Binuclear center (heme o3/CuB) [ion binding]; other site 1001585004761 K-pathway; other site 1001585004762 Putative proton exit pathway; other site 1001585004763 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 1001585004764 Subunit I/III interface [polypeptide binding]; other site 1001585004765 Subunit III/IV interface [polypeptide binding]; other site 1001585004766 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 1001585004767 UbiA prenyltransferase family; Region: UbiA; cl00337 1001585004768 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1001585004769 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1001585004770 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1001585004771 active site 1001585004772 arsenical pump membrane protein; Provisional; Region: PRK15445 1001585004773 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 1001585004774 transmembrane helices; other site 1001585004775 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 1001585004776 dimerization interface [polypeptide binding]; other site 1001585004777 putative DNA binding site [nucleotide binding]; other site 1001585004778 putative Zn2+ binding site [ion binding]; other site 1001585004779 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1001585004780 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585004781 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1001585004782 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 1001585004783 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585004784 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585004785 dimer interface [polypeptide binding]; other site 1001585004786 putative CheW interface [polypeptide binding]; other site 1001585004787 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 1001585004788 GSH binding site [chemical binding]; other site 1001585004789 catalytic residues [active] 1001585004790 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1001585004791 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1001585004792 Cupin domain; Region: Cupin_2; cl09118 1001585004793 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1001585004794 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585004795 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585004796 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 1001585004797 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1001585004798 classical (c) SDRs; Region: SDR_c; cd05233 1001585004799 NAD(P) binding site [chemical binding]; other site 1001585004800 active site 1001585004801 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 1001585004802 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1001585004803 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585004804 DNA-binding site [nucleotide binding]; DNA binding site 1001585004805 UTRA domain; Region: UTRA; cl01230 1001585004806 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 1001585004807 active site 1001585004808 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 1001585004809 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 1001585004810 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1001585004811 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 1001585004812 putative substrate translocation pore; other site 1001585004813 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585004814 Helix-turn-helix domains; Region: HTH; cl00088 1001585004815 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 1001585004816 putative effector binding pocket; other site 1001585004817 putative dimerization interface [polypeptide binding]; other site 1001585004818 short chain dehydrogenase; Provisional; Region: PRK06197 1001585004819 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 1001585004820 putative NAD(P) binding site [chemical binding]; other site 1001585004821 active site 1001585004822 ATP/ADP translocase [Energy production and conversion]; Region: COG3202; cl03940 1001585004823 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 1001585004824 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1001585004825 C-terminal domain interface [polypeptide binding]; other site 1001585004826 GSH binding site (G-site) [chemical binding]; other site 1001585004827 dimer interface [polypeptide binding]; other site 1001585004828 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 1001585004829 dimer interface [polypeptide binding]; other site 1001585004830 N-terminal domain interface [polypeptide binding]; other site 1001585004831 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 1001585004832 HIT family signature motif; other site 1001585004833 catalytic residue [active] 1001585004834 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1001585004835 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 1001585004836 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1001585004837 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 1001585004838 Catalytic site [active] 1001585004839 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585004840 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 1001585004841 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 1001585004842 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 1001585004843 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1001585004844 active site 1001585004845 nucleotide binding site [chemical binding]; other site 1001585004846 HIGH motif; other site 1001585004847 KMSKS motif; other site 1001585004848 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585004849 AAA domain; Region: AAA_28; pfam13521 1001585004850 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1001585004851 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 1001585004852 active site 1001585004853 FMN binding site [chemical binding]; other site 1001585004854 substrate binding site [chemical binding]; other site 1001585004855 3Fe-4S cluster binding site [ion binding]; other site 1001585004856 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 1001585004857 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 1001585004858 dimer interface [polypeptide binding]; other site 1001585004859 active site 1001585004860 CoA binding pocket [chemical binding]; other site 1001585004861 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 1001585004862 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585004863 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 1001585004864 DNA binding residues [nucleotide binding] 1001585004865 Putative zinc-finger; Region: zf-HC2; cl15806 1001585004866 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1001585004867 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585004868 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585004869 AAA domain; Region: AAA_21; pfam13304 1001585004870 Walker A/P-loop; other site 1001585004871 ATP binding site [chemical binding]; other site 1001585004872 Q-loop/lid; other site 1001585004873 ABC transporter signature motif; other site 1001585004874 Walker B; other site 1001585004875 D-loop; other site 1001585004876 H-loop/switch region; other site 1001585004877 Protein of unknown function (DUF692); Region: DUF692; cl01263 1001585004878 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1001585004879 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 1001585004880 DoxX; Region: DoxX; cl00976 1001585004881 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585004882 Helix-turn-helix domain; Region: HTH_18; pfam12833 1001585004883 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585004884 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1001585004885 FAD binding domain; Region: FAD_binding_4; pfam01565 1001585004886 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1001585004887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585004888 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1001585004889 uncharacterized ygcE-like proteins, N-terminal domain; Region: FGGY_ygcE_like; cd07779 1001585004890 putative N- and C-terminal domain interface [polypeptide binding]; other site 1001585004891 putative active site [active] 1001585004892 putative MgATP binding site [chemical binding]; other site 1001585004893 catalytic site [active] 1001585004894 metal binding site [ion binding]; metal-binding site 1001585004895 putative carbohydrate binding site [chemical binding]; other site 1001585004896 Pirin-related protein [General function prediction only]; Region: COG1741 1001585004897 Cupin domain; Region: Cupin_2; cl09118 1001585004898 lipid kinase; Reviewed; Region: PRK13054 1001585004899 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 1001585004900 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 1001585004901 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585004902 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585004903 active site 1001585004904 phosphorylation site [posttranslational modification] 1001585004905 intermolecular recognition site; other site 1001585004906 dimerization interface [polypeptide binding]; other site 1001585004907 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1001585004908 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1001585004909 MOSC domain; Region: MOSC; pfam03473 1001585004910 lytic murein transglycosylase; Provisional; Region: PRK11619 1001585004911 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 1001585004912 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1001585004913 catalytic residue [active] 1001585004914 ABC transporter ATPase component; Reviewed; Region: PRK11147 1001585004915 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 1001585004916 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 1001585004917 ABC transporter; Region: ABC_tran_2; pfam12848 1001585004918 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 1001585004919 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 1001585004920 Ligand Binding Site [chemical binding]; other site 1001585004921 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 1001585004922 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 1001585004923 substrate binding site [chemical binding]; other site 1001585004924 oxyanion hole (OAH) forming residues; other site 1001585004925 trimer interface [polypeptide binding]; other site 1001585004926 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585004927 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1001585004928 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 1001585004929 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 1001585004930 dimer interface [polypeptide binding]; other site 1001585004931 active site 1001585004932 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 1001585004933 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1001585004934 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 1001585004935 active site 1001585004936 interdomain interaction site; other site 1001585004937 putative metal-binding site [ion binding]; other site 1001585004938 nucleotide binding site [chemical binding]; other site 1001585004939 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 1001585004940 domain I; other site 1001585004941 DNA binding groove [nucleotide binding] 1001585004942 phosphate binding site [ion binding]; other site 1001585004943 domain II; other site 1001585004944 domain III; other site 1001585004945 nucleotide binding site [chemical binding]; other site 1001585004946 catalytic site [active] 1001585004947 domain IV; other site 1001585004948 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1001585004949 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1001585004950 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1001585004951 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1001585004952 Cell division inhibitor SulA; Region: SulA; cl01880 1001585004953 LexA repressor; Validated; Region: PRK00215 1001585004954 Helix-turn-helix domains; Region: HTH; cl00088 1001585004955 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 1001585004956 Catalytic site [active] 1001585004957 Helix-turn-helix domains; Region: HTH; cl00088 1001585004958 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1001585004959 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 1001585004960 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1001585004961 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1001585004962 transcription-repair coupling factor; Provisional; Region: PRK10689 1001585004963 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 1001585004964 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 1001585004965 ATP binding site [chemical binding]; other site 1001585004966 putative Mg++ binding site [ion binding]; other site 1001585004967 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 1001585004968 nucleotide binding region [chemical binding]; other site 1001585004969 ATP-binding site [chemical binding]; other site 1001585004970 TRCF domain; Region: TRCF; cl04088 1001585004971 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 1001585004972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585004973 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 1001585004974 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 1001585004975 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 1001585004976 E3 interaction surface; other site 1001585004977 lipoyl attachment site [posttranslational modification]; other site 1001585004978 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1001585004979 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 1001585004980 FMN-binding domain; Region: FMN_bind; cl01081 1001585004981 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1001585004982 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 1001585004983 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 1001585004984 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1001585004985 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 1001585004986 catalytic loop [active] 1001585004987 iron binding site [ion binding]; other site 1001585004988 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 1001585004989 FAD binding pocket [chemical binding]; other site 1001585004990 FAD binding motif [chemical binding]; other site 1001585004991 phosphate binding motif [ion binding]; other site 1001585004992 beta-alpha-beta structure motif; other site 1001585004993 NAD binding pocket [chemical binding]; other site 1001585004994 ApbE family; Region: ApbE; cl00643 1001585004995 Protein of unknown function (DUF539); Region: DUF539; cl01129 1001585004996 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 1001585004997 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585004998 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1001585004999 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1001585005000 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 1001585005001 active site 1001585005002 catalytic site [active] 1001585005003 metal binding site [ion binding]; metal-binding site 1001585005004 PilZ domain; Region: PilZ; cl01260 1001585005005 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1001585005006 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1001585005007 FtsX-like permease family; Region: FtsX; cl15850 1001585005008 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1001585005009 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 1001585005010 Walker A/P-loop; other site 1001585005011 ATP binding site [chemical binding]; other site 1001585005012 Q-loop/lid; other site 1001585005013 ABC transporter signature motif; other site 1001585005014 Walker B; other site 1001585005015 D-loop; other site 1001585005016 H-loop/switch region; other site 1001585005017 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1001585005018 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1001585005019 FtsX-like permease family; Region: FtsX; cl15850 1001585005020 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 1001585005021 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1001585005022 Competence protein; Region: Competence; cl00471 1001585005023 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1001585005024 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1001585005025 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1001585005026 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 1001585005027 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1001585005028 Trm112p-like protein; Region: Trm112p; cl01066 1001585005029 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1001585005030 Ligand binding site; other site 1001585005031 oligomer interface; other site 1001585005032 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1001585005033 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1001585005034 active site 1001585005035 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1001585005036 FAD binding domain; Region: FAD_binding_4; pfam01565 1001585005037 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1001585005038 ribonuclease E; Reviewed; Region: rne; PRK10811 1001585005039 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 1001585005040 homodimer interface [polypeptide binding]; other site 1001585005041 oligonucleotide binding site [chemical binding]; other site 1001585005042 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1001585005043 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 1001585005044 RNA binding surface [nucleotide binding]; other site 1001585005045 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1001585005046 active site 1001585005047 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1001585005048 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 1001585005049 motif II; other site 1001585005050 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1001585005051 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1001585005052 tandem repeat interface [polypeptide binding]; other site 1001585005053 oligomer interface [polypeptide binding]; other site 1001585005054 active site residues [active] 1001585005055 Maf-like protein; Region: Maf; pfam02545 1001585005056 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 1001585005057 active site 1001585005058 dimer interface [polypeptide binding]; other site 1001585005059 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1001585005060 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 1001585005061 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 1001585005062 Acyl transferase domain; Region: Acyl_transf_1; cl08282 1001585005063 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1001585005064 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1001585005065 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1001585005066 NAD(P) binding site [chemical binding]; other site 1001585005067 homotetramer interface [polypeptide binding]; other site 1001585005068 homodimer interface [polypeptide binding]; other site 1001585005069 active site 1001585005070 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1001585005071 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1001585005072 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 1001585005073 dimer interface [polypeptide binding]; other site 1001585005074 active site 1001585005075 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 1001585005076 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585005077 catalytic residue [active] 1001585005078 YceG-like family; Region: YceG; pfam02618 1001585005079 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1001585005080 dimerization interface [polypeptide binding]; other site 1001585005081 thymidylate kinase; Validated; Region: tmk; PRK00698 1001585005082 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 1001585005083 TMP-binding site; other site 1001585005084 ATP-binding site [chemical binding]; other site 1001585005085 DNA polymerase III subunit delta'; Validated; Region: PRK05707 1001585005086 PilZ domain; Region: PilZ; cl01260 1001585005087 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1001585005088 active site 1001585005089 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1001585005090 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 1001585005091 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1001585005092 catalytic residue [active] 1001585005093 Helix-turn-helix domains; Region: HTH; cl00088 1001585005094 WHG domain; Region: WHG; pfam13305 1001585005095 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1001585005096 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 1001585005097 FeS/SAM binding site; other site 1001585005098 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1001585005099 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 1001585005100 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1001585005101 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1001585005102 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1001585005103 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1001585005104 Sel1 repeat; Region: Sel1; cl02723 1001585005105 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 1001585005106 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1001585005107 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1001585005108 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 1001585005109 active site 1001585005110 catalytic residues [active] 1001585005111 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 1001585005112 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1001585005113 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 1001585005114 N-terminal plug; other site 1001585005115 ligand-binding site [chemical binding]; other site 1001585005116 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 1001585005117 PAS fold; Region: PAS_3; pfam08447 1001585005118 putative active site [active] 1001585005119 heme pocket [chemical binding]; other site 1001585005120 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 1001585005121 PAS fold; Region: PAS_3; pfam08447 1001585005122 putative active site [active] 1001585005123 heme pocket [chemical binding]; other site 1001585005124 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585005125 metal binding site [ion binding]; metal-binding site 1001585005126 active site 1001585005127 I-site; other site 1001585005128 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1001585005129 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1001585005130 proposed catalytic triad [active] 1001585005131 conserved cys residue [active] 1001585005132 Helix-turn-helix domains; Region: HTH; cl00088 1001585005133 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1001585005134 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 1001585005135 dimerization interface [polypeptide binding]; other site 1001585005136 substrate binding pocket [chemical binding]; other site 1001585005137 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 1001585005138 TPP-binding site [chemical binding]; other site 1001585005139 dimer interface [polypeptide binding]; other site 1001585005140 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1001585005141 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 1001585005142 PYR/PP interface [polypeptide binding]; other site 1001585005143 dimer interface [polypeptide binding]; other site 1001585005144 TPP binding site [chemical binding]; other site 1001585005145 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1001585005146 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1001585005147 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585005148 NAD(P) binding site [chemical binding]; other site 1001585005149 active site 1001585005150 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585005151 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585005152 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1001585005153 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 1001585005154 DctM-like transporters; Region: DctM; pfam06808 1001585005155 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1001585005156 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585005157 Membrane transport protein; Region: Mem_trans; cl09117 1001585005158 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1001585005159 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 1001585005160 dimerization interface [polypeptide binding]; other site 1001585005161 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585005162 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585005163 dimer interface [polypeptide binding]; other site 1001585005164 putative CheW interface [polypeptide binding]; other site 1001585005165 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 1001585005166 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1001585005167 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 1001585005168 DNA binding residues [nucleotide binding] 1001585005169 putative dimer interface [polypeptide binding]; other site 1001585005170 putative metal binding residues [ion binding]; other site 1001585005171 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1001585005172 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585005173 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1001585005174 active site 1001585005175 Cupin domain; Region: Cupin_2; cl09118 1001585005176 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585005177 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585005178 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585005179 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1001585005180 classical (c) SDRs; Region: SDR_c; cd05233 1001585005181 NAD(P) binding site [chemical binding]; other site 1001585005182 active site 1001585005183 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1001585005184 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 1001585005185 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 1001585005186 S-adenosylmethionine binding site [chemical binding]; other site 1001585005187 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 1001585005188 LysE type translocator; Region: LysE; cl00565 1001585005189 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1001585005190 Helix-turn-helix domains; Region: HTH; cl00088 1001585005191 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 1001585005192 dimerization interface [polypeptide binding]; other site 1001585005193 amidase; Validated; Region: PRK06565 1001585005194 Amidase; Region: Amidase; cl11426 1001585005195 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 1001585005196 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1001585005197 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1001585005198 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1001585005199 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1001585005200 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 1001585005201 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1001585005202 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 1001585005203 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 1001585005204 Walker A motif; other site 1001585005205 ATP binding site [chemical binding]; other site 1001585005206 Walker B motif; other site 1001585005207 general secretion pathway protein F; Region: GspF; TIGR02120 1001585005208 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 1001585005209 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 1001585005210 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1001585005211 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1001585005212 general secretion pathway protein J; Region: gspJ; TIGR01711 1001585005213 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1001585005214 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1001585005215 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1001585005216 GspL periplasmic domain; Region: GspL_C; cl14909 1001585005217 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 1001585005218 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1001585005219 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 1001585005220 substrate binding pocket [chemical binding]; other site 1001585005221 membrane-bound complex binding site; other site 1001585005222 hinge residues; other site 1001585005223 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1001585005224 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 1001585005225 dimer interface [polypeptide binding]; other site 1001585005226 conserved gate region; other site 1001585005227 putative PBP binding loops; other site 1001585005228 ABC-ATPase subunit interface; other site 1001585005229 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 1001585005230 dimer interface [polypeptide binding]; other site 1001585005231 conserved gate region; other site 1001585005232 putative PBP binding loops; other site 1001585005233 ABC-ATPase subunit interface; other site 1001585005234 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1001585005235 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 1001585005236 Walker A/P-loop; other site 1001585005237 ATP binding site [chemical binding]; other site 1001585005238 Q-loop/lid; other site 1001585005239 ABC transporter signature motif; other site 1001585005240 Walker B; other site 1001585005241 D-loop; other site 1001585005242 H-loop/switch region; other site 1001585005243 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1001585005244 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1001585005245 conserved cys residue [active] 1001585005246 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585005247 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585005248 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1001585005249 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 1001585005250 inhibitor-cofactor binding pocket; inhibition site 1001585005251 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585005252 catalytic residue [active] 1001585005253 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 1001585005254 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 1001585005255 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1001585005256 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 1001585005257 NAD(P) binding site [chemical binding]; other site 1001585005258 catalytic residues [active] 1001585005259 Succinylarginine dihydrolase; Region: AstB; cl01511 1001585005260 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 1001585005261 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1001585005262 putative active site [active] 1001585005263 Zn binding site [ion binding]; other site 1001585005264 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 1001585005265 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 1001585005266 tetramer interface [polypeptide binding]; other site 1001585005267 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585005268 catalytic residue [active] 1001585005269 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1001585005270 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 1001585005271 motif 1; other site 1001585005272 active site 1001585005273 motif 2; other site 1001585005274 motif 3; other site 1001585005275 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 1001585005276 DHHA1 domain; Region: DHHA1; pfam02272 1001585005277 aspartate kinase; Reviewed; Region: PRK06635 1001585005278 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 1001585005279 putative nucleotide binding site [chemical binding]; other site 1001585005280 putative catalytic residues [active] 1001585005281 putative Mg ion binding site [ion binding]; other site 1001585005282 putative aspartate binding site [chemical binding]; other site 1001585005283 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 1001585005284 putative allosteric regulatory site; other site 1001585005285 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 1001585005286 putative allosteric regulatory residue; other site 1001585005287 Global regulator protein family; Region: CsrA; cl00670 1001585005288 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1001585005289 MgtE intracellular N domain; Region: MgtE_N; cl15244 1001585005290 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 1001585005291 Divalent cation transporter; Region: MgtE; cl00786 1001585005292 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 1001585005293 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1001585005294 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585005295 NAD(P) binding site [chemical binding]; other site 1001585005296 active site 1001585005297 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1001585005298 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1001585005299 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585005300 oxaloacetate decarboxylase; Provisional; Region: PRK14040 1001585005301 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1001585005302 active site 1001585005303 catalytic residues [active] 1001585005304 metal binding site [ion binding]; metal-binding site 1001585005305 homodimer binding site [polypeptide binding]; other site 1001585005306 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 1001585005307 carboxyltransferase (CT) interaction site; other site 1001585005308 biotinylation site [posttranslational modification]; other site 1001585005309 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 1001585005310 Arc-like DNA binding domain; Region: Arc; pfam03869 1001585005311 phosphonate/organophosphate ester transporter subunit; Provisional; Region: PRK09984 1001585005312 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 1001585005313 Walker A/P-loop; other site 1001585005314 ATP binding site [chemical binding]; other site 1001585005315 Q-loop/lid; other site 1001585005316 ABC transporter signature motif; other site 1001585005317 Walker B; other site 1001585005318 D-loop; other site 1001585005319 H-loop/switch region; other site 1001585005320 NMT1-like family; Region: NMT1_2; cl15260 1001585005321 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 1001585005322 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1001585005323 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 1001585005324 dimer interface [polypeptide binding]; other site 1001585005325 conserved gate region; other site 1001585005326 ABC-ATPase subunit interface; other site 1001585005327 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1001585005328 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585005329 DNA-binding site [nucleotide binding]; DNA binding site 1001585005330 UTRA domain; Region: UTRA; cl01230 1001585005331 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 1001585005332 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 1001585005333 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 1001585005334 Phosphonate metabolism protein PhnJ; Region: PhnJ; cl01457 1001585005335 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 1001585005336 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 1001585005337 Walker A/P-loop; other site 1001585005338 ATP binding site [chemical binding]; other site 1001585005339 Q-loop/lid; other site 1001585005340 ABC transporter signature motif; other site 1001585005341 Walker B; other site 1001585005342 D-loop; other site 1001585005343 H-loop/switch region; other site 1001585005344 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1001585005345 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 1001585005346 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585005347 Walker A/P-loop; other site 1001585005348 ATP binding site [chemical binding]; other site 1001585005349 Q-loop/lid; other site 1001585005350 ABC transporter signature motif; other site 1001585005351 Walker B; other site 1001585005352 D-loop; other site 1001585005353 H-loop/switch region; other site 1001585005354 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 1001585005355 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 1001585005356 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 1001585005357 active site 1001585005358 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585005359 active site 1001585005360 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1001585005361 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 1001585005362 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1001585005363 putative substrate translocation pore; other site 1001585005364 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1001585005365 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 1001585005366 putative DNA binding site [nucleotide binding]; other site 1001585005367 putative Zn2+ binding site [ion binding]; other site 1001585005368 Helix-turn-helix domains; Region: HTH; cl00088 1001585005369 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 1001585005370 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 1001585005371 dimer interface [polypeptide binding]; other site 1001585005372 PYR/PP interface [polypeptide binding]; other site 1001585005373 TPP binding site [chemical binding]; other site 1001585005374 substrate binding site [chemical binding]; other site 1001585005375 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 1001585005376 TPP-binding site; other site 1001585005377 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 1001585005378 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1001585005379 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1001585005380 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 1001585005381 NAD binding site [chemical binding]; other site 1001585005382 Phe binding site; other site 1001585005383 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1001585005384 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1001585005385 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 1001585005386 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 1001585005387 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1001585005388 ABC-type siderophore export system, fused ATPase and permease components [Secondary metabolites biosynthesis, transport, and catabolism / Inorganic ion transport and metabolism]; Region: PvdE; COG4615 1001585005389 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 1001585005390 Walker A/P-loop; other site 1001585005391 ATP binding site [chemical binding]; other site 1001585005392 Q-loop/lid; other site 1001585005393 ABC transporter signature motif; other site 1001585005394 Walker B; other site 1001585005395 D-loop; other site 1001585005396 H-loop/switch region; other site 1001585005397 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1001585005398 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 1001585005399 N-terminal plug; other site 1001585005400 ligand-binding site [chemical binding]; other site 1001585005401 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 1001585005402 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585005403 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 1001585005404 DNA binding residues [nucleotide binding] 1001585005405 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 1001585005406 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 1001585005407 Walker A/P-loop; other site 1001585005408 ATP binding site [chemical binding]; other site 1001585005409 Q-loop/lid; other site 1001585005410 ABC transporter signature motif; other site 1001585005411 Walker B; other site 1001585005412 D-loop; other site 1001585005413 H-loop/switch region; other site 1001585005414 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 1001585005415 acyl-CoA synthetase; Validated; Region: PRK05850 1001585005416 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585005417 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1001585005418 peptide synthase; Provisional; Region: PRK12316 1001585005419 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1001585005420 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585005421 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585005422 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1001585005423 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1001585005424 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585005425 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1001585005426 peptide synthase; Provisional; Region: PRK12316 1001585005427 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1001585005428 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585005429 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1001585005430 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1001585005431 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1001585005432 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585005433 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1001585005434 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1001585005435 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585005436 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1001585005437 peptide synthase; Provisional; Region: PRK12316 1001585005438 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1001585005439 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585005440 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1001585005441 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1001585005442 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 1001585005443 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 1001585005444 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 1001585005445 inhibitor-cofactor binding pocket; inhibition site 1001585005446 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585005447 catalytic residue [active] 1001585005448 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1001585005449 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 1001585005450 N-terminal plug; other site 1001585005451 ligand-binding site [chemical binding]; other site 1001585005452 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1001585005453 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 1001585005454 ABC-ATPase subunit interface; other site 1001585005455 dimer interface [polypeptide binding]; other site 1001585005456 putative PBP binding regions; other site 1001585005457 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 1001585005458 ABC-ATPase subunit interface; other site 1001585005459 dimer interface [polypeptide binding]; other site 1001585005460 putative PBP binding regions; other site 1001585005461 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 1001585005462 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1001585005463 siderophore binding site; other site 1001585005464 MbtH-like protein; Region: MbtH; cl01279 1001585005465 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 1001585005466 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1001585005467 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 1001585005468 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 1001585005469 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1001585005470 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 1001585005471 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585005472 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1001585005473 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1001585005474 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 1001585005475 ABC-ATPase subunit interface; other site 1001585005476 dimer interface [polypeptide binding]; other site 1001585005477 putative PBP binding regions; other site 1001585005478 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 1001585005479 ABC-ATPase subunit interface; other site 1001585005480 dimer interface [polypeptide binding]; other site 1001585005481 putative PBP binding regions; other site 1001585005482 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 1001585005483 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1001585005484 siderophore binding site; other site 1001585005485 Secretin and TonB N terminus short domain; Region: STN; cl06624 1001585005486 ferrioxamine B receptor precursor protein; Provisional; Region: PRK14049 1001585005487 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 1001585005488 N-terminal plug; other site 1001585005489 ligand-binding site [chemical binding]; other site 1001585005490 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 1001585005491 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1001585005492 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585005493 Walker A/P-loop; other site 1001585005494 ATP binding site [chemical binding]; other site 1001585005495 ABC transporter signature motif; other site 1001585005496 Walker B; other site 1001585005497 D-loop; other site 1001585005498 H-loop/switch region; other site 1001585005499 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1001585005500 FecR protein; Region: FecR; pfam04773 1001585005501 RNA polymerase sigma factor; Reviewed; Region: PRK12527 1001585005502 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585005503 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 1001585005504 DNA binding residues [nucleotide binding] 1001585005505 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 1001585005506 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1001585005507 Walker A/P-loop; other site 1001585005508 ATP binding site [chemical binding]; other site 1001585005509 Q-loop/lid; other site 1001585005510 ABC transporter signature motif; other site 1001585005511 Walker B; other site 1001585005512 D-loop; other site 1001585005513 H-loop/switch region; other site 1001585005514 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1001585005515 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 1001585005516 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1001585005517 putative substrate translocation pore; other site 1001585005518 Flagellar regulator YcgR; Region: YcgR; pfam07317 1001585005519 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 1001585005520 PilZ domain; Region: PilZ; cl01260 1001585005521 FlgN protein; Region: FlgN; cl09176 1001585005522 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 1001585005523 SAF domain; Region: SAF; cl00555 1001585005524 SAF-like; Region: SAF_2; pfam13144 1001585005525 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 1001585005526 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585005527 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585005528 active site 1001585005529 phosphorylation site [posttranslational modification] 1001585005530 intermolecular recognition site; other site 1001585005531 dimerization interface [polypeptide binding]; other site 1001585005532 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1001585005533 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1001585005534 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 1001585005535 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 1001585005536 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1001585005537 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1001585005538 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 1001585005539 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1001585005540 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1001585005541 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1001585005542 FlgD Ig-like domain; Region: FlgD_ig; cl15790 1001585005543 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1001585005544 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 1001585005545 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1001585005546 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1001585005547 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1001585005548 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1001585005549 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1001585005550 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 1001585005551 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1001585005552 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 1001585005553 Flagellar L-ring protein; Region: FlgH; cl00905 1001585005554 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1001585005555 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1001585005556 Rod binding protein; Region: Rod-binding; cl01626 1001585005557 flagellar rod assembly protein/muramidase FlgJ; Region: flagell_FlgJ; TIGR02541 1001585005558 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1001585005559 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 1001585005560 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 1001585005561 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1001585005562 flagellar hook-associated protein FlgL; Provisional; Region: flgL; PRK12717 1001585005563 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1001585005564 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1001585005565 hypothetical protein; Provisional; Region: PRK05849 1001585005566 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1001585005567 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 1001585005568 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1001585005569 catalytic triad [active] 1001585005570 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 1001585005571 active site 1001585005572 metal-binding site 1001585005573 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1001585005574 active site 1001585005575 cosubstrate binding site; other site 1001585005576 substrate binding site [chemical binding]; other site 1001585005577 catalytic site [active] 1001585005578 shikimate kinase; Reviewed; Region: aroK; PRK00131 1001585005579 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 1001585005580 ligand-binding site [chemical binding]; other site 1001585005581 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 1001585005582 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 1001585005583 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 1001585005584 putative trimer interface [polypeptide binding]; other site 1001585005585 putative active site [active] 1001585005586 putative substrate binding site [chemical binding]; other site 1001585005587 putative CoA binding site [chemical binding]; other site 1001585005588 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 1001585005589 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 1001585005590 inhibitor-cofactor binding pocket; inhibition site 1001585005591 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585005592 catalytic residue [active] 1001585005593 Cupin domain; Region: Cupin_2; cl09118 1001585005594 Protein of unknown function (DUF563); Region: DUF563; cl15705 1001585005595 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 1001585005596 active site 1001585005597 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1001585005598 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 1001585005599 active site 1001585005600 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 1001585005601 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1001585005602 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 1001585005603 active site 1001585005604 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 1001585005605 flagellin B; Provisional; Region: PRK13588 1001585005606 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1001585005607 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1001585005608 FlaG protein; Region: FlaG; cl00591 1001585005609 flagellar capping protein; Reviewed; Region: fliD; PRK08032 1001585005610 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1001585005611 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1001585005612 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1001585005613 Flagellar protein FliS; Region: FliS; cl00654 1001585005614 Flagellar protein FliS; Region: FliS; cl00654 1001585005615 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1001585005616 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 1001585005617 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585005618 Walker A motif; other site 1001585005619 ATP binding site [chemical binding]; other site 1001585005620 Walker B motif; other site 1001585005621 arginine finger; other site 1001585005622 Helix-turn-helix domains; Region: HTH; cl00088 1001585005623 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585005624 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 1001585005625 dimer interface [polypeptide binding]; other site 1001585005626 phosphorylation site [posttranslational modification] 1001585005627 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585005628 ATP binding site [chemical binding]; other site 1001585005629 Mg2+ binding site [ion binding]; other site 1001585005630 G-X-G motif; other site 1001585005631 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1001585005632 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585005633 active site 1001585005634 phosphorylation site [posttranslational modification] 1001585005635 intermolecular recognition site; other site 1001585005636 dimerization interface [polypeptide binding]; other site 1001585005637 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585005638 Walker A motif; other site 1001585005639 ATP binding site [chemical binding]; other site 1001585005640 Walker B motif; other site 1001585005641 arginine finger; other site 1001585005642 Helix-turn-helix domains; Region: HTH; cl00088 1001585005643 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 1001585005644 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1001585005645 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1001585005646 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1001585005647 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1001585005648 MgtE intracellular N domain; Region: MgtE_N; cl15244 1001585005649 FliG C-terminal domain; Region: FliG_C; pfam01706 1001585005650 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1001585005651 Flagellar assembly protein FliH; Region: FliH; pfam02108 1001585005652 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 1001585005653 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 1001585005654 Walker A motif/ATP binding site; other site 1001585005655 Walker B motif; other site 1001585005656 flagellar biosynthesis chaperone; Validated; Region: fliJ; cl09161 1001585005657 Flagellar FliJ protein; Region: FliJ; pfam02050 1001585005658 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 1001585005659 anti sigma factor interaction site; other site 1001585005660 regulatory phosphorylation site [posttranslational modification]; other site 1001585005661 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585005662 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585005663 active site 1001585005664 phosphorylation site [posttranslational modification] 1001585005665 intermolecular recognition site; other site 1001585005666 dimerization interface [polypeptide binding]; other site 1001585005667 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1001585005668 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 1001585005669 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1001585005670 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 1001585005671 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 1001585005672 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 1001585005673 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1001585005674 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1001585005675 flagellar motor switch protein; Validated; Region: fliN; PRK05698 1001585005676 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1001585005677 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 1001585005678 FliP family; Region: FliP; cl00593 1001585005679 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 1001585005680 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 1001585005681 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1001585005682 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1001585005683 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 1001585005684 FHIPEP family; Region: FHIPEP; pfam00771 1001585005685 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1001585005686 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585005687 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1001585005688 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585005689 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 1001585005690 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1001585005691 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585005692 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1001585005693 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 1001585005694 DNA binding residues [nucleotide binding] 1001585005695 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1001585005696 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585005697 active site 1001585005698 phosphorylation site [posttranslational modification] 1001585005699 intermolecular recognition site; other site 1001585005700 dimerization interface [polypeptide binding]; other site 1001585005701 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 1001585005702 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 1001585005703 putative binding surface; other site 1001585005704 active site 1001585005705 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1001585005706 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585005707 ATP binding site [chemical binding]; other site 1001585005708 Mg2+ binding site [ion binding]; other site 1001585005709 G-X-G motif; other site 1001585005710 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 1001585005711 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1001585005712 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585005713 active site 1001585005714 phosphorylation site [posttranslational modification] 1001585005715 intermolecular recognition site; other site 1001585005716 dimerization interface [polypeptide binding]; other site 1001585005717 CheB methylesterase; Region: CheB_methylest; pfam01339 1001585005718 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1001585005719 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1001585005720 flagellar motor protein MotD; Reviewed; Region: PRK09038 1001585005721 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1001585005722 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585005723 ligand binding site [chemical binding]; other site 1001585005724 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1001585005725 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 1001585005726 P-loop; other site 1001585005727 Magnesium ion binding site [ion binding]; other site 1001585005728 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 1001585005729 Magnesium ion binding site [ion binding]; other site 1001585005730 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 1001585005731 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 1001585005732 putative CheA interaction surface; other site 1001585005733 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 1001585005734 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1001585005735 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 1001585005736 CcmA, the ATP-binding component of the bacterial CcmAB transporter. The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE...; Region: ABC_CcmA_heme_exporter; cd03231 1001585005737 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1001585005738 Walker A/P-loop; other site 1001585005739 ATP binding site [chemical binding]; other site 1001585005740 Q-loop/lid; other site 1001585005741 ABC transporter signature motif; other site 1001585005742 Walker B; other site 1001585005743 D-loop; other site 1001585005744 H-loop/switch region; other site 1001585005745 CcmB protein; Region: CcmB; cl01016 1001585005746 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1001585005747 Heme exporter protein D (CcmD); Region: CcmD; cl11475 1001585005748 CcmE; Region: CcmE; cl00994 1001585005749 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1001585005750 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 1001585005751 catalytic residues [active] 1001585005752 central insert; other site 1001585005753 Cytochrome C biogenesis protein; Region: CcmH; cl01179 1001585005754 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1001585005755 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1001585005756 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 1001585005757 binding surface 1001585005758 TPR motif; other site 1001585005759 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; cl15357 1001585005760 transmembrane helices; other site 1001585005761 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; cl15357 1001585005762 Ion transport protein; Region: Ion_trans; pfam00520 1001585005763 Ion channel; Region: Ion_trans_2; cl11596 1001585005764 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 1001585005765 Cupin domain; Region: Cupin_2; cl09118 1001585005766 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 1001585005767 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585005768 Cupin domain; Region: Cupin_2; cl09118 1001585005769 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 1001585005770 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 1001585005771 active site 1001585005772 DNA binding site [nucleotide binding] 1001585005773 Int/Topo IB signature motif; other site 1001585005774 catalytic residues [active] 1001585005775 Urea transporter; Region: UT; cl01829 1001585005776 pyruvate kinase; Provisional; Region: PRK06247 1001585005777 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; cl09155 1001585005778 domain interfaces; other site 1001585005779 active site 1001585005780 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1001585005781 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1001585005782 MOFRL family; Region: MOFRL; pfam05161 1001585005783 tartronate semialdehyde reductase; Provisional; Region: PRK15059 1001585005784 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585005785 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1001585005786 glyoxylate carboligase; Provisional; Region: PRK11269 1001585005787 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1001585005788 PYR/PP interface [polypeptide binding]; other site 1001585005789 dimer interface [polypeptide binding]; other site 1001585005790 TPP binding site [chemical binding]; other site 1001585005791 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 1001585005792 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 1001585005793 TPP-binding site [chemical binding]; other site 1001585005794 Helix-turn-helix domains; Region: HTH; cl00088 1001585005795 transcriptional activator TtdR; Provisional; Region: PRK09801 1001585005796 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 1001585005797 putative effector binding pocket; other site 1001585005798 dimerization interface [polypeptide binding]; other site 1001585005799 Domain of unknown function (DUF336); Region: DUF336; cl01249 1001585005800 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1001585005801 Helix-turn-helix domains; Region: HTH; cl00088 1001585005802 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1001585005803 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 1001585005804 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 1001585005805 FeS/SAM binding site; other site 1001585005806 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1001585005807 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585005808 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; cl15306 1001585005809 Sodium:solute symporter family; Region: SSF; cl00456 1001585005810 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 1001585005811 xanthine permease; Region: pbuX; TIGR03173 1001585005812 Predicted membrane protein [Function unknown]; Region: COG3748 1001585005813 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1001585005814 Cytochrome c; Region: Cytochrom_C; cl11414 1001585005815 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1001585005816 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 1001585005817 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 1001585005818 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1001585005819 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1001585005820 active site 1001585005821 catalytic site [active] 1001585005822 tetramer interface [polypeptide binding]; other site 1001585005823 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 1001585005824 active site 1001585005825 homotetramer interface [polypeptide binding]; other site 1001585005826 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1001585005827 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1001585005828 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585005829 DNA-binding site [nucleotide binding]; DNA binding site 1001585005830 FCD domain; Region: FCD; cl11656 1001585005831 guanine deaminase; Provisional; Region: PRK09228 1001585005832 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 1001585005833 active site 1001585005834 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1001585005835 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1001585005836 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1001585005837 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 1001585005838 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 1001585005839 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1001585005840 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 1001585005841 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1001585005842 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 1001585005843 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 1001585005844 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1001585005845 Di-iron ligands [ion binding]; other site 1001585005846 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1001585005847 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585005848 DNA-binding site [nucleotide binding]; DNA binding site 1001585005849 FCD domain; Region: FCD; cl11656 1001585005850 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1001585005851 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 1001585005852 Walker A/P-loop; other site 1001585005853 ATP binding site [chemical binding]; other site 1001585005854 Q-loop/lid; other site 1001585005855 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 1001585005856 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1001585005857 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 1001585005858 ABC transporter signature motif; other site 1001585005859 Walker B; other site 1001585005860 D-loop; other site 1001585005861 H-loop/switch region; other site 1001585005862 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 1001585005863 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 1001585005864 FtsZ protein binding site [polypeptide binding]; other site 1001585005865 Ligase N family; Region: LIGANc; smart00532 1001585005866 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 1001585005867 nucleotide binding pocket [chemical binding]; other site 1001585005868 K-X-D-G motif; other site 1001585005869 catalytic site [active] 1001585005870 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1001585005871 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 1001585005872 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1001585005873 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 1001585005874 Dimer interface [polypeptide binding]; other site 1001585005875 BRCT sequence motif; other site 1001585005876 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1001585005877 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 1001585005878 homodecamer interface [polypeptide binding]; other site 1001585005879 GTP cyclohydrolase I; Provisional; Region: PLN03044 1001585005880 active site 1001585005881 putative catalytic site residues [active] 1001585005882 zinc binding site [ion binding]; other site 1001585005883 GTP-CH-I/GFRP interaction surface; other site 1001585005884 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1001585005885 Smr domain; Region: Smr; cl02619 1001585005886 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 1001585005887 catalytic triad [active] 1001585005888 conserved cis-peptide bond; other site 1001585005889 HemK family putative methylases; Region: hemK_fam; TIGR00536 1001585005890 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 1001585005891 S-adenosylmethionine binding site [chemical binding]; other site 1001585005892 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585005893 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1001585005894 Tetramer interface [polypeptide binding]; other site 1001585005895 active site 1001585005896 FMN-binding site [chemical binding]; other site 1001585005897 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 1001585005898 putative substrate translocation pore; other site 1001585005899 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1001585005900 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 1001585005901 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1001585005902 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1001585005903 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 1001585005904 DNA binding site [nucleotide binding] 1001585005905 active site 1001585005906 AlkA N-terminal domain; Region: AlkA_N; cl05528 1001585005907 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 1001585005908 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1001585005909 minor groove reading motif; other site 1001585005910 helix-hairpin-helix signature motif; other site 1001585005911 substrate binding pocket [chemical binding]; other site 1001585005912 active site 1001585005913 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1001585005914 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 1001585005915 RNA binding surface [nucleotide binding]; other site 1001585005916 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1001585005917 probable active site [active] 1001585005918 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585005919 metal binding site [ion binding]; metal-binding site 1001585005920 active site 1001585005921 I-site; other site 1001585005922 short chain dehydrogenase; Provisional; Region: PRK08703 1001585005923 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585005924 NAD(P) binding site [chemical binding]; other site 1001585005925 active site 1001585005926 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1001585005927 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 1001585005928 active site 1001585005929 motif I; other site 1001585005930 motif II; other site 1001585005931 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1001585005932 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 1001585005933 S-adenosylmethionine binding site [chemical binding]; other site 1001585005934 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 1001585005935 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 1001585005936 active site 1001585005937 putative substrate binding pocket [chemical binding]; other site 1001585005938 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1001585005939 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 1001585005940 DNA gyrase subunit A; Validated; Region: PRK05560 1001585005941 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 1001585005942 CAP-like domain; other site 1001585005943 active site 1001585005944 primary dimer interface [polypeptide binding]; other site 1001585005945 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1001585005946 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1001585005947 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1001585005948 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1001585005949 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1001585005950 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1001585005951 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 1001585005952 homodimer interface [polypeptide binding]; other site 1001585005953 substrate-cofactor binding pocket; other site 1001585005954 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585005955 catalytic residue [active] 1001585005956 Chorismate mutase type II; Region: CM_2; cl00693 1001585005957 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1001585005958 Prephenate dehydratase; Region: PDT; pfam00800 1001585005959 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 1001585005960 putative L-Phe binding site [chemical binding]; other site 1001585005961 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1001585005962 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 1001585005963 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585005964 homodimer interface [polypeptide binding]; other site 1001585005965 catalytic residue [active] 1001585005966 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 1001585005967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585005968 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 1001585005969 hinge; other site 1001585005970 active site 1001585005971 cytidylate kinase; Provisional; Region: cmk; PRK00023 1001585005972 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 1001585005973 CMP-binding site; other site 1001585005974 The sites determining sugar specificity; other site 1001585005975 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1001585005976 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 1001585005977 RNA binding site [nucleotide binding]; other site 1001585005978 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 1001585005979 RNA binding site [nucleotide binding]; other site 1001585005980 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 1001585005981 RNA binding site [nucleotide binding]; other site 1001585005982 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 1001585005983 RNA binding site [nucleotide binding]; other site 1001585005984 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 1001585005985 RNA binding site [nucleotide binding]; other site 1001585005986 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 1001585005987 RNA binding site [nucleotide binding]; other site 1001585005988 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 1001585005989 IHF dimer interface [polypeptide binding]; other site 1001585005990 IHF - DNA interface [nucleotide binding]; other site 1001585005991 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1001585005992 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1001585005993 Beta-Casp domain; Region: Beta-Casp; cl12567 1001585005994 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1001585005995 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 1001585005996 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 1001585005997 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1001585005998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585005999 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 1001585006000 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1001585006001 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585006002 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 1001585006003 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1001585006004 NAD(P) binding site [chemical binding]; other site 1001585006005 homodimer interface [polypeptide binding]; other site 1001585006006 substrate binding site [chemical binding]; other site 1001585006007 active site 1001585006008 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1001585006009 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 1001585006010 inhibitor-cofactor binding pocket; inhibition site 1001585006011 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585006012 catalytic residue [active] 1001585006013 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 1001585006014 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 1001585006015 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 1001585006016 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 1001585006017 pseudaminic acid synthase; Region: PseI; TIGR03586 1001585006018 NeuB family; Region: NeuB; cl00496 1001585006019 SAF domain; Region: SAF; cl00555 1001585006020 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 1001585006021 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 1001585006022 putative glycosyl transferase; Provisional; Region: PRK10307 1001585006023 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 1001585006024 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1001585006025 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1001585006026 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 1001585006027 NAD(P) binding site [chemical binding]; other site 1001585006028 homodimer interface [polypeptide binding]; other site 1001585006029 substrate binding site [chemical binding]; other site 1001585006030 active site 1001585006031 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1001585006032 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 1001585006033 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585006034 homodimer interface [polypeptide binding]; other site 1001585006035 catalytic residue [active] 1001585006036 excinuclease ABC subunit B; Provisional; Region: PRK05298 1001585006037 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 1001585006038 ATP binding site [chemical binding]; other site 1001585006039 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 1001585006040 nucleotide binding region [chemical binding]; other site 1001585006041 ATP-binding site [chemical binding]; other site 1001585006042 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1001585006043 UvrB/uvrC motif; Region: UVR; pfam02151 1001585006044 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1001585006045 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 1001585006046 putative substrate translocation pore; other site 1001585006047 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1001585006048 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 1001585006049 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 1001585006050 LysR family transcriptional regulator; Provisional; Region: PRK14997 1001585006051 Helix-turn-helix domains; Region: HTH; cl00088 1001585006052 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 1001585006053 putative effector binding pocket; other site 1001585006054 dimerization interface [polypeptide binding]; other site 1001585006055 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1001585006056 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1001585006057 HIGH motif; other site 1001585006058 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1001585006059 active site 1001585006060 KMSKS motif; other site 1001585006061 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585006062 Helix-turn-helix domains; Region: HTH; cl00088 1001585006063 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1001585006064 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585006065 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1001585006066 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1001585006067 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585006068 metal binding site [ion binding]; metal-binding site 1001585006069 active site 1001585006070 I-site; other site 1001585006071 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 1001585006072 active site 1001585006073 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1001585006074 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 1001585006075 FMN binding site [chemical binding]; other site 1001585006076 active site 1001585006077 catalytic residues [active] 1001585006078 substrate binding site [chemical binding]; other site 1001585006079 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1001585006080 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 1001585006081 putative dimer interface [polypeptide binding]; other site 1001585006082 PAS fold; Region: PAS; pfam00989 1001585006083 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 1001585006084 putative active site [active] 1001585006085 heme pocket [chemical binding]; other site 1001585006086 PAS domain S-box; Region: sensory_box; TIGR00229 1001585006087 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 1001585006088 putative active site [active] 1001585006089 heme pocket [chemical binding]; other site 1001585006090 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1001585006091 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 1001585006092 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1001585006093 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 1001585006094 putative active site [active] 1001585006095 heme pocket [chemical binding]; other site 1001585006096 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585006097 metal binding site [ion binding]; metal-binding site 1001585006098 active site 1001585006099 I-site; other site 1001585006100 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 1001585006101 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585006102 Helix-turn-helix domains; Region: HTH; cl00088 1001585006103 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 1001585006104 dimerization interface [polypeptide binding]; other site 1001585006105 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1001585006106 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1001585006107 substrate binding site [chemical binding]; other site 1001585006108 ligand binding site [chemical binding]; other site 1001585006109 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 1001585006110 substrate binding site [chemical binding]; other site 1001585006111 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1001585006112 tartrate dehydrogenase; Provisional; Region: PRK08194 1001585006113 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1001585006114 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585006115 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 1001585006116 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK05671 1001585006117 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585006118 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 1001585006119 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 1001585006120 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 1001585006121 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 1001585006122 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 1001585006123 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1001585006124 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1001585006125 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1001585006126 dimerization interface 3.5A [polypeptide binding]; other site 1001585006127 active site 1001585006128 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 1001585006129 active site 1001585006130 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1001585006131 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 1001585006132 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 1001585006133 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1001585006134 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1001585006135 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 1001585006136 Sporulation related domain; Region: SPOR; cl10051 1001585006137 Colicin V production protein; Region: Colicin_V; cl00567 1001585006138 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1001585006139 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 1001585006140 active site 1001585006141 tetramer interface [polypeptide binding]; other site 1001585006142 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1001585006143 active site 1001585006144 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 1001585006145 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 1001585006146 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 1001585006147 homodimer interface [polypeptide binding]; other site 1001585006148 substrate-cofactor binding pocket; other site 1001585006149 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585006150 catalytic residue [active] 1001585006151 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585006152 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1001585006153 NAD(P) binding site [chemical binding]; other site 1001585006154 active site 1001585006155 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585006156 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1001585006157 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1001585006158 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 1001585006159 Ligand binding site [chemical binding]; other site 1001585006160 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1001585006161 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 1001585006162 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1001585006163 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585006164 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585006165 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 1001585006166 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585006167 substrate binding pocket [chemical binding]; other site 1001585006168 membrane-bound complex binding site; other site 1001585006169 hinge residues; other site 1001585006170 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 1001585006171 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 1001585006172 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585006173 ligand binding site [chemical binding]; other site 1001585006174 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 1001585006175 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585006176 DNA-binding site [nucleotide binding]; DNA binding site 1001585006177 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 1001585006178 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585006179 homodimer interface [polypeptide binding]; other site 1001585006180 catalytic residue [active] 1001585006181 von Willebrand factor; Region: vWF_A; pfam12450 1001585006182 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 1001585006183 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 1001585006184 metal ion-dependent adhesion site (MIDAS); other site 1001585006185 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 1001585006186 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1001585006187 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585006188 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 1001585006189 DNA binding residues [nucleotide binding] 1001585006190 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 1001585006191 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585006192 short chain dehydrogenase; Provisional; Region: PRK08278 1001585006193 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585006194 NAD(P) binding site [chemical binding]; other site 1001585006195 active site 1001585006196 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1001585006197 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1001585006198 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1001585006199 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 1001585006200 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 1001585006201 carboxyltransferase (CT) interaction site; other site 1001585006202 biotinylation site [posttranslational modification]; other site 1001585006203 enoyl-CoA hydratase; Provisional; Region: PRK05995 1001585006204 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 1001585006205 substrate binding site [chemical binding]; other site 1001585006206 oxyanion hole (OAH) forming residues; other site 1001585006207 trimer interface [polypeptide binding]; other site 1001585006208 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585006209 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585006210 active site 1001585006211 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1001585006212 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 1001585006213 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 1001585006214 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1001585006215 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 1001585006216 NAD(P) binding site [chemical binding]; other site 1001585006217 substrate binding site [chemical binding]; other site 1001585006218 homotetramer interface [polypeptide binding]; other site 1001585006219 active site 1001585006220 homodimer interface [polypeptide binding]; other site 1001585006221 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1001585006222 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585006223 Helix-turn-helix domains; Region: HTH; cl00088 1001585006224 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1001585006225 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 1001585006226 substrate binding pocket [chemical binding]; other site 1001585006227 membrane-bound complex binding site; other site 1001585006228 hinge residues; other site 1001585006229 CAAX protease self-immunity; Region: Abi; cl00558 1001585006230 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 1001585006231 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 1001585006232 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1001585006233 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1001585006234 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 1001585006235 FOG: CBS domain [General function prediction only]; Region: COG0517 1001585006236 sensory histidine kinase AtoS; Provisional; Region: PRK11360 1001585006237 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 1001585006238 dimer interface [polypeptide binding]; other site 1001585006239 phosphorylation site [posttranslational modification] 1001585006240 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585006241 ATP binding site [chemical binding]; other site 1001585006242 Mg2+ binding site [ion binding]; other site 1001585006243 G-X-G motif; other site 1001585006244 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585006245 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585006246 active site 1001585006247 phosphorylation site [posttranslational modification] 1001585006248 intermolecular recognition site; other site 1001585006249 dimerization interface [polypeptide binding]; other site 1001585006250 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 1001585006251 active site 1001585006252 phosphorylation site [posttranslational modification] 1001585006253 intermolecular recognition site; other site 1001585006254 dimerization interface [polypeptide binding]; other site 1001585006255 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 1001585006256 active site 1001585006257 dimer interface [polypeptide binding]; other site 1001585006258 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1001585006259 classical (c) SDRs; Region: SDR_c; cd05233 1001585006260 NAD(P) binding site [chemical binding]; other site 1001585006261 active site 1001585006262 Membrane transport protein; Region: Mem_trans; cl09117 1001585006263 benzoate transporter; Region: benE; TIGR00843 1001585006264 Benzoate membrane transport protein; Region: BenE; pfam03594 1001585006265 LysE type translocator; Region: LysE; cl00565 1001585006266 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1001585006267 Helix-turn-helix domains; Region: HTH; cl00088 1001585006268 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1001585006269 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 1001585006270 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585006271 homodimer interface [polypeptide binding]; other site 1001585006272 catalytic residue [active] 1001585006273 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1001585006274 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 1001585006275 putative C-terminal domain interface [polypeptide binding]; other site 1001585006276 putative GSH binding site (G-site) [chemical binding]; other site 1001585006277 putative dimer interface [polypeptide binding]; other site 1001585006278 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1001585006279 N-terminal domain interface [polypeptide binding]; other site 1001585006280 dimer interface [polypeptide binding]; other site 1001585006281 substrate binding pocket (H-site) [chemical binding]; other site 1001585006282 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1001585006283 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1001585006284 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 1001585006285 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 1001585006286 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 1001585006287 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 1001585006288 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 1001585006289 IHF - DNA interface [nucleotide binding]; other site 1001585006290 IHF dimer interface [polypeptide binding]; other site 1001585006291 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1001585006292 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 1001585006293 dimerization interface [polypeptide binding]; other site 1001585006294 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585006295 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585006296 dimer interface [polypeptide binding]; other site 1001585006297 putative CheW interface [polypeptide binding]; other site 1001585006298 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 1001585006299 putative active site [active] 1001585006300 putative NTP binding site [chemical binding]; other site 1001585006301 putative nucleic acid binding site [nucleotide binding]; other site 1001585006302 Superfamily II helicase [General function prediction only]; Region: COG1204 1001585006303 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585006304 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585006305 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 1001585006306 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1001585006307 catalytic residues [active] 1001585006308 catalytic nucleophile [active] 1001585006309 Presynaptic Site I dimer interface [polypeptide binding]; other site 1001585006310 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1001585006311 Synaptic Flat tetramer interface [polypeptide binding]; other site 1001585006312 Synaptic Site I dimer interface [polypeptide binding]; other site 1001585006313 DNA binding site [nucleotide binding] 1001585006314 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 1001585006315 DNA-binding interface [nucleotide binding]; DNA binding site 1001585006316 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585006317 Helix-turn-helix domains; Region: HTH; cl00088 1001585006318 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 1001585006319 Int/Topo IB signature motif; other site 1001585006320 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1001585006321 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1001585006322 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585006323 Walker A motif; other site 1001585006324 ATP binding site [chemical binding]; other site 1001585006325 Walker B motif; other site 1001585006326 arginine finger; other site 1001585006327 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1001585006328 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 1001585006329 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 1001585006330 recombination protein RecR; Reviewed; Region: recR; PRK00076 1001585006331 RecR protein; Region: RecR; pfam02132 1001585006332 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 1001585006333 putative active site [active] 1001585006334 putative metal-binding site [ion binding]; other site 1001585006335 tetramer interface [polypeptide binding]; other site 1001585006336 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 1001585006337 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585006338 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585006339 active site 1001585006340 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1001585006341 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1001585006342 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585006343 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1001585006344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585006345 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1001585006346 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 1001585006347 non-specific DNA binding site [nucleotide binding]; other site 1001585006348 salt bridge; other site 1001585006349 sequence-specific DNA binding site [nucleotide binding]; other site 1001585006350 Cupin domain; Region: Cupin_2; cl09118 1001585006351 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1001585006352 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1001585006353 putative aminotransferase; Validated; Region: PRK07480 1001585006354 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 1001585006355 inhibitor-cofactor binding pocket; inhibition site 1001585006356 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585006357 catalytic residue [active] 1001585006358 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1001585006359 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585006360 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1001585006361 OsmC-like protein; Region: OsmC; cl00767 1001585006362 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1001585006363 Helix-turn-helix domains; Region: HTH; cl00088 1001585006364 Potato inhibitor I family; Region: potato_inhibit; cl15459 1001585006365 Protein of unknown function, DUF480; Region: DUF480; cl01209 1001585006366 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585006367 Helix-turn-helix domains; Region: HTH; cl00088 1001585006368 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1001585006369 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 1001585006370 putative NAD(P) binding site [chemical binding]; other site 1001585006371 active site 1001585006372 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1001585006373 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 1001585006374 putative catalytic residue [active] 1001585006375 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 1001585006376 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585006377 short chain dehydrogenase; Provisional; Region: PRK05650 1001585006378 NAD(P) binding site [chemical binding]; other site 1001585006379 active site 1001585006380 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1001585006381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585006382 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1001585006383 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1001585006384 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1001585006385 Ion transport protein; Region: Ion_trans; pfam00520 1001585006386 Polycystin cation channel; Region: PKD_channel; pfam08016 1001585006387 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 1001585006388 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1001585006389 active site 1001585006390 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1001585006391 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 1001585006392 ligand binding site [chemical binding]; other site 1001585006393 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 1001585006394 putative switch regulator; other site 1001585006395 non-specific DNA interactions [nucleotide binding]; other site 1001585006396 DNA binding site [nucleotide binding] 1001585006397 sequence specific DNA binding site [nucleotide binding]; other site 1001585006398 putative cAMP binding site [chemical binding]; other site 1001585006399 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1001585006400 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 1001585006401 FeS/SAM binding site; other site 1001585006402 HemN C-terminal domain; Region: HemN_C; pfam06969 1001585006403 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1001585006404 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 1001585006405 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 1001585006406 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1001585006407 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 1001585006408 metal-binding site [ion binding] 1001585006409 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1001585006410 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 1001585006411 motif II; other site 1001585006412 FixH; Region: FixH; cl01254 1001585006413 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1001585006414 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1001585006415 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1001585006416 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1001585006417 Cytochrome c; Region: Cytochrom_C; cl11414 1001585006418 Cytochrome c; Region: Cytochrom_C; cl11414 1001585006419 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 1001585006420 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1001585006421 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 1001585006422 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 1001585006423 Low-spin heme binding site [chemical binding]; other site 1001585006424 Putative water exit pathway; other site 1001585006425 Binuclear center (active site) [active] 1001585006426 Putative proton exit pathway; other site 1001585006427 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1001585006428 Cytochrome c; Region: Cytochrom_C; cl11414 1001585006429 Cytochrome c; Region: Cytochrom_C; cl11414 1001585006430 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 1001585006431 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1001585006432 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 1001585006433 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 1001585006434 Low-spin heme binding site [chemical binding]; other site 1001585006435 Putative water exit pathway; other site 1001585006436 Binuclear center (active site) [active] 1001585006437 Putative proton exit pathway; other site 1001585006438 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 1001585006439 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1001585006440 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 1001585006441 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 1001585006442 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1001585006443 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 1001585006444 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 1001585006445 active site 1001585006446 metal binding site [ion binding]; metal-binding site 1001585006447 Cytochrome c; Region: Cytochrom_C; cl11414 1001585006448 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 1001585006449 active site residue [active] 1001585006450 Membrane transport protein; Region: Mem_trans; cl09117 1001585006451 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 1001585006452 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 1001585006453 dimer interface [polypeptide binding]; other site 1001585006454 active site 1001585006455 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1001585006456 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 1001585006457 substrate binding site [chemical binding]; other site 1001585006458 oxyanion hole (OAH) forming residues; other site 1001585006459 trimer interface [polypeptide binding]; other site 1001585006460 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585006461 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1001585006462 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 1001585006463 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1001585006464 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1001585006465 catalytic triad [active] 1001585006466 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 1001585006467 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1001585006468 putative acyl-acceptor binding pocket; other site 1001585006469 aminotransferase; Validated; Region: PRK08175 1001585006470 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 1001585006471 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585006472 homodimer interface [polypeptide binding]; other site 1001585006473 catalytic residue [active] 1001585006474 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 1001585006475 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1001585006476 catalytic residue [active] 1001585006477 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1001585006478 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585006479 active site 1001585006480 phosphorylation site [posttranslational modification] 1001585006481 intermolecular recognition site; other site 1001585006482 dimerization interface [polypeptide binding]; other site 1001585006483 ANTAR domain; Region: ANTAR; cl04297 1001585006484 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1001585006485 NMT1-like family; Region: NMT1_2; cl15260 1001585006486 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1001585006487 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 1001585006488 substrate binding site [chemical binding]; other site 1001585006489 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1001585006490 substrate binding site [chemical binding]; other site 1001585006491 ligand binding site [chemical binding]; other site 1001585006492 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 1001585006493 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 1001585006494 universal stress protein UspE; Provisional; Region: PRK11175 1001585006495 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 1001585006496 Ligand Binding Site [chemical binding]; other site 1001585006497 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 1001585006498 active site 1001585006499 dinuclear metal binding site [ion binding]; other site 1001585006500 dimerization interface [polypeptide binding]; other site 1001585006501 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1001585006502 putative active site [active] 1001585006503 putative metal binding site [ion binding]; other site 1001585006504 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 1001585006505 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 1001585006506 substrate binding site [chemical binding]; other site 1001585006507 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1001585006508 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1001585006509 active site 1001585006510 HIGH motif; other site 1001585006511 nucleotide binding site [chemical binding]; other site 1001585006512 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1001585006513 KMSKS motif; other site 1001585006514 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1001585006515 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1001585006516 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1001585006517 active site 1001585006518 HIGH motif; other site 1001585006519 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1001585006520 KMSKS motif; other site 1001585006521 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1001585006522 tRNA binding surface [nucleotide binding]; other site 1001585006523 anticodon binding site; other site 1001585006524 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585006525 Helix-turn-helix domains; Region: HTH; cl00088 1001585006526 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 1001585006527 putative effector binding pocket; other site 1001585006528 dimerization interface [polypeptide binding]; other site 1001585006529 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1001585006530 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585006531 NAD(P) binding site [chemical binding]; other site 1001585006532 active site 1001585006533 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1001585006534 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1001585006535 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 1001585006536 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1001585006537 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585006538 Walker A motif; other site 1001585006539 ATP binding site [chemical binding]; other site 1001585006540 Walker B motif; other site 1001585006541 arginine finger; other site 1001585006542 Helix-turn-helix domains; Region: HTH; cl00088 1001585006543 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1001585006544 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 1001585006545 Walker A/P-loop; other site 1001585006546 ATP binding site [chemical binding]; other site 1001585006547 Q-loop/lid; other site 1001585006548 ABC transporter signature motif; other site 1001585006549 Walker B; other site 1001585006550 D-loop; other site 1001585006551 H-loop/switch region; other site 1001585006552 TOBE domain; Region: TOBE_2; cl01440 1001585006553 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1001585006554 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 1001585006555 Walker A/P-loop; other site 1001585006556 ATP binding site [chemical binding]; other site 1001585006557 Q-loop/lid; other site 1001585006558 ABC transporter signature motif; other site 1001585006559 Walker B; other site 1001585006560 D-loop; other site 1001585006561 H-loop/switch region; other site 1001585006562 TOBE domain; Region: TOBE_2; cl01440 1001585006563 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1001585006564 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 1001585006565 dimer interface [polypeptide binding]; other site 1001585006566 conserved gate region; other site 1001585006567 putative PBP binding loops; other site 1001585006568 ABC-ATPase subunit interface; other site 1001585006569 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 1001585006570 dimer interface [polypeptide binding]; other site 1001585006571 conserved gate region; other site 1001585006572 putative PBP binding loops; other site 1001585006573 ABC-ATPase subunit interface; other site 1001585006574 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 1001585006575 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1001585006576 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1001585006577 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1001585006578 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1001585006579 homodimer interface [polypeptide binding]; other site 1001585006580 NADP binding site [chemical binding]; other site 1001585006581 substrate binding site [chemical binding]; other site 1001585006582 OpgC protein; Region: OpgC_C; cl00792 1001585006583 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1001585006584 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 1001585006585 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1001585006586 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 1001585006587 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 1001585006588 Int/Topo IB signature motif; other site 1001585006589 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 1001585006590 Active Sites [active] 1001585006591 Phage associated DNA primase [General function prediction only]; Region: COG3378 1001585006592 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 1001585006593 active site 1001585006594 metal binding site [ion binding]; metal-binding site 1001585006595 interdomain interaction site; other site 1001585006596 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 1001585006597 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1001585006598 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 1001585006599 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 1001585006600 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 1001585006601 Catalytic site [active] 1001585006602 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 1001585006603 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1001585006604 active site 1001585006605 DNA binding site [nucleotide binding] 1001585006606 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1001585006607 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1001585006608 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1001585006609 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 1001585006610 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 1001585006611 linker region; other site 1001585006612 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1001585006613 Phage-related protein [Function unknown]; Region: COG5412 1001585006614 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1001585006615 Phage tail tube protein FII; Region: Phage_tube; cl01390 1001585006616 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1001585006617 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 1001585006618 long tail fiber, proximal subunit; Provisional; Region: 34; PHA02584 1001585006619 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 1001585006620 Baseplate J-like protein; Region: Baseplate_J; cl01294 1001585006621 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1001585006622 PAAR motif; Region: PAAR_motif; cl15808 1001585006623 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1001585006624 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 1001585006625 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 1001585006626 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 1001585006627 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 1001585006628 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 1001585006629 Phage holin family (Lysis protein S); Region: Phage_holin_3; cl04938 1001585006630 Phage Tail Protein X; Region: Phage_tail_X; cl02088 1001585006631 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 1001585006632 terminase endonuclease subunit; Provisional; Region: M; PHA02537 1001585006633 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 1001585006634 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 1001585006635 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 1001585006636 terminase ATPase subunit; Provisional; Region: P; PHA02535 1001585006637 Helix-turn-helix domains; Region: HTH; cl00088 1001585006638 Phage-related protein [Function unknown]; Region: COG4695; cl01923 1001585006639 phage portal protein, PBSX family; Region: portal_PBSX; TIGR01540 1001585006640 trigger factor; Provisional; Region: tig; PRK01490 1001585006641 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 1001585006642 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1001585006643 Clp protease; Region: CLP_protease; pfam00574 1001585006644 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1001585006645 oligomer interface [polypeptide binding]; other site 1001585006646 active site residues [active] 1001585006647 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1001585006648 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 1001585006649 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585006650 Walker A motif; other site 1001585006651 ATP binding site [chemical binding]; other site 1001585006652 Walker B motif; other site 1001585006653 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1001585006654 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1001585006655 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1001585006656 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585006657 Walker A motif; other site 1001585006658 ATP binding site [chemical binding]; other site 1001585006659 Walker B motif; other site 1001585006660 arginine finger; other site 1001585006661 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 1001585006662 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 1001585006663 IHF dimer interface [polypeptide binding]; other site 1001585006664 IHF - DNA interface [nucleotide binding]; other site 1001585006665 periplasmic folding chaperone; Provisional; Region: PRK10788 1001585006666 SurA N-terminal domain; Region: SurA_N_3; cl07813 1001585006667 PPIC-type PPIASE domain; Region: Rotamase; cl08278 1001585006668 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1001585006669 PLD-like domain; Region: PLDc_2; pfam13091 1001585006670 putative active site [active] 1001585006671 catalytic site [active] 1001585006672 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1001585006673 PLD-like domain; Region: PLDc_2; pfam13091 1001585006674 putative active site [active] 1001585006675 catalytic site [active] 1001585006676 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 1001585006677 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1001585006678 NAD binding site [chemical binding]; other site 1001585006679 homotetramer interface [polypeptide binding]; other site 1001585006680 homodimer interface [polypeptide binding]; other site 1001585006681 substrate binding site [chemical binding]; other site 1001585006682 active site 1001585006683 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1001585006684 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 1001585006685 Walker A/P-loop; other site 1001585006686 ATP binding site [chemical binding]; other site 1001585006687 Q-loop/lid; other site 1001585006688 ABC transporter signature motif; other site 1001585006689 Walker B; other site 1001585006690 D-loop; other site 1001585006691 H-loop/switch region; other site 1001585006692 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1001585006693 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 1001585006694 Walker A/P-loop; other site 1001585006695 ATP binding site [chemical binding]; other site 1001585006696 Q-loop/lid; other site 1001585006697 ABC transporter signature motif; other site 1001585006698 Walker B; other site 1001585006699 D-loop; other site 1001585006700 H-loop/switch region; other site 1001585006701 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1001585006702 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1001585006703 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 1001585006704 dimer interface [polypeptide binding]; other site 1001585006705 conserved gate region; other site 1001585006706 putative PBP binding loops; other site 1001585006707 ABC-ATPase subunit interface; other site 1001585006708 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1001585006709 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 1001585006710 dimer interface [polypeptide binding]; other site 1001585006711 conserved gate region; other site 1001585006712 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 1001585006713 ABC-ATPase subunit interface; other site 1001585006714 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1001585006715 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 1001585006716 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 1001585006717 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1001585006718 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 1001585006719 HDOD domain; Region: HDOD; pfam08668 1001585006720 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 1001585006721 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 1001585006722 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1001585006723 catalytic residue [active] 1001585006724 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 1001585006725 putative peptidoglycan binding site; other site 1001585006726 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 1001585006727 putative peptidoglycan binding site; other site 1001585006728 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 1001585006729 putative peptidoglycan binding site; other site 1001585006730 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1001585006731 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1001585006732 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; cl16911 1001585006733 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1001585006734 RNA/DNA hybrid binding site [nucleotide binding]; other site 1001585006735 active site 1001585006736 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1001585006737 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 1001585006738 active site 1001585006739 catalytic site [active] 1001585006740 substrate binding site [chemical binding]; other site 1001585006741 arginine decarboxylase; Provisional; Region: PRK15029 1001585006742 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 1001585006743 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 1001585006744 homodimer interface [polypeptide binding]; other site 1001585006745 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585006746 catalytic residue [active] 1001585006747 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1001585006748 enoyl-CoA hydratase; Provisional; Region: PRK06142 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 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1001585006754 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1001585006755 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1001585006756 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 1001585006757 putative NADH binding site [chemical binding]; other site 1001585006758 putative active site [active] 1001585006759 nudix motif; other site 1001585006760 putative metal binding site [ion binding]; other site 1001585006761 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 1001585006762 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1001585006763 classical (c) SDRs; Region: SDR_c; cd05233 1001585006764 NAD(P) binding site [chemical binding]; other site 1001585006765 active site 1001585006766 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 1001585006767 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 1001585006768 putative active site [active] 1001585006769 putative substrate binding site [chemical binding]; other site 1001585006770 ATP binding site [chemical binding]; other site 1001585006771 SCP-2 sterol transfer family; Region: SCP2; cl01225 1001585006772 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 1001585006773 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1001585006774 putative inner membrane peptidase; Provisional; Region: PRK11778 1001585006775 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1001585006776 tandem repeat interface [polypeptide binding]; other site 1001585006777 oligomer interface [polypeptide binding]; other site 1001585006778 active site residues [active] 1001585006779 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 1001585006780 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1001585006781 NADP binding site [chemical binding]; other site 1001585006782 dimer interface [polypeptide binding]; other site 1001585006783 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 1001585006784 CoenzymeA binding site [chemical binding]; other site 1001585006785 subunit interaction site [polypeptide binding]; other site 1001585006786 PHB binding site; other site 1001585006787 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585006788 Helix-turn-helix domains; Region: HTH; cl00088 1001585006789 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 1001585006790 putative active site [active] 1001585006791 metal binding site [ion binding]; metal-binding site 1001585006792 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585006793 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; cl16911 1001585006794 Peptidase family M48; Region: Peptidase_M48; cl12018 1001585006795 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1001585006796 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 1001585006797 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585006798 homodimer interface [polypeptide binding]; other site 1001585006799 catalytic residue [active] 1001585006800 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 1001585006801 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 1001585006802 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 1001585006803 Domain of unknown function (DUF1287); Region: DUF1287; cl01519 1001585006804 Protein of unknown function, DUF393; Region: DUF393; cl01136 1001585006805 DoxX-like family; Region: DoxX_3; pfam13781 1001585006806 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1001585006807 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1001585006808 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585006809 Walker A/P-loop; other site 1001585006810 ATP binding site [chemical binding]; other site 1001585006811 Q-loop/lid; other site 1001585006812 ABC transporter signature motif; other site 1001585006813 Walker B; other site 1001585006814 D-loop; other site 1001585006815 H-loop/switch region; other site 1001585006816 threonine and homoserine efflux system; Provisional; Region: PRK10532 1001585006817 EamA-like transporter family; Region: EamA; cl01037 1001585006818 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 1001585006819 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 1001585006820 active site 1001585006821 catalytic site [active] 1001585006822 substrate binding site [chemical binding]; other site 1001585006823 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1001585006824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585006825 Flagellin N-methylase; Region: FliB; cl00497 1001585006826 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 1001585006827 putative lipid binding site [chemical binding]; other site 1001585006828 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 1001585006829 dimer interface [polypeptide binding]; other site 1001585006830 Citrate synthase; Region: Citrate_synt; pfam00285 1001585006831 active site 1001585006832 citrylCoA binding site [chemical binding]; other site 1001585006833 NADH binding [chemical binding]; other site 1001585006834 cationic pore residues; other site 1001585006835 oxalacetate/citrate binding site [chemical binding]; other site 1001585006836 coenzyme A binding site [chemical binding]; other site 1001585006837 catalytic triad [active] 1001585006838 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 1001585006839 Iron-sulfur protein interface; other site 1001585006840 proximal quinone binding site [chemical binding]; other site 1001585006841 SdhD (CybS) interface [polypeptide binding]; other site 1001585006842 proximal heme binding site [chemical binding]; other site 1001585006843 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 1001585006844 SdhC subunit interface [polypeptide binding]; other site 1001585006845 proximal heme binding site [chemical binding]; other site 1001585006846 cardiolipin binding site; other site 1001585006847 Iron-sulfur protein interface; other site 1001585006848 proximal quinone binding site [chemical binding]; other site 1001585006849 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585006850 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 1001585006851 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1001585006852 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1001585006853 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 1001585006854 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1001585006855 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 1001585006856 TPP-binding site [chemical binding]; other site 1001585006857 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1001585006858 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1001585006859 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 1001585006860 E3 interaction surface; other site 1001585006861 lipoyl attachment site [posttranslational modification]; other site 1001585006862 e3 binding domain; Region: E3_binding; pfam02817 1001585006863 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 1001585006864 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1001585006865 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585006866 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585006867 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1001585006868 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1001585006869 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1001585006870 CoA-ligase; Region: Ligase_CoA; cl02894 1001585006871 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1001585006872 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585006873 CoA-ligase; Region: Ligase_CoA; cl02894 1001585006874 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 1001585006875 Protein of unknown function, DUF599; Region: DUF599; cl01575 1001585006876 MAPEG family; Region: MAPEG; cl09190 1001585006877 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 1001585006878 CoenzymeA binding site [chemical binding]; other site 1001585006879 subunit interaction site [polypeptide binding]; other site 1001585006880 PHB binding site; other site 1001585006881 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 1001585006882 CoenzymeA binding site [chemical binding]; other site 1001585006883 subunit interaction site [polypeptide binding]; other site 1001585006884 PHB binding site; other site 1001585006885 heat shock protein 90; Provisional; Region: PRK05218 1001585006886 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585006887 ATP binding site [chemical binding]; other site 1001585006888 Mg2+ binding site [ion binding]; other site 1001585006889 G-X-G motif; other site 1001585006890 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1001585006891 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1001585006892 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1001585006893 PAS domain S-box; Region: sensory_box; TIGR00229 1001585006894 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 1001585006895 putative active site [active] 1001585006896 heme pocket [chemical binding]; other site 1001585006897 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 1001585006898 PAS fold; Region: PAS_3; pfam08447 1001585006899 putative active site [active] 1001585006900 heme pocket [chemical binding]; other site 1001585006901 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 1001585006902 PAS domain; Region: PAS_9; pfam13426 1001585006903 putative active site [active] 1001585006904 heme pocket [chemical binding]; other site 1001585006905 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 1001585006906 dimer interface [polypeptide binding]; other site 1001585006907 phosphorylation site [posttranslational modification] 1001585006908 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585006909 ATP binding site [chemical binding]; other site 1001585006910 Mg2+ binding site [ion binding]; other site 1001585006911 G-X-G motif; other site 1001585006912 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585006913 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585006914 active site 1001585006915 phosphorylation site [posttranslational modification] 1001585006916 intermolecular recognition site; other site 1001585006917 dimerization interface [polypeptide binding]; other site 1001585006918 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 1001585006919 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1001585006920 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585006921 active site 1001585006922 phosphorylation site [posttranslational modification] 1001585006923 intermolecular recognition site; other site 1001585006924 dimerization interface [polypeptide binding]; other site 1001585006925 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1001585006926 Zn2+ binding site [ion binding]; other site 1001585006927 Mg2+ binding site [ion binding]; other site 1001585006928 Dienelactone hydrolase family; Region: DLH; pfam01738 1001585006929 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585006930 Domain of unknown function (DUF4394); Region: DUF4394; pfam14339 1001585006931 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 1001585006932 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1001585006933 RNA polymerase sigma factor; Provisional; Region: PRK12537 1001585006934 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585006935 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1001585006936 Cupin domain; Region: Cupin_2; cl09118 1001585006937 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1001585006938 OsmC-like protein; Region: OsmC; cl00767 1001585006939 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585006940 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585006941 dimer interface [polypeptide binding]; other site 1001585006942 putative CheW interface [polypeptide binding]; other site 1001585006943 Cache domain; Region: Cache_1; pfam02743 1001585006944 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 1001585006945 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 1001585006946 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 1001585006947 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1001585006948 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; cl16911 1001585006949 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585006950 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 1001585006951 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 1001585006952 dimer interface [polypeptide binding]; other site 1001585006953 phosphorylation site [posttranslational modification] 1001585006954 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585006955 ATP binding site [chemical binding]; other site 1001585006956 Mg2+ binding site [ion binding]; other site 1001585006957 G-X-G motif; other site 1001585006958 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1001585006959 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585006960 active site 1001585006961 phosphorylation site [posttranslational modification] 1001585006962 intermolecular recognition site; other site 1001585006963 dimerization interface [polypeptide binding]; other site 1001585006964 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 1001585006965 DNA binding site [nucleotide binding] 1001585006966 Sulfatase; Region: Sulfatase; cl10460 1001585006967 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 1001585006968 active site 1001585006969 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 1001585006970 active site 1001585006971 catalytic residues [active] 1001585006972 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1001585006973 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 1001585006974 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585006975 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585006976 dimer interface [polypeptide binding]; other site 1001585006977 putative CheW interface [polypeptide binding]; other site 1001585006978 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1001585006979 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 1001585006980 dimer interface [polypeptide binding]; other site 1001585006981 active site 1001585006982 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 1001585006983 active site 1 [active] 1001585006984 dimer interface [polypeptide binding]; other site 1001585006985 active site 2 [active] 1001585006986 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 1001585006987 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 1001585006988 dimer interface [polypeptide binding]; other site 1001585006989 phosphorylation site [posttranslational modification] 1001585006990 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585006991 ATP binding site [chemical binding]; other site 1001585006992 Mg2+ binding site [ion binding]; other site 1001585006993 G-X-G motif; other site 1001585006994 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585006995 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585006996 active site 1001585006997 phosphorylation site [posttranslational modification] 1001585006998 intermolecular recognition site; other site 1001585006999 dimerization interface [polypeptide binding]; other site 1001585007000 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1001585007001 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585007002 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1001585007003 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 1001585007004 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 1001585007005 catalytic core [active] 1001585007006 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1001585007007 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585007008 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 1001585007009 CoenzymeA binding site [chemical binding]; other site 1001585007010 subunit interaction site [polypeptide binding]; other site 1001585007011 PHB binding site; other site 1001585007012 Cupin domain; Region: Cupin_2; cl09118 1001585007013 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585007014 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585007015 LysE type translocator; Region: LysE; cl00565 1001585007016 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 1001585007017 active site 1001585007018 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 1001585007019 Ligand Binding Site [chemical binding]; other site 1001585007020 Molecular Tunnel; other site 1001585007021 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 1001585007022 active site 1001585007023 metal-binding site [ion binding] 1001585007024 nucleotide-binding site [chemical binding]; other site 1001585007025 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 1001585007026 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585007027 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585007028 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 1001585007029 hypothetical protein; Provisional; Region: PRK10279 1001585007030 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1001585007031 active site 1001585007032 nucleophile elbow; other site 1001585007033 selenophosphate synthetase; Provisional; Region: PRK00943 1001585007034 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 1001585007035 dimerization interface [polypeptide binding]; other site 1001585007036 putative ATP binding site [chemical binding]; other site 1001585007037 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1001585007038 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 1001585007039 active site residue [active] 1001585007040 Flavin Reductases; Region: FlaRed; cl00801 1001585007041 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 1001585007042 dimerization interface [polypeptide binding]; other site 1001585007043 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585007044 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585007045 dimer interface [polypeptide binding]; other site 1001585007046 putative CheW interface [polypeptide binding]; other site 1001585007047 MoxR-like ATPases [General function prediction only]; Region: COG0714 1001585007048 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585007049 Walker A motif; other site 1001585007050 ATP binding site [chemical binding]; other site 1001585007051 Walker B motif; other site 1001585007052 arginine finger; other site 1001585007053 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1001585007054 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 1001585007055 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 1001585007056 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 1001585007057 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 1001585007058 CHAD domain; Region: CHAD; cl10506 1001585007059 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 1001585007060 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1001585007061 active site 1001585007062 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 1001585007063 active site 2 [active] 1001585007064 active site 1 [active] 1001585007065 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 1001585007066 dimerization interface [polypeptide binding]; other site 1001585007067 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585007068 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585007069 dimer interface [polypeptide binding]; other site 1001585007070 putative CheW interface [polypeptide binding]; other site 1001585007071 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1001585007072 active site 1001585007073 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 1001585007074 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; cl15306 1001585007075 substrate binding pocket [chemical binding]; other site 1001585007076 membrane-bound complex binding site; other site 1001585007077 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 1001585007078 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1001585007079 catalytic residue [active] 1001585007080 DoxX; Region: DoxX; cl00976 1001585007081 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1001585007082 Helix-turn-helix domains; Region: HTH; cl00088 1001585007083 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 1001585007084 substrate binding pocket [chemical binding]; other site 1001585007085 dimerization interface [polypeptide binding]; other site 1001585007086 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585007087 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 1001585007088 FAD binding site [chemical binding]; other site 1001585007089 substrate binding site [chemical binding]; other site 1001585007090 catalytic base [active] 1001585007091 Integral membrane protein TerC family; Region: TerC; cl10468 1001585007092 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 1001585007093 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585007094 ligand binding site [chemical binding]; other site 1001585007095 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 1001585007096 putative catalytic site [active] 1001585007097 putative phosphate binding site [ion binding]; other site 1001585007098 active site 1001585007099 metal binding site A [ion binding]; metal-binding site 1001585007100 DNA binding site [nucleotide binding] 1001585007101 putative AP binding site [nucleotide binding]; other site 1001585007102 putative metal binding site B [ion binding]; other site 1001585007103 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1001585007104 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1001585007105 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 1001585007106 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 1001585007107 Surface antigen; Region: Bac_surface_Ag; cl03097 1001585007108 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1001585007109 Family of unknown function (DUF490); Region: DUF490; pfam04357 1001585007110 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 1001585007111 dimer interface [polypeptide binding]; other site 1001585007112 catalytic triad [active] 1001585007113 peroxidatic and resolving cysteines [active] 1001585007114 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 1001585007115 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 1001585007116 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 1001585007117 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1001585007118 Protein export membrane protein; Region: SecD_SecF; cl14618 1001585007119 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1001585007120 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 1001585007121 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1001585007122 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585007123 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585007124 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 1001585007125 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 1001585007126 S-adenosylmethionine binding site [chemical binding]; other site 1001585007127 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1001585007128 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 1001585007129 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1001585007130 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 1001585007131 proton-translocating NADH-quinone oxidoreductase, chain L; Region: NDH_I_L; TIGR01974 1001585007132 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1001585007133 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 1001585007134 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 1001585007135 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1001585007136 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1001585007137 4Fe-4S binding domain; Region: Fer4; cl02805 1001585007138 4Fe-4S binding domain; Region: Fer4; cl02805 1001585007139 NADH dehydrogenase; Region: NADHdh; cl00469 1001585007140 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 1001585007141 NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973 1001585007142 catalytic loop [active] 1001585007143 iron binding site [ion binding]; other site 1001585007144 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 1001585007145 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 1001585007146 [4Fe-4S] binding site [ion binding]; other site 1001585007147 NADH dehydrogenase subunit G; Validated; Region: PRK08166 1001585007148 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 1001585007149 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 1001585007150 SLBB domain; Region: SLBB; pfam10531 1001585007151 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 1001585007152 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1001585007153 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 1001585007154 putative dimer interface [polypeptide binding]; other site 1001585007155 [2Fe-2S] cluster binding site [ion binding]; other site 1001585007156 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 1001585007157 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16919 1001585007158 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 1001585007159 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1001585007160 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 1001585007161 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 1001585007162 Pectinacetylesterase; Region: PAE; pfam03283 1001585007163 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1001585007164 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 1001585007165 tetramer interface [polypeptide binding]; other site 1001585007166 active site 1001585007167 Mg2+/Mn2+ binding site [ion binding]; other site 1001585007168 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 1001585007169 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1001585007170 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1001585007171 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585007172 Coenzyme A binding pocket [chemical binding]; other site 1001585007173 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1001585007174 adenylosuccinate lyase; Provisional; Region: PRK09285 1001585007175 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1001585007176 tetramer interface [polypeptide binding]; other site 1001585007177 active site 1001585007178 EamA-like transporter family; Region: EamA; cl01037 1001585007179 EamA-like transporter family; Region: EamA; cl01037 1001585007180 Protein of unknown function (DUF489); Region: DUF489; cl01097 1001585007181 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1001585007182 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 1001585007183 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 1001585007184 nudix motif; other site 1001585007185 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 1001585007186 isocitrate dehydrogenase; Validated; Region: PRK07362 1001585007187 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1001585007188 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 1001585007189 DNA-binding site [nucleotide binding]; DNA binding site 1001585007190 RNA-binding motif; other site 1001585007191 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 1001585007192 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 1001585007193 Clp amino terminal domain; Region: Clp_N; pfam02861 1001585007194 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585007195 Walker A motif; other site 1001585007196 ATP binding site [chemical binding]; other site 1001585007197 Walker B motif; other site 1001585007198 arginine finger; other site 1001585007199 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585007200 Walker A motif; other site 1001585007201 ATP binding site [chemical binding]; other site 1001585007202 Walker B motif; other site 1001585007203 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1001585007204 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 1001585007205 rRNA binding site [nucleotide binding]; other site 1001585007206 predicted 30S ribosome binding site; other site 1001585007207 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1001585007208 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1001585007209 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1001585007210 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1001585007211 thioredoxin reductase; Provisional; Region: PRK10262 1001585007212 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585007213 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1001585007214 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585007215 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 1001585007216 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1001585007217 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 1001585007218 recombination factor protein RarA; Reviewed; Region: PRK13342 1001585007219 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585007220 Walker A motif; other site 1001585007221 ATP binding site [chemical binding]; other site 1001585007222 Walker B motif; other site 1001585007223 arginine finger; other site 1001585007224 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1001585007225 CrcB-like protein; Region: CRCB; cl09114 1001585007226 seryl-tRNA synthetase; Provisional; Region: PRK05431 1001585007227 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1001585007228 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 bound...; Region: SerRS_core; cd00770 1001585007229 dimer interface [polypeptide binding]; other site 1001585007230 active site 1001585007231 motif 1; other site 1001585007232 motif 2; other site 1001585007233 motif 3; other site 1001585007234 siroheme synthase; Provisional; Region: cysG; PRK10637 1001585007235 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585007236 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1001585007237 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 1001585007238 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1001585007239 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1001585007240 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1001585007241 putative dimer interface [polypeptide binding]; other site 1001585007242 N-terminal domain interface [polypeptide binding]; other site 1001585007243 putative substrate binding pocket (H-site) [chemical binding]; other site 1001585007244 hypothetical protein; Validated; Region: PRK09071 1001585007245 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1001585007246 DsrC like protein; Region: DsrC; cl01101 1001585007247 DsrE/DsrF-like family; Region: DrsE; cl00672 1001585007248 DsrE/DsrF-like family; Region: DrsE; cl00672 1001585007249 DsrE/DsrF-like family; Region: DrsE; cl00672 1001585007250 YccA-like proteins; Region: YccA_like; cd10433 1001585007251 response regulator; Provisional; Region: PRK09483 1001585007252 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585007253 active site 1001585007254 phosphorylation site [posttranslational modification] 1001585007255 intermolecular recognition site; other site 1001585007256 dimerization interface [polypeptide binding]; other site 1001585007257 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 1001585007258 DNA binding residues [nucleotide binding] 1001585007259 dimerization interface [polypeptide binding]; other site 1001585007260 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1001585007261 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1001585007262 GIY-YIG motif/motif A; other site 1001585007263 active site 1001585007264 catalytic site [active] 1001585007265 putative DNA binding site [nucleotide binding]; other site 1001585007266 metal binding site [ion binding]; metal-binding site 1001585007267 UvrB/uvrC motif; Region: UVR; pfam02151 1001585007268 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1001585007269 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 1001585007270 DNA binding site [nucleotide binding] 1001585007271 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1001585007272 RES domain; Region: RES; cl02411 1001585007273 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1001585007274 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 1001585007275 ATP cone domain; Region: ATP-cone; pfam03477 1001585007276 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1001585007277 effector binding site; other site 1001585007278 active site 1001585007279 Zn binding site [ion binding]; other site 1001585007280 glycine loop; other site 1001585007281 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 1001585007282 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 1001585007283 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 1001585007284 FeS/SAM binding site; other site 1001585007285 NnrS protein; Region: NnrS; cl01258 1001585007286 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 1001585007287 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 1001585007288 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 1001585007289 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 1001585007290 GAF domain; Region: GAF; cl15785 1001585007291 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585007292 Walker A motif; other site 1001585007293 ATP binding site [chemical binding]; other site 1001585007294 Walker B motif; other site 1001585007295 arginine finger; other site 1001585007296 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 1001585007297 Peptidase family U32; Region: Peptidase_U32; cl03113 1001585007298 Peptidase family U32; Region: Peptidase_U32; cl03113 1001585007299 SCP-2 sterol transfer family; Region: SCP2; cl01225 1001585007300 Protein of unknown function DUF72; Region: DUF72; cl00777 1001585007301 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1001585007302 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1001585007303 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 1001585007304 putative DNA binding site [nucleotide binding]; other site 1001585007305 putative homodimer interface [polypeptide binding]; other site 1001585007306 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1001585007307 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 1001585007308 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1001585007309 active site 1001585007310 DNA binding site [nucleotide binding] 1001585007311 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 1001585007312 DNA binding site [nucleotide binding] 1001585007313 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 1001585007314 nucleotide binding site [chemical binding]; other site 1001585007315 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 1001585007316 putative NAD(P) binding site [chemical binding]; other site 1001585007317 active site 1001585007318 thiamine pyrophosphate protein; Provisional; Region: PRK08273 1001585007319 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1001585007320 PYR/PP interface [polypeptide binding]; other site 1001585007321 dimer interface [polypeptide binding]; other site 1001585007322 tetramer interface [polypeptide binding]; other site 1001585007323 TPP binding site [chemical binding]; other site 1001585007324 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 1001585007325 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 1001585007326 TPP-binding site [chemical binding]; other site 1001585007327 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1001585007328 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1001585007329 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585007330 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1001585007331 active site 1001585007332 tetramer interface; other site 1001585007333 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1001585007334 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 1001585007335 active site 1001585007336 metal binding site [ion binding]; metal-binding site 1001585007337 glutathione reductase; Validated; Region: PRK06116 1001585007338 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585007339 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1001585007340 Predicted membrane protein [Function unknown]; Region: COG2860 1001585007341 UPF0126 domain; Region: UPF0126; pfam03458 1001585007342 UPF0126 domain; Region: UPF0126; pfam03458 1001585007343 Protein of unknown function (DUF421); Region: DUF421; cl00990 1001585007344 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1001585007345 active site 1001585007346 tetramer interface; other site 1001585007347 short chain dehydrogenase; Provisional; Region: PRK06701 1001585007348 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1001585007349 NAD binding site [chemical binding]; other site 1001585007350 metal binding site [ion binding]; metal-binding site 1001585007351 active site 1001585007352 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 1001585007353 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1001585007354 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 1001585007355 S-adenosylmethionine binding site [chemical binding]; other site 1001585007356 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 1001585007357 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 1001585007358 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1001585007359 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1001585007360 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1001585007361 NAD binding site [chemical binding]; other site 1001585007362 catalytic Zn binding site [ion binding]; other site 1001585007363 structural Zn binding site [ion binding]; other site 1001585007364 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; cl03075 1001585007365 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 1001585007366 MgtC family; Region: MgtC; pfam02308 1001585007367 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 1001585007368 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 1001585007369 active site 1001585007370 homodimer interface [polypeptide binding]; other site 1001585007371 catalytic site [active] 1001585007372 acceptor binding site [chemical binding]; other site 1001585007373 trehalose synthase; Region: treS_nterm; TIGR02456 1001585007374 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1001585007375 active site 1001585007376 catalytic site [active] 1001585007377 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 1001585007378 glycogen branching enzyme; Provisional; Region: PRK05402 1001585007379 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 1001585007380 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1001585007381 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1001585007382 active site 1001585007383 catalytic site [active] 1001585007384 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 1001585007385 FOG: CBS domain [General function prediction only]; Region: COG0517 1001585007386 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 1001585007387 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1001585007388 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585007389 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 1001585007390 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1001585007391 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 1001585007392 homodimer interface [polypeptide binding]; other site 1001585007393 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1001585007394 active site pocket [active] 1001585007395 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 1001585007396 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 1001585007397 cardiolipin synthase 2; Provisional; Region: PRK11263 1001585007398 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1001585007399 putative active site [active] 1001585007400 catalytic site [active] 1001585007401 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1001585007402 putative active site [active] 1001585007403 catalytic site [active] 1001585007404 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1001585007405 putative catalytic site [active] 1001585007406 putative metal binding site [ion binding]; other site 1001585007407 putative phosphate binding site [ion binding]; other site 1001585007408 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1001585007409 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1001585007410 NAD binding site [chemical binding]; other site 1001585007411 catalytic Zn binding site [ion binding]; other site 1001585007412 structural Zn binding site [ion binding]; other site 1001585007413 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585007414 Helix-turn-helix domains; Region: HTH; cl00088 1001585007415 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 1001585007416 putative substrate translocation pore; other site 1001585007417 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1001585007418 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 1001585007419 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1001585007420 active site 1001585007421 catalytic site [active] 1001585007422 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 1001585007423 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 1001585007424 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1001585007425 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 1001585007426 active site 1001585007427 catalytic site [active] 1001585007428 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1001585007429 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 1001585007430 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 1001585007431 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 1001585007432 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 1001585007433 catalytic site [active] 1001585007434 active site 1001585007435 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1001585007436 glycogen synthase; Provisional; Region: glgA; PRK00654 1001585007437 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 1001585007438 ADP-binding pocket [chemical binding]; other site 1001585007439 homodimer interface [polypeptide binding]; other site 1001585007440 Competence-damaged protein; Region: CinA; cl00666 1001585007441 Domain of unknown function (DUF305); Region: DUF305; cl15795 1001585007442 hydroperoxidase II; Provisional; Region: katE; PRK11249 1001585007443 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 1001585007444 heme binding pocket [chemical binding]; other site 1001585007445 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 1001585007446 domain interactions; other site 1001585007447 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 1001585007448 dimerization interface [polypeptide binding]; other site 1001585007449 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 1001585007450 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1001585007451 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 1001585007452 D-pathway; other site 1001585007453 Putative ubiquinol binding site [chemical binding]; other site 1001585007454 Low-spin heme (heme b) binding site [chemical binding]; other site 1001585007455 Putative water exit pathway; other site 1001585007456 Binuclear center (heme o3/CuB) [ion binding]; other site 1001585007457 K-pathway; other site 1001585007458 Putative proton exit pathway; other site 1001585007459 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1001585007460 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 1001585007461 Cytochrome c; Region: Cytochrom_C; cl11414 1001585007462 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 1001585007463 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 1001585007464 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1001585007465 active site 1001585007466 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1001585007467 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1001585007468 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585007469 FAD dependent oxidoreductase; Region: DAO; pfam01266 1001585007470 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 1001585007471 iron-sulfur cluster [ion binding]; other site 1001585007472 [2Fe-2S] cluster binding site [ion binding]; other site 1001585007473 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1001585007474 dinuclear metal binding motif [ion binding]; other site 1001585007475 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 1001585007476 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1001585007477 dinuclear metal binding motif [ion binding]; other site 1001585007478 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1001585007479 dinuclear metal binding motif [ion binding]; other site 1001585007480 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1001585007481 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1001585007482 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1001585007483 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1001585007484 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 1001585007485 DNA-binding interface [nucleotide binding]; DNA binding site 1001585007486 Integrase core domain; Region: rve; cl01316 1001585007487 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 1001585007488 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1001585007489 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 1001585007490 DNA binding site [nucleotide binding] 1001585007491 dimer interface [polypeptide binding]; other site 1001585007492 active site 1001585007493 Int/Topo IB signature motif; other site 1001585007494 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1001585007495 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 1001585007496 substrate binding site [chemical binding]; other site 1001585007497 ATP binding site [chemical binding]; other site 1001585007498 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1001585007499 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1001585007500 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 1001585007501 non-specific DNA binding site [nucleotide binding]; other site 1001585007502 salt bridge; other site 1001585007503 sequence-specific DNA binding site [nucleotide binding]; other site 1001585007504 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1001585007505 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 1001585007506 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 1001585007507 dimer interface [polypeptide binding]; other site 1001585007508 phosphorylation site [posttranslational modification] 1001585007509 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585007510 ATP binding site [chemical binding]; other site 1001585007511 Mg2+ binding site [ion binding]; other site 1001585007512 G-X-G motif; other site 1001585007513 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1001585007514 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585007515 active site 1001585007516 phosphorylation site [posttranslational modification] 1001585007517 intermolecular recognition site; other site 1001585007518 dimerization interface [polypeptide binding]; other site 1001585007519 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 1001585007520 DNA binding site [nucleotide binding] 1001585007521 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 1001585007522 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 1001585007523 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1001585007524 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1001585007525 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1001585007526 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585007527 AAA domain; Region: AAA_21; pfam13304 1001585007528 Walker A/P-loop; other site 1001585007529 ATP binding site [chemical binding]; other site 1001585007530 AAA domain; Region: AAA_21; pfam13304 1001585007531 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1001585007532 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 1001585007533 metal-binding site [ion binding] 1001585007534 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 1001585007535 Protein of unknown function (DUF692); Region: DUF692; cl01263 1001585007536 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 1001585007537 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1001585007538 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 1001585007539 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 1001585007540 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 1001585007541 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1001585007542 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 1001585007543 Cytochrome c; Region: Cytochrom_C; cl11414 1001585007544 Protein of unknown function, DUF; Region: DUF411; cl01142 1001585007545 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585007546 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1001585007547 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 1001585007548 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1001585007549 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 1001585007550 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 1001585007551 Outer membrane efflux protein; Region: OEP; pfam02321 1001585007552 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1001585007553 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1001585007554 conserved cys residue [active] 1001585007555 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585007556 Uncharacterized membrane protein [Function unknown]; Region: COG3949 1001585007557 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 1001585007558 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1001585007559 ATP-dependent DNA ligase; Validated; Region: PRK09247 1001585007560 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 1001585007561 active site 1001585007562 DNA binding site [nucleotide binding] 1001585007563 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 1001585007564 DNA binding site [nucleotide binding] 1001585007565 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 1001585007566 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 1001585007567 ATP binding site [chemical binding]; other site 1001585007568 putative Mg++ binding site [ion binding]; other site 1001585007569 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 1001585007570 nucleotide binding region [chemical binding]; other site 1001585007571 ATP-binding site [chemical binding]; other site 1001585007572 DEAD/H associated; Region: DEAD_assoc; pfam08494 1001585007573 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 1001585007574 putative active site [active] 1001585007575 putative metal binding site [ion binding]; other site 1001585007576 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 1001585007577 Cell division inhibitor SulA; Region: SulA; cl01880 1001585007578 DNA Polymerase Y-family; Region: PolY_like; cd03468 1001585007579 active site 1001585007580 DNA binding site [nucleotide binding] 1001585007581 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1001585007582 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 1001585007583 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 1001585007584 generic binding surface I; other site 1001585007585 generic binding surface II; other site 1001585007586 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585007587 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 1001585007588 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585007589 DNA-binding site [nucleotide binding]; DNA binding site 1001585007590 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 1001585007591 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585007592 homodimer interface [polypeptide binding]; other site 1001585007593 catalytic residue [active] 1001585007594 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1001585007595 Cupin domain; Region: Cupin_2; cl09118 1001585007596 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585007597 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585007598 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 1001585007599 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585007600 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585007601 active site 1001585007602 phosphorylation site [posttranslational modification] 1001585007603 intermolecular recognition site; other site 1001585007604 dimerization interface [polypeptide binding]; other site 1001585007605 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1001585007606 putative NAD(P) binding site [chemical binding]; other site 1001585007607 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1001585007608 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1001585007609 Helix-turn-helix domains; Region: HTH; cl00088 1001585007610 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 1001585007611 putative substrate binding pocket [chemical binding]; other site 1001585007612 putative dimerization interface [polypeptide binding]; other site 1001585007613 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585007614 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585007615 EamA-like transporter family; Region: EamA; cl01037 1001585007616 aromatic amino acid exporter; Provisional; Region: PRK11689 1001585007617 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1001585007618 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 1001585007619 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 1001585007620 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1001585007621 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1001585007622 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1001585007623 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1001585007624 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585007625 metal binding site [ion binding]; metal-binding site 1001585007626 active site 1001585007627 I-site; other site 1001585007628 MAPEG family; Region: MAPEG; cl09190 1001585007629 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1001585007630 aminoglycoside resistance protein; Provisional; Region: PRK13746 1001585007631 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 1001585007632 Protein of unknown function (DUF419); Region: DUF419; cl15265 1001585007633 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 1001585007634 DNA-binding site [nucleotide binding]; DNA binding site 1001585007635 RNA-binding motif; other site 1001585007636 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 1001585007637 Bacitracin resistance protein BacA; Region: BacA; cl00858 1001585007638 Cache domain; Region: Cache_2; cl07034 1001585007639 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 1001585007640 dimerization interface [polypeptide binding]; other site 1001585007641 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585007642 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585007643 dimer interface [polypeptide binding]; other site 1001585007644 putative CheW interface [polypeptide binding]; other site 1001585007645 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 1001585007646 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585007647 AAA domain; Region: AAA_28; pfam13521 1001585007648 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 1001585007649 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1001585007650 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585007651 Helix-turn-helix domains; Region: HTH; cl00088 1001585007652 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 1001585007653 putative heme binding pocket [chemical binding]; other site 1001585007654 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 1001585007655 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 1001585007656 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1001585007657 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 1001585007658 NifU-like domain; Region: NifU; cl00484 1001585007659 OpgC protein; Region: OpgC_C; cl00792 1001585007660 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 1001585007661 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1001585007662 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 1001585007663 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 1001585007664 substrate binding pocket [chemical binding]; other site 1001585007665 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 1001585007666 B12 binding site [chemical binding]; other site 1001585007667 cobalt ligand [ion binding]; other site 1001585007668 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1001585007669 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 1001585007670 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 1001585007671 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 1001585007672 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585007673 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585007674 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585007675 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1001585007676 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 1001585007677 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 1001585007678 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14464 1001585007679 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 1001585007680 Cache domain; Region: Cache_1; pfam02743 1001585007681 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 1001585007682 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585007683 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585007684 dimer interface [polypeptide binding]; other site 1001585007685 putative CheW interface [polypeptide binding]; other site 1001585007686 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1001585007687 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 1001585007688 Cupin domain; Region: Cupin_2; cl09118 1001585007689 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585007690 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1001585007691 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 1001585007692 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585007693 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585007694 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1001585007695 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1001585007696 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1001585007697 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1001585007698 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1001585007699 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1001585007700 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 1001585007701 helicase 45; Provisional; Region: PTZ00424 1001585007702 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 1001585007703 ATP binding site [chemical binding]; other site 1001585007704 Mg++ binding site [ion binding]; other site 1001585007705 motif III; other site 1001585007706 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 1001585007707 nucleotide binding region [chemical binding]; other site 1001585007708 ATP-binding site [chemical binding]; other site 1001585007709 DbpA RNA binding domain; Region: DbpA; pfam03880 1001585007710 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 1001585007711 S-adenosylmethionine binding site [chemical binding]; other site 1001585007712 Flavin-binding monooxygenase-like; Region: FMO-like; pfam00743 1001585007713 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585007714 bile acid transporter; Region: bass; TIGR00841 1001585007715 Membrane transport protein; Region: Mem_trans; cl09117 1001585007716 short chain dehydrogenase; Provisional; Region: PRK06181 1001585007717 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585007718 NAD(P) binding site [chemical binding]; other site 1001585007719 active site 1001585007720 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 1001585007721 Peptidase family M48; Region: Peptidase_M48; cl12018 1001585007722 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 1001585007723 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 1001585007724 Domain of unknown function (DUF3291); Region: DUF3291; pfam11695 1001585007725 EamA-like transporter family; Region: EamA; cl01037 1001585007726 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1001585007727 EamA-like transporter family; Region: EamA; cl01037 1001585007728 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 1001585007729 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585007730 Helix-turn-helix domains; Region: HTH; cl00088 1001585007731 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 1001585007732 dimerization interface [polypeptide binding]; other site 1001585007733 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 1001585007734 Helix-turn-helix domains; Region: HTH; cl00088 1001585007735 transcriptional regulator; Provisional; Region: PRK10632 1001585007736 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 1001585007737 putative effector binding pocket; other site 1001585007738 dimerization interface [polypeptide binding]; other site 1001585007739 RDD family; Region: RDD; cl00746 1001585007740 elongation factor P; Validated; Region: PRK00529 1001585007741 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1001585007742 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 1001585007743 RNA binding site [nucleotide binding]; other site 1001585007744 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 1001585007745 RNA binding site [nucleotide binding]; other site 1001585007746 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 1001585007747 Uncharacterized conserved protein [Function unknown]; Region: COG4938 1001585007748 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585007749 Walker A/P-loop; other site 1001585007750 ATP binding site [chemical binding]; other site 1001585007751 Uncharacterized conserved protein [Function unknown]; Region: COG4938 1001585007752 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 1001585007753 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 1001585007754 PLD-like domain; Region: PLDc_2; pfam13091 1001585007755 putative homodimer interface [polypeptide binding]; other site 1001585007756 putative active site [active] 1001585007757 catalytic site [active] 1001585007758 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1001585007759 Arc-like DNA binding domain; Region: Arc; pfam03869 1001585007760 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 1001585007761 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585007762 integrase; Provisional; Region: int; PHA02601 1001585007763 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 1001585007764 active site 1001585007765 DNA binding site [nucleotide binding] 1001585007766 Int/Topo IB signature motif; other site 1001585007767 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1001585007768 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 1001585007769 substrate binding site [chemical binding]; other site 1001585007770 oxyanion hole (OAH) forming residues; other site 1001585007771 trimer interface [polypeptide binding]; other site 1001585007772 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1001585007773 NMT1-like family; Region: NMT1_2; cl15260 1001585007774 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1001585007775 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 1001585007776 dimer interface [polypeptide binding]; other site 1001585007777 conserved gate region; other site 1001585007778 putative PBP binding loops; other site 1001585007779 ABC-ATPase subunit interface; other site 1001585007780 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 1001585007781 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 1001585007782 Walker A/P-loop; other site 1001585007783 ATP binding site [chemical binding]; other site 1001585007784 Q-loop/lid; other site 1001585007785 ABC transporter signature motif; other site 1001585007786 Walker B; other site 1001585007787 D-loop; other site 1001585007788 H-loop/switch region; other site 1001585007789 Alginate lyase; Region: Alginate_lyase2; pfam08787 1001585007790 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 1001585007791 active site 1001585007792 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 1001585007793 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 1001585007794 putative substrate translocation pore; other site 1001585007795 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 1001585007796 active site 1001585007797 Protein kinase domain; Region: Pkinase; pfam00069 1001585007798 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1001585007799 active site 1001585007800 ATP binding site [chemical binding]; other site 1001585007801 substrate binding site [chemical binding]; other site 1001585007802 activation loop (A-loop); other site 1001585007803 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 1001585007804 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585007805 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 1001585007806 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 1001585007807 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1001585007808 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 1001585007809 [2Fe-2S] cluster binding site [ion binding]; other site 1001585007810 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 1001585007811 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1001585007812 [4Fe-4S] binding site [ion binding]; other site 1001585007813 molybdopterin cofactor binding site; other site 1001585007814 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 1001585007815 molybdopterin cofactor binding site; other site 1001585007816 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 1001585007817 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 1001585007818 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 1001585007819 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 1001585007820 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 1001585007821 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585007822 ligand binding site [chemical binding]; other site 1001585007823 RNA polymerase sigma factor SigX; Reviewed; Region: PRK09640 1001585007824 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585007825 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 1001585007826 DNA binding residues [nucleotide binding] 1001585007827 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 1001585007828 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1001585007829 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 1001585007830 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585007831 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585007832 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1001585007833 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1001585007834 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 1001585007835 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; cl09155 1001585007836 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 1001585007837 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1001585007838 PrpF protein; Region: PrpF; pfam04303 1001585007839 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1001585007840 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1001585007841 substrate binding site [chemical binding]; other site 1001585007842 ligand binding site [chemical binding]; other site 1001585007843 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 1001585007844 substrate binding site [chemical binding]; other site 1001585007845 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1001585007846 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 1001585007847 dimer interface [polypeptide binding]; other site 1001585007848 active site 1001585007849 citrylCoA binding site [chemical binding]; other site 1001585007850 oxalacetate/citrate binding site [chemical binding]; other site 1001585007851 coenzyme A binding site [chemical binding]; other site 1001585007852 catalytic triad [active] 1001585007853 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 1001585007854 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 1001585007855 tetramer interface [polypeptide binding]; other site 1001585007856 active site 1001585007857 Mg2+/Mn2+ binding site [ion binding]; other site 1001585007858 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1001585007859 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585007860 DNA-binding site [nucleotide binding]; DNA binding site 1001585007861 FCD domain; Region: FCD; cl11656 1001585007862 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 1001585007863 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 1001585007864 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 1001585007865 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1001585007866 Maltose operon periplasmic protein precursor (MalM); Region: MalM; cl11647 1001585007867 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 1001585007868 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 1001585007869 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 bacteriocins; Region: Peptidase_C39G; cd02423 1001585007870 putative active site [active] 1001585007871 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1001585007872 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585007873 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 1001585007874 DNA binding residues [nucleotide binding] 1001585007875 dimerization interface [polypeptide binding]; other site 1001585007876 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1001585007877 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 1001585007878 DNA binding residues [nucleotide binding] 1001585007879 dimerization interface [polypeptide binding]; other site 1001585007880 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1001585007881 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1001585007882 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1001585007883 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1001585007884 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1001585007885 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 1001585007886 Active Sites [active] 1001585007887 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1001585007888 Helix-turn-helix domains; Region: HTH; cl00088 1001585007889 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1001585007890 substrate binding site [chemical binding]; other site 1001585007891 dimerization interface [polypeptide binding]; other site 1001585007892 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 1001585007893 Ligand Binding Site [chemical binding]; other site 1001585007894 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 1001585007895 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 1001585007896 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585007897 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1001585007898 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 1001585007899 catalytic residues [active] 1001585007900 PilZ domain; Region: PilZ; cl01260 1001585007901 NeuB family; Region: NeuB; cl00496 1001585007902 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1001585007903 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1001585007904 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1001585007905 L,D-transpeptidase; Provisional; Region: PRK10190 1001585007906 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 1001585007907 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 1001585007908 active site 1001585007909 catalytic triad [active] 1001585007910 oxyanion hole [active] 1001585007911 switch loop; other site 1001585007912 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1001585007913 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 1001585007914 Walker A/P-loop; other site 1001585007915 ATP binding site [chemical binding]; other site 1001585007916 Q-loop/lid; other site 1001585007917 ABC transporter signature motif; other site 1001585007918 Walker B; other site 1001585007919 D-loop; other site 1001585007920 H-loop/switch region; other site 1001585007921 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1001585007922 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1001585007923 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1001585007924 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1001585007925 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1001585007926 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1001585007927 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 1001585007928 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1001585007929 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1001585007930 DNA binding site [nucleotide binding] 1001585007931 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 1001585007932 putative ligand binding site [chemical binding]; other site 1001585007933 putative dimerization interface [polypeptide binding]; other site 1001585007934 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585007935 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585007936 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 1001585007937 DctM-like transporters; Region: DctM; pfam06808 1001585007938 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 1001585007939 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 1001585007940 ATP-binding site [chemical binding]; other site 1001585007941 Gluconate-6-phosphate binding site [chemical binding]; other site 1001585007942 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1001585007943 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1001585007944 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585007945 Walker A motif; other site 1001585007946 ATP binding site [chemical binding]; other site 1001585007947 Walker B motif; other site 1001585007948 arginine finger; other site 1001585007949 Helix-turn-helix domains; Region: HTH; cl00088 1001585007950 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 1001585007951 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1001585007952 NAD binding site [chemical binding]; other site 1001585007953 catalytic residues [active] 1001585007954 substrate binding site [chemical binding]; other site 1001585007955 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1001585007956 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 1001585007957 Trp docking motif [polypeptide binding]; other site 1001585007958 cytochrome domain interface [polypeptide binding]; other site 1001585007959 active site 1001585007960 Cytochrome c; Region: Cytochrom_C; cl11414 1001585007961 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1001585007962 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 1001585007963 N-terminal plug; other site 1001585007964 ligand-binding site [chemical binding]; other site 1001585007965 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585007966 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585007967 active site 1001585007968 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1001585007969 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 1001585007970 dimer interface [polypeptide binding]; other site 1001585007971 active site 1001585007972 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 1001585007973 NAD binding site [chemical binding]; other site 1001585007974 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1001585007975 homodimer interface [polypeptide binding]; other site 1001585007976 homotetramer interface [polypeptide binding]; other site 1001585007977 active site 1001585007978 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1001585007979 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 1001585007980 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585007981 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1001585007982 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585007983 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585007984 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585007985 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1001585007986 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1001585007987 DNA binding residues [nucleotide binding] 1001585007988 putative dimer interface [polypeptide binding]; other site 1001585007989 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1001585007990 isovaleryl-CoA dehydrogenase; Region: PLN02519 1001585007991 substrate binding site [chemical binding]; other site 1001585007992 FAD binding site [chemical binding]; other site 1001585007993 catalytic base [active] 1001585007994 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1001585007995 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 1001585007996 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 1001585007997 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 1001585007998 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 1001585007999 substrate binding site [chemical binding]; other site 1001585008000 oxyanion hole (OAH) forming residues; other site 1001585008001 trimer interface [polypeptide binding]; other site 1001585008002 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1001585008003 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1001585008004 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1001585008005 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 1001585008006 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 1001585008007 carboxyltransferase (CT) interaction site; other site 1001585008008 biotinylation site [posttranslational modification]; other site 1001585008009 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1001585008010 active site 1001585008011 catalytic residues [active] 1001585008012 metal binding site [ion binding]; metal-binding site 1001585008013 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 1001585008014 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 1001585008015 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585008016 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1001585008017 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1001585008018 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585008019 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 1001585008020 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 1001585008021 Walker A motif; other site 1001585008022 ATP binding site [chemical binding]; other site 1001585008023 Walker B motif; other site 1001585008024 PPIC-type PPIASE domain; Region: Rotamase; cl08278 1001585008025 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585008026 Helix-turn-helix domains; Region: HTH; cl00088 1001585008027 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 1001585008028 putative substrate binding pocket [chemical binding]; other site 1001585008029 putative dimerization interface [polypeptide binding]; other site 1001585008030 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 1001585008031 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 1001585008032 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585008033 Helix-turn-helix domains; Region: HTH; cl00088 1001585008034 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585008035 Helix-turn-helix domains; Region: HTH; cl00088 1001585008036 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 1001585008037 putative effector binding pocket; other site 1001585008038 putative dimerization interface [polypeptide binding]; other site 1001585008039 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 1001585008040 homotrimer interaction site [polypeptide binding]; other site 1001585008041 putative active site [active] 1001585008042 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 1001585008043 FMN binding site [chemical binding]; other site 1001585008044 dimer interface [polypeptide binding]; other site 1001585008045 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 1001585008046 siderophore binding site; other site 1001585008047 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 1001585008048 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 1001585008049 ABC-ATPase subunit interface; other site 1001585008050 dimer interface [polypeptide binding]; other site 1001585008051 putative PBP binding regions; other site 1001585008052 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 1001585008053 ABC-ATPase subunit interface; other site 1001585008054 dimer interface [polypeptide binding]; other site 1001585008055 putative PBP binding regions; other site 1001585008056 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1001585008057 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1001585008058 Walker A/P-loop; other site 1001585008059 ATP binding site [chemical binding]; other site 1001585008060 Q-loop/lid; other site 1001585008061 ABC transporter signature motif; other site 1001585008062 Walker B; other site 1001585008063 D-loop; other site 1001585008064 H-loop/switch region; other site 1001585008065 Spore Coat Protein U domain; Region: SCPU; cl02253 1001585008066 Spore Coat Protein U domain; Region: SCPU; cl02253 1001585008067 Spore Coat Protein U domain; Region: SCPU; cl02253 1001585008068 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1001585008069 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1001585008070 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1001585008071 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1001585008072 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1001585008073 PapC C-terminal domain; Region: PapC_C; pfam13953 1001585008074 Spore Coat Protein U domain; Region: SCPU; cl02253 1001585008075 Spore Coat Protein U domain; Region: SCPU; cl02253 1001585008076 pyridoxamine kinase; Validated; Region: PRK05756 1001585008077 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 1001585008078 pyridoxal binding site [chemical binding]; other site 1001585008079 dimer interface [polypeptide binding]; other site 1001585008080 ATP binding site [chemical binding]; other site 1001585008081 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 1001585008082 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 1001585008083 chaperone protein HchA; Provisional; Region: PRK04155 1001585008084 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1001585008085 conserved cys residue [active] 1001585008086 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585008087 metal binding site [ion binding]; metal-binding site 1001585008088 active site 1001585008089 I-site; other site 1001585008090 NMT1-like family; Region: NMT1_2; cl15260 1001585008091 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 1001585008092 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585008093 NAD(P) binding site [chemical binding]; other site 1001585008094 active site 1001585008095 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1001585008096 DNA binding residues [nucleotide binding] 1001585008097 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1001585008098 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 1001585008099 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 1001585008100 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1001585008101 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 1001585008102 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 1001585008103 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1001585008104 metal binding site [ion binding]; metal-binding site 1001585008105 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1001585008106 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 1001585008107 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 1001585008108 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585008109 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 1001585008110 DNA binding residues [nucleotide binding] 1001585008111 fec operon regulator FecR; Reviewed; Region: PRK09774 1001585008112 FecR protein; Region: FecR; pfam04773 1001585008113 Secretin and TonB N terminus short domain; Region: STN; cl06624 1001585008114 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1001585008115 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 1001585008116 N-terminal plug; other site 1001585008117 ligand-binding site [chemical binding]; other site 1001585008118 RNA polymerase sigma factor; Provisional; Region: PRK12528 1001585008119 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585008120 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1001585008121 fec operon regulator FecR; Reviewed; Region: PRK09774 1001585008122 FecR protein; Region: FecR; pfam04773 1001585008123 Secretin and TonB N terminus short domain; Region: STN; cl06624 1001585008124 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1001585008125 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 1001585008126 N-terminal plug; other site 1001585008127 ligand-binding site [chemical binding]; other site 1001585008128 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1001585008129 NMT1-like family; Region: NMT1_2; cl15260 1001585008130 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 1001585008131 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1001585008132 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 1001585008133 Walker A/P-loop; other site 1001585008134 ATP binding site [chemical binding]; other site 1001585008135 Q-loop/lid; other site 1001585008136 ABC transporter signature motif; other site 1001585008137 Walker B; other site 1001585008138 D-loop; other site 1001585008139 H-loop/switch region; other site 1001585008140 NMT1-like family; Region: NMT1_2; cl15260 1001585008141 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1001585008142 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 1001585008143 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1001585008144 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1001585008145 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1001585008146 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1001585008147 NMT1-like family; Region: NMT1_2; cl15260 1001585008148 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1001585008149 Helix-turn-helix domains; Region: HTH; cl00088 1001585008150 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 1001585008151 dimerization interface [polypeptide binding]; other site 1001585008152 substrate binding pocket [chemical binding]; other site 1001585008153 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585008154 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1001585008155 Helix-turn-helix domains; Region: HTH; cl00088 1001585008156 Bacterial transcriptional regulator; Region: IclR; pfam01614 1001585008157 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1001585008158 Putative ammonia monooxygenase; Region: AmoA; pfam05145 1001585008159 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1001585008160 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 1001585008161 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 1001585008162 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1001585008163 substrate binding site [chemical binding]; other site 1001585008164 oxyanion hole (OAH) forming residues; other site 1001585008165 trimer interface [polypeptide binding]; other site 1001585008166 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 1001585008167 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585008168 CoA-ligase; Region: Ligase_CoA; cl02894 1001585008169 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1001585008170 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 1001585008171 substrate binding site [chemical binding]; other site 1001585008172 oxyanion hole (OAH) forming residues; other site 1001585008173 trimer interface [polypeptide binding]; other site 1001585008174 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1001585008175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585008176 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1001585008177 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1001585008178 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 1001585008179 dimer interface [polypeptide binding]; other site 1001585008180 active site 1001585008181 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 1001585008182 active site 1001585008183 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1001585008184 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585008185 Walker A/P-loop; other site 1001585008186 ATP binding site [chemical binding]; other site 1001585008187 Q-loop/lid; other site 1001585008188 ABC transporter signature motif; other site 1001585008189 Walker B; other site 1001585008190 D-loop; other site 1001585008191 H-loop/switch region; other site 1001585008192 ABC transporter; Region: ABC_tran_2; pfam12848 1001585008193 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 1001585008194 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1001585008195 LysR family transcriptional regulator; Provisional; Region: PRK14997 1001585008196 Helix-turn-helix domains; Region: HTH; cl00088 1001585008197 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 1001585008198 dimerization interface [polypeptide binding]; other site 1001585008199 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 1001585008200 Cache domain; Region: Cache_2; cl07034 1001585008201 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 1001585008202 dimerization interface [polypeptide binding]; other site 1001585008203 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585008204 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585008205 dimer interface [polypeptide binding]; other site 1001585008206 putative CheW interface [polypeptide binding]; other site 1001585008207 Predicted permease [General function prediction only]; Region: COG2056 1001585008208 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 1001585008209 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 1001585008210 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585008211 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585008212 dimer interface [polypeptide binding]; other site 1001585008213 putative CheW interface [polypeptide binding]; other site 1001585008214 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1001585008215 sensor protein PhoQ; Provisional; Region: PRK10815 1001585008216 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585008217 ATP binding site [chemical binding]; other site 1001585008218 G-X-G motif; other site 1001585008219 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1001585008220 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585008221 active site 1001585008222 phosphorylation site [posttranslational modification] 1001585008223 intermolecular recognition site; other site 1001585008224 dimerization interface [polypeptide binding]; other site 1001585008225 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 1001585008226 DNA binding site [nucleotide binding] 1001585008227 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 1001585008228 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 1001585008229 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1001585008230 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 1001585008231 active site 1001585008232 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 1001585008233 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585008234 Family description; Region: UvrD_C_2; cl15862 1001585008235 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1001585008236 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585008237 Family description; Region: UvrD_C_2; cl15862 1001585008238 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1001585008239 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1001585008240 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 1001585008241 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1001585008242 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1001585008243 phosphoethanolamine N-methyltransferase; Region: PLN02336 1001585008244 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 1001585008245 MFS transport protein AraJ; Provisional; Region: PRK10091 1001585008246 putative substrate translocation pore; other site 1001585008247 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 1001585008248 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 1001585008249 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 1001585008250 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585008251 Uncharacterized conserved protein [Function unknown]; Region: COG3410 1001585008252 His-Xaa-Ser system radical SAM maturase HsxB; Region: rSAM_paired_1; TIGR03978 1001585008253 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 1001585008254 FeS/SAM binding site; other site 1001585008255 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 1001585008256 His-Xaa-Ser system radical SAM maturase HsxC; Region: rSAM_paired_2; TIGR03977 1001585008257 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 1001585008258 FeS/SAM binding site; other site 1001585008259 RNA dependent RNA polymerase; Region: RdRP; pfam05183 1001585008260 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1001585008261 Endonuclease I; Region: Endonuclease_1; cl01003 1001585008262 Global regulator protein family; Region: CsrA; cl00670 1001585008263 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 1001585008264 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1001585008265 Helix-turn-helix domains; Region: HTH; cl00088 1001585008266 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1001585008267 Putative glucoamylase; Region: Glycoamylase; pfam10091 1001585008268 Putative carbohydrate binding domain; Region: CBM_X; cl05621 1001585008269 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 1001585008270 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 1001585008271 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1001585008272 Putative carbohydrate binding domain; Region: CBM_X; cl05621 1001585008273 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 1001585008274 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 1001585008275 CsbD-like; Region: CsbD; cl15799 1001585008276 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1001585008277 CsbD-like; Region: CsbD; cl15799 1001585008278 BON domain; Region: BON; cl02771 1001585008279 BON domain; Region: BON; cl02771 1001585008280 BON domain; Region: BON; cl02771 1001585008281 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1001585008282 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585008283 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 1001585008284 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 1001585008285 hypothetical protein; Validated; Region: PRK09039 1001585008286 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585008287 ligand binding site [chemical binding]; other site 1001585008288 PAS fold; Region: PAS_4; pfam08448 1001585008289 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 1001585008290 putative active site [active] 1001585008291 heme pocket [chemical binding]; other site 1001585008292 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585008293 metal binding site [ion binding]; metal-binding site 1001585008294 active site 1001585008295 I-site; other site 1001585008296 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1001585008297 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 1001585008298 ligand binding site [chemical binding]; other site 1001585008299 flexible hinge region; other site 1001585008300 Helix-turn-helix domains; Region: HTH; cl00088 1001585008301 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1001585008302 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 1001585008303 ligand binding site [chemical binding]; other site 1001585008304 flexible hinge region; other site 1001585008305 Helix-turn-helix domains; Region: HTH; cl00088 1001585008306 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 1001585008307 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585008308 I-site; other site 1001585008309 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585008310 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585008311 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1001585008312 DDE superfamily endonuclease; Region: DDE_4; cl15789 1001585008313 DDE superfamily endonuclease; Region: DDE_4; cl15789 1001585008314 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1001585008315 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585008316 AAA domain; Region: AAA_23; pfam13476 1001585008317 Walker A/P-loop; other site 1001585008318 ATP binding site [chemical binding]; other site 1001585008319 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 1001585008320 AAA domain; Region: AAA_21; pfam13304 1001585008321 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585008322 Q-loop/lid; other site 1001585008323 ABC transporter signature motif; other site 1001585008324 Walker B; other site 1001585008325 D-loop; other site 1001585008326 H-loop/switch region; other site 1001585008327 MltA-interacting protein MipA; Region: MipA; cl01504 1001585008328 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1001585008329 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1001585008330 substrate binding site [chemical binding]; other site 1001585008331 ligand binding site [chemical binding]; other site 1001585008332 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 1001585008333 substrate binding site [chemical binding]; other site 1001585008334 Helix-turn-helix domains; Region: HTH; cl00088 1001585008335 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 1001585008336 putative effector binding pocket; other site 1001585008337 putative dimerization interface [polypeptide binding]; other site 1001585008338 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1001585008339 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 1001585008340 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1001585008341 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 1001585008342 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585008343 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585008344 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 1001585008345 Citrate transporter; Region: CitMHS; pfam03600 1001585008346 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1001585008347 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 1001585008348 Citrate synthase; Region: Citrate_synt; pfam00285 1001585008349 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 1001585008350 oxalacetate binding site [chemical binding]; other site 1001585008351 citrylCoA binding site [chemical binding]; other site 1001585008352 coenzyme A binding site [chemical binding]; other site 1001585008353 catalytic triad [active] 1001585008354 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 1001585008355 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1001585008356 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1001585008357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585008358 NAD(P) binding site [chemical binding]; other site 1001585008359 active site 1001585008360 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1001585008361 MPN+ (JAMM) motif; other site 1001585008362 Zinc-binding site [ion binding]; other site 1001585008363 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 1001585008364 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 1001585008365 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 1001585008366 phosphodiesterase; Provisional; Region: PRK12704 1001585008367 Domain of unknown function (DUF4041); Region: DUF4041; pfam13250 1001585008368 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 1001585008369 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1001585008370 MPN+ (JAMM) motif; other site 1001585008371 Zinc-binding site [ion binding]; other site 1001585008372 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 1001585008373 putative metal binding site [ion binding]; other site 1001585008374 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 1001585008375 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 1001585008376 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1001585008377 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1001585008378 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1001585008379 substrate binding site [chemical binding]; other site 1001585008380 catalytic Zn binding site [ion binding]; other site 1001585008381 NAD binding site [chemical binding]; other site 1001585008382 structural Zn binding site [ion binding]; other site 1001585008383 dimer interface [polypeptide binding]; other site 1001585008384 Amino acid permease; Region: AA_permease; pfam00324 1001585008385 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 1001585008386 DNA binding residues [nucleotide binding] 1001585008387 dimerization interface [polypeptide binding]; other site 1001585008388 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 1001585008389 catalytic core [active] 1001585008390 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1001585008391 active site 1001585008392 ATP binding site [chemical binding]; other site 1001585008393 substrate binding site [chemical binding]; other site 1001585008394 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 1001585008395 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585008396 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1001585008397 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 1001585008398 inhibitor-cofactor binding pocket; inhibition site 1001585008399 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585008400 catalytic residue [active] 1001585008401 Cupin domain; Region: Cupin_2; cl09118 1001585008402 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 1001585008403 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585008404 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585008405 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1001585008406 Cytochrome c; Region: Cytochrom_C; cl11414 1001585008407 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1001585008408 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 1001585008409 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1001585008410 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1001585008411 NAD(P) binding site [chemical binding]; other site 1001585008412 catalytic residues [active] 1001585008413 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 1001585008414 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585008415 PaaX-like protein; Region: PaaX; pfam07848 1001585008416 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 1001585008417 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 1001585008418 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 1001585008419 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 1001585008420 putative trimer interface [polypeptide binding]; other site 1001585008421 putative metal binding site [ion binding]; other site 1001585008422 Phenylacetic acid degradation proteins PaaZ (Escherichia coli) and PaaN (Pseudomonas putida)-like; Region: ALDH_PAD-PaaZ; cd07127 1001585008423 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 1001585008424 NADP binding site [chemical binding]; other site 1001585008425 catalytic residues [active] 1001585008426 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 1001585008427 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 1001585008428 substrate binding site [chemical binding]; other site 1001585008429 oxyanion hole (OAH) forming residues; other site 1001585008430 trimer interface [polypeptide binding]; other site 1001585008431 enoyl-CoA hydratase; Provisional; Region: PRK08140 1001585008432 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 1001585008433 substrate binding site [chemical binding]; other site 1001585008434 oxyanion hole (OAH) forming residues; other site 1001585008435 trimer interface [polypeptide binding]; other site 1001585008436 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1001585008437 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585008438 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1001585008439 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1001585008440 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 1001585008441 CoenzymeA binding site [chemical binding]; other site 1001585008442 subunit interaction site [polypeptide binding]; other site 1001585008443 PHB binding site; other site 1001585008444 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1001585008445 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 1001585008446 dimer interface [polypeptide binding]; other site 1001585008447 active site 1001585008448 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585008449 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1001585008450 Cation efflux family; Region: Cation_efflux; cl00316 1001585008451 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 1001585008452 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 1001585008453 Phenylacetic acid degradation B; Region: PaaB; cl01371 1001585008454 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 1001585008455 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 1001585008456 Domain of unknown function DUF59; Region: DUF59; cl00941 1001585008457 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1001585008458 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 1001585008459 FAD binding pocket [chemical binding]; other site 1001585008460 FAD binding motif [chemical binding]; other site 1001585008461 phosphate binding motif [ion binding]; other site 1001585008462 beta-alpha-beta structure motif; other site 1001585008463 NAD(p) ribose binding residues [chemical binding]; other site 1001585008464 NAD binding pocket [chemical binding]; other site 1001585008465 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1001585008466 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 1001585008467 catalytic loop [active] 1001585008468 iron binding site [ion binding]; other site 1001585008469 Protein of unknown function, DUF485; Region: DUF485; cl01231 1001585008470 Sodium:solute symporter family; Region: SSF; cl00456 1001585008471 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1001585008472 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 1001585008473 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 1001585008474 substrate binding site [chemical binding]; other site 1001585008475 dimer interface [polypeptide binding]; other site 1001585008476 NADP binding site [chemical binding]; other site 1001585008477 catalytic residues [active] 1001585008478 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 1001585008479 substrate binding site [chemical binding]; other site 1001585008480 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 1001585008481 dimerization interface [polypeptide binding]; other site 1001585008482 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585008483 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585008484 dimer interface [polypeptide binding]; other site 1001585008485 putative CheW interface [polypeptide binding]; other site 1001585008486 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 1001585008487 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 1001585008488 Antirestriction protein (ArdA); Region: ArdA; cl01953 1001585008489 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1001585008490 Replication initiator protein A; Region: RPA; cl02339 1001585008491 ParA-like protein; Provisional; Region: PHA02518 1001585008492 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 1001585008493 P-loop; other site 1001585008494 Magnesium ion binding site [ion binding]; other site 1001585008495 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 1001585008496 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 1001585008497 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 1001585008498 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1001585008499 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 1001585008500 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 1001585008501 substrate-cofactor binding pocket; other site 1001585008502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585008503 catalytic residue [active] 1001585008504 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1001585008505 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585008506 Coenzyme A binding pocket [chemical binding]; other site 1001585008507 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1001585008508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585008509 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 1001585008510 active site 1001585008511 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 1001585008512 dimer interface [polypeptide binding]; other site 1001585008513 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 1001585008514 Ligand Binding Site [chemical binding]; other site 1001585008515 Molecular Tunnel; other site 1001585008516 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 1001585008517 MFS transport protein AraJ; Provisional; Region: PRK10091 1001585008518 putative substrate translocation pore; other site 1001585008519 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1001585008520 Helix-turn-helix domains; Region: HTH; cl00088 1001585008521 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 1001585008522 dimerization interface [polypeptide binding]; other site 1001585008523 substrate binding pocket [chemical binding]; other site 1001585008524 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1001585008525 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 1001585008526 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585008527 Walker A motif; other site 1001585008528 ATP binding site [chemical binding]; other site 1001585008529 Walker B motif; other site 1001585008530 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 1001585008531 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 1001585008532 ATP binding site [chemical binding]; other site 1001585008533 Walker A motif; other site 1001585008534 hexamer interface [polypeptide binding]; other site 1001585008535 Walker B motif; other site 1001585008536 TrbC/VIRB2 family; Region: TrbC; cl01583 1001585008537 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 1001585008538 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 1001585008539 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1001585008540 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585008541 Walker B; other site 1001585008542 D-loop; other site 1001585008543 H-loop/switch region; other site 1001585008544 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 1001585008545 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 1001585008546 VirB8 protein; Region: VirB8; cl01500 1001585008547 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1001585008548 VirB7 interaction site; other site 1001585008549 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 1001585008550 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 1001585008551 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1001585008552 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1001585008553 HipA N-terminal domain; Region: Couple_hipA; cl11853 1001585008554 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1001585008555 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1001585008556 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1001585008557 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 1001585008558 active site 1001585008559 DNA binding site [nucleotide binding] 1001585008560 Int/Topo IB signature motif; other site 1001585008561 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1001585008562 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1001585008563 DNA binding residues [nucleotide binding] 1001585008564 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 1001585008565 IHF dimer interface [polypeptide binding]; other site 1001585008566 IHF - DNA interface [nucleotide binding]; other site 1001585008567 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1001585008568 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 1001585008569 putative tRNA-binding site [nucleotide binding]; other site 1001585008570 B3/4 domain; Region: B3_4; cl11458 1001585008571 tRNA synthetase B5 domain; Region: B5; cl08394 1001585008572 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 1001585008573 dimer interface [polypeptide binding]; other site 1001585008574 motif 1; other site 1001585008575 motif 3; other site 1001585008576 motif 2; other site 1001585008577 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 1001585008578 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1001585008579 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1001585008580 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 1001585008581 dimer interface [polypeptide binding]; other site 1001585008582 motif 1; other site 1001585008583 active site 1001585008584 motif 2; other site 1001585008585 motif 3; other site 1001585008586 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1001585008587 23S rRNA binding site [nucleotide binding]; other site 1001585008588 L21 binding site [polypeptide binding]; other site 1001585008589 L13 binding site [polypeptide binding]; other site 1001585008590 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 1001585008591 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1001585008592 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1001585008593 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1001585008594 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1001585008595 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 1001585008596 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 1001585008597 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 1001585008598 active site 1001585008599 dimer interface [polypeptide binding]; other site 1001585008600 motif 1; other site 1001585008601 motif 2; other site 1001585008602 motif 3; other site 1001585008603 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 1001585008604 anticodon binding site; other site 1001585008605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585008606 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1001585008607 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 1001585008608 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 bacteriocins; Region: Peptidase_C39A; cd02549 1001585008609 putative active site [active] 1001585008610 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 1001585008611 PAS domain S-box; Region: sensory_box; TIGR00229 1001585008612 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1001585008613 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 1001585008614 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585008615 ATP binding site [chemical binding]; other site 1001585008616 Mg2+ binding site [ion binding]; other site 1001585008617 G-X-G motif; other site 1001585008618 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585008619 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585008620 active site 1001585008621 phosphorylation site [posttranslational modification] 1001585008622 intermolecular recognition site; other site 1001585008623 dimerization interface [polypeptide binding]; other site 1001585008624 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 1001585008625 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1001585008626 putative active site [active] 1001585008627 metal binding site [ion binding]; metal-binding site 1001585008628 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1001585008629 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585008630 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1001585008631 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 1001585008632 FeS/SAM binding site; other site 1001585008633 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 1001585008634 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 1001585008635 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; cl15243 1001585008636 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1001585008637 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1001585008638 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1001585008639 NAD(P) binding site [chemical binding]; other site 1001585008640 catalytic residues [active] 1001585008641 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1001585008642 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 1001585008643 dimer interface [polypeptide binding]; other site 1001585008644 Trp docking motif [polypeptide binding]; other site 1001585008645 active site 1001585008646 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1001585008647 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1001585008648 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1001585008649 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 1001585008650 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 1001585008651 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; cl15306 1001585008652 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585008653 substrate binding pocket [chemical binding]; other site 1001585008654 membrane-bound complex binding site; other site 1001585008655 hinge residues; other site 1001585008656 Cytochrome c; Region: Cytochrom_C; cl11414 1001585008657 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1001585008658 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 1001585008659 dimer interface [polypeptide binding]; other site 1001585008660 Trp docking motif [polypeptide binding]; other site 1001585008661 active site 1001585008662 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1001585008663 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1001585008664 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1001585008665 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1001585008666 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1001585008667 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 1001585008668 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1001585008669 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1001585008670 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585008671 active site 1001585008672 phosphorylation site [posttranslational modification] 1001585008673 intermolecular recognition site; other site 1001585008674 dimerization interface [polypeptide binding]; other site 1001585008675 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 1001585008676 DNA binding residues [nucleotide binding] 1001585008677 dimerization interface [polypeptide binding]; other site 1001585008678 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 1001585008679 Histidine kinase; Region: HisKA_3; pfam07730 1001585008680 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1001585008681 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1001585008682 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 1001585008683 ligand binding site [chemical binding]; other site 1001585008684 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1001585008685 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1001585008686 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1001585008687 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 1001585008688 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585008689 Walker A/P-loop; other site 1001585008690 ATP binding site [chemical binding]; other site 1001585008691 Q-loop/lid; other site 1001585008692 ABC transporter signature motif; other site 1001585008693 Walker B; other site 1001585008694 D-loop; other site 1001585008695 H-loop/switch region; other site 1001585008696 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1001585008697 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 1001585008698 active site residue [active] 1001585008699 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1001585008700 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585008701 active site 1001585008702 phosphorylation site [posttranslational modification] 1001585008703 intermolecular recognition site; other site 1001585008704 dimerization interface [polypeptide binding]; other site 1001585008705 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 1001585008706 DNA binding residues [nucleotide binding] 1001585008707 dimerization interface [polypeptide binding]; other site 1001585008708 putative acetyltransferase; Provisional; Region: PRK03624 1001585008709 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585008710 Coenzyme A binding pocket [chemical binding]; other site 1001585008711 PAS fold; Region: PAS_7; pfam12860 1001585008712 PAS fold; Region: PAS_7; pfam12860 1001585008713 PAS fold; Region: PAS_4; pfam08448 1001585008714 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1001585008715 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585008716 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 1001585008717 dimer interface [polypeptide binding]; other site 1001585008718 phosphorylation site [posttranslational modification] 1001585008719 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585008720 ATP binding site [chemical binding]; other site 1001585008721 Mg2+ binding site [ion binding]; other site 1001585008722 G-X-G motif; other site 1001585008723 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1001585008724 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585008725 active site 1001585008726 phosphorylation site [posttranslational modification] 1001585008727 intermolecular recognition site; other site 1001585008728 dimerization interface [polypeptide binding]; other site 1001585008729 Uncharacterized conserved protein [Function unknown]; Region: COG3287 1001585008730 FIST N domain; Region: FIST; cl10701 1001585008731 FIST C domain; Region: FIST_C; pfam10442 1001585008732 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; cl00284 1001585008733 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 1001585008734 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1001585008735 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1001585008736 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1001585008737 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1001585008738 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 1001585008739 FMN binding site [chemical binding]; other site 1001585008740 active site 1001585008741 catalytic residues [active] 1001585008742 substrate binding site [chemical binding]; other site 1001585008743 Helix-turn-helix domains; Region: HTH; cl00088 1001585008744 putative DNA binding helix; other site 1001585008745 transaldolase-like protein; Provisional; Region: PTZ00411 1001585008746 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1001585008747 active site 1001585008748 dimer interface [polypeptide binding]; other site 1001585008749 catalytic residue [active] 1001585008750 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 1001585008751 anti sigma factor interaction site; other site 1001585008752 regulatory phosphorylation site [posttranslational modification]; other site 1001585008753 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585008754 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585008755 active site 1001585008756 phosphorylation site [posttranslational modification] 1001585008757 intermolecular recognition site; other site 1001585008758 dimerization interface [polypeptide binding]; other site 1001585008759 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 1001585008760 PilZ domain; Region: PilZ; cl01260 1001585008761 VacJ like lipoprotein; Region: VacJ; cl01073 1001585008762 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 1001585008763 active site 1001585008764 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 1001585008765 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 1001585008766 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1001585008767 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 1001585008768 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 1001585008769 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1001585008770 Protein export membrane protein; Region: SecD_SecF; cl14618 1001585008771 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1001585008772 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 1001585008773 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 1001585008774 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1001585008775 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 1001585008776 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585008777 Walker A/P-loop; other site 1001585008778 ATP binding site [chemical binding]; other site 1001585008779 Q-loop/lid; other site 1001585008780 ABC transporter signature motif; other site 1001585008781 Walker B; other site 1001585008782 D-loop; other site 1001585008783 H-loop/switch region; other site 1001585008784 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1001585008785 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 1001585008786 putative C-terminal domain interface [polypeptide binding]; other site 1001585008787 putative GSH binding site (G-site) [chemical binding]; other site 1001585008788 putative dimer interface [polypeptide binding]; other site 1001585008789 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1001585008790 putative N-terminal domain interface [polypeptide binding]; other site 1001585008791 putative dimer interface [polypeptide binding]; other site 1001585008792 putative substrate binding pocket (H-site) [chemical binding]; other site 1001585008793 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 1001585008794 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1001585008795 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1001585008796 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1001585008797 active site 1001585008798 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1001585008799 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1001585008800 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1001585008801 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1001585008802 N-terminal domain interface [polypeptide binding]; other site 1001585008803 dimer interface [polypeptide binding]; other site 1001585008804 substrate binding pocket (H-site) [chemical binding]; other site 1001585008805 GAF domain; Region: GAF; cl15785 1001585008806 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1001585008807 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585008808 Walker A motif; other site 1001585008809 ATP binding site [chemical binding]; other site 1001585008810 Walker B motif; other site 1001585008811 biofilm formation regulator HmsP; Provisional; Region: PRK11829 1001585008812 two component system sensor kinase SsrA; Provisional; Region: PRK15347 1001585008813 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 1001585008814 dimer interface [polypeptide binding]; other site 1001585008815 phosphorylation site [posttranslational modification] 1001585008816 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585008817 ATP binding site [chemical binding]; other site 1001585008818 Mg2+ binding site [ion binding]; other site 1001585008819 G-X-G motif; other site 1001585008820 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585008821 active site 1001585008822 phosphorylation site [posttranslational modification] 1001585008823 intermolecular recognition site; other site 1001585008824 dimerization interface [polypeptide binding]; other site 1001585008825 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1001585008826 Helix-turn-helix domains; Region: HTH; cl00088 1001585008827 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 1001585008828 catalytic residues [active] 1001585008829 dimer interface [polypeptide binding]; other site 1001585008830 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 1001585008831 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585008832 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 1001585008833 multidrug efflux protein; Reviewed; Region: PRK01766 1001585008834 MatE; Region: MatE; cl10513 1001585008835 MatE; Region: MatE; cl10513 1001585008836 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 1001585008837 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 1001585008838 CPxP motif; other site 1001585008839 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1001585008840 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; cl16911 1001585008841 aconitate hydratase; Validated; Region: PRK09277 1001585008842 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1001585008843 substrate binding site [chemical binding]; other site 1001585008844 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1001585008845 ligand binding site [chemical binding]; other site 1001585008846 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 1001585008847 substrate binding site [chemical binding]; other site 1001585008848 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 1001585008849 PAS domain; Region: PAS_9; pfam13426 1001585008850 putative active site [active] 1001585008851 heme pocket [chemical binding]; other site 1001585008852 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585008853 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585008854 dimer interface [polypeptide binding]; other site 1001585008855 putative CheW interface [polypeptide binding]; other site 1001585008856 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1001585008857 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1001585008858 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 1001585008859 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1001585008860 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585008861 NAD(P) binding site [chemical binding]; other site 1001585008862 active site 1001585008863 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1001585008864 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1001585008865 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1001585008866 catalytic triad [active] 1001585008867 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1001585008868 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585008869 NAD(P) binding site [chemical binding]; other site 1001585008870 active site 1001585008871 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585008872 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1001585008873 substrate binding pocket [chemical binding]; other site 1001585008874 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585008875 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1001585008876 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585008877 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585008878 Helix-turn-helix domain; Region: HTH_18; pfam12833 1001585008879 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 1001585008880 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 1001585008881 ScpA/B protein; Region: ScpA_ScpB; cl00598 1001585008882 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1001585008883 active site 1001585008884 HIGH motif; other site 1001585008885 dimer interface [polypeptide binding]; other site 1001585008886 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1001585008887 active site 1001585008888 KMSKS motif; other site 1001585008889 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1001585008890 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1001585008891 YCII-related domain; Region: YCII; cl00999 1001585008892 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 1001585008893 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585008894 active site 1001585008895 phosphorylation site [posttranslational modification] 1001585008896 intermolecular recognition site; other site 1001585008897 dimerization interface [polypeptide binding]; other site 1001585008898 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 1001585008899 DNA binding site [nucleotide binding] 1001585008900 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 1001585008901 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585008902 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 1001585008903 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 1001585008904 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585008905 ATP binding site [chemical binding]; other site 1001585008906 G-X-G motif; other site 1001585008907 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 1001585008908 putative FMN binding site [chemical binding]; other site 1001585008909 Flagellin N-methylase; Region: FliB; cl00497 1001585008910 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1001585008911 Cation transport protein; Region: TrkH; cl10514 1001585008912 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1001585008913 Cation transport protein; Region: TrkH; cl10514 1001585008914 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585008915 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585008916 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585008917 Protein of unknown function (DUF962); Region: DUF962; cl01879 1001585008918 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1001585008919 MASE2 domain; Region: MASE2; pfam05230 1001585008920 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 1001585008921 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1001585008922 cyclase homology domain; Region: CHD; cd07302 1001585008923 nucleotidyl binding site; other site 1001585008924 metal binding site [ion binding]; metal-binding site 1001585008925 dimer interface [polypeptide binding]; other site 1001585008926 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1001585008927 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 1001585008928 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1001585008929 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1001585008930 putative active site [active] 1001585008931 putative metal binding site [ion binding]; other site 1001585008932 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585008933 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585008934 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 1001585008935 dimer interface [polypeptide binding]; other site 1001585008936 putative tRNA-binding site [nucleotide binding]; other site 1001585008937 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1001585008938 EamA-like transporter family; Region: EamA; cl01037 1001585008939 Rdx family; Region: Rdx; cl01407 1001585008940 hypothetical protein; Provisional; Region: PRK10279 1001585008941 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1001585008942 active site 1001585008943 nucleophile elbow; other site 1001585008944 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 1001585008945 Surface antigen; Region: Bac_surface_Ag; cl03097 1001585008946 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 1001585008947 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 1001585008948 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 1001585008949 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1001585008950 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1001585008951 Helix-turn-helix domains; Region: HTH; cl00088 1001585008952 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585008953 metal binding site [ion binding]; metal-binding site 1001585008954 active site 1001585008955 I-site; other site 1001585008956 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1001585008957 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 1001585008958 ATP binding site [chemical binding]; other site 1001585008959 putative Mg++ binding site [ion binding]; other site 1001585008960 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 1001585008961 nucleotide binding region [chemical binding]; other site 1001585008962 ATP-binding site [chemical binding]; other site 1001585008963 RQC domain; Region: RQC; cl09632 1001585008964 HRDC domain; Region: HRDC; cl02578 1001585008965 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 1001585008966 Protein of unknown function (DUF454); Region: DUF454; cl01063 1001585008967 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 1001585008968 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 1001585008969 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585008970 metal binding site [ion binding]; metal-binding site 1001585008971 active site 1001585008972 I-site; other site 1001585008973 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 1001585008974 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 1001585008975 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 1001585008976 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 1001585008977 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 1001585008978 metal ion-dependent adhesion site (MIDAS); other site 1001585008979 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1001585008980 type 1 secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 1001585008981 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1001585008982 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 bacteriocins; Region: Peptidase_C39_likeD; cd02421 1001585008983 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1001585008984 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1001585008985 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 1001585008986 Walker A/P-loop; other site 1001585008987 ATP binding site [chemical binding]; other site 1001585008988 Q-loop/lid; other site 1001585008989 ABC transporter signature motif; other site 1001585008990 Walker B; other site 1001585008991 D-loop; other site 1001585008992 H-loop/switch region; other site 1001585008993 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1001585008994 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 1001585008995 DTW domain; Region: DTW; cl01221 1001585008996 PAS domain; Region: PAS_9; pfam13426 1001585008997 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 1001585008998 putative active site [active] 1001585008999 heme pocket [chemical binding]; other site 1001585009000 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585009001 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585009002 dimer interface [polypeptide binding]; other site 1001585009003 putative CheW interface [polypeptide binding]; other site 1001585009004 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585009005 Helix-turn-helix domains; Region: HTH; cl00088 1001585009006 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 1001585009007 dimerization interface [polypeptide binding]; other site 1001585009008 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1001585009009 oxidase reductase; Provisional; Region: PTZ00273 1001585009010 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 1001585009011 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 1001585009012 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 1001585009013 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585009014 substrate binding pocket [chemical binding]; other site 1001585009015 membrane-bound complex binding site; other site 1001585009016 hinge residues; other site 1001585009017 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 1001585009018 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1001585009019 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 1001585009020 Walker A/P-loop; other site 1001585009021 ATP binding site [chemical binding]; other site 1001585009022 Q-loop/lid; other site 1001585009023 ABC transporter signature motif; other site 1001585009024 Walker B; other site 1001585009025 D-loop; other site 1001585009026 H-loop/switch region; other site 1001585009027 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 1001585009028 intersubunit interface [polypeptide binding]; other site 1001585009029 active site 1001585009030 Zn2+ binding site [ion binding]; other site 1001585009031 Arginase family; Region: Arginase; cl00306 1001585009032 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 1001585009033 Nucleoside recognition; Region: Gate; cl00486 1001585009034 hypothetical protein; Provisional; Region: PRK07524 1001585009035 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1001585009036 PYR/PP interface [polypeptide binding]; other site 1001585009037 dimer interface [polypeptide binding]; other site 1001585009038 TPP binding site [chemical binding]; other site 1001585009039 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 1001585009040 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 1001585009041 TPP-binding site [chemical binding]; other site 1001585009042 Sodium:solute symporter family; Region: SSF; cl00456 1001585009043 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1001585009044 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 1001585009045 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1001585009046 EamA-like transporter family; Region: EamA; cl01037 1001585009047 EamA-like transporter family; Region: EamA; cl01037 1001585009048 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1001585009049 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 1001585009050 dimer interface [polypeptide binding]; other site 1001585009051 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585009052 catalytic residue [active] 1001585009053 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1001585009054 rRNA metabolism protein, SBDS family; Region: RNA_SBDS; TIGR00291 1001585009055 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1001585009056 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 1001585009057 catalytic residues [active] 1001585009058 catalytic nucleophile [active] 1001585009059 Helix-turn-helix domains; Region: HTH; cl00088 1001585009060 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 1001585009061 DNA binding site [nucleotide binding] 1001585009062 Int/Topo IB signature motif; other site 1001585009063 active site 1001585009064 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1001585009065 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585009066 Walker A motif; other site 1001585009067 ATP binding site [chemical binding]; other site 1001585009068 Walker B motif; other site 1001585009069 arginine finger; other site 1001585009070 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 1001585009071 Protein of unknown function (DUF2167); Region: DUF2167; cl01938 1001585009072 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 1001585009073 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1001585009074 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 1001585009075 putative active site [active] 1001585009076 putative dimer interface [polypeptide binding]; other site 1001585009077 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 1001585009078 nucleotide binding site/active site [active] 1001585009079 HIT family signature motif; other site 1001585009080 catalytic residue [active] 1001585009081 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1001585009082 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585009083 hypothetical protein; Provisional; Region: PRK11295 1001585009084 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 1001585009085 hypothetical protein; Provisional; Region: PRK11295 1001585009086 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 1001585009087 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1001585009088 Flagellin N-methylase; Region: FliB; cl00497 1001585009089 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1001585009090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585009091 YcgL domain; Region: YcgL; cl01189 1001585009092 ribonuclease D; Region: rnd; TIGR01388 1001585009093 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1001585009094 catalytic site [active] 1001585009095 putative active site [active] 1001585009096 putative substrate binding site [chemical binding]; other site 1001585009097 HRDC domain; Region: HRDC; cl02578 1001585009098 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1001585009099 Strictosidine synthase; Region: Str_synth; pfam03088 1001585009100 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; cl16911 1001585009101 glutamate dehydrogenase; Provisional; Region: PRK09414 1001585009102 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1001585009103 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1001585009104 NAD(P) binding site [chemical binding]; other site 1001585009105 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1001585009106 putative acyl-acceptor binding pocket; other site 1001585009107 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1001585009108 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 1001585009109 active site residue [active] 1001585009110 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 1001585009111 active site residue [active] 1001585009112 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 1001585009113 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1001585009114 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585009115 active site 1001585009116 phosphorylation site [posttranslational modification] 1001585009117 intermolecular recognition site; other site 1001585009118 dimerization interface [polypeptide binding]; other site 1001585009119 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 1001585009120 DNA binding residues [nucleotide binding] 1001585009121 dimerization interface [polypeptide binding]; other site 1001585009122 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 1001585009123 phosphorylation site [posttranslational modification] 1001585009124 dimer interface [polypeptide binding]; other site 1001585009125 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585009126 ATP binding site [chemical binding]; other site 1001585009127 G-X-G motif; other site 1001585009128 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585009129 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585009130 active site 1001585009131 phosphorylation site [posttranslational modification] 1001585009132 intermolecular recognition site; other site 1001585009133 dimerization interface [polypeptide binding]; other site 1001585009134 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 1001585009135 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1001585009136 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 1001585009137 catalytic residues [active] 1001585009138 dimer interface [polypeptide binding]; other site 1001585009139 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 1001585009140 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 1001585009141 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1001585009142 Helix-turn-helix domains; Region: HTH; cl00088 1001585009143 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 1001585009144 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 1001585009145 catalytic core [active] 1001585009146 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1001585009147 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1001585009148 putative dimer interface [polypeptide binding]; other site 1001585009149 active site pocket [active] 1001585009150 putative cataytic base [active] 1001585009151 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 1001585009152 homotrimer interface [polypeptide binding]; other site 1001585009153 Walker A motif; other site 1001585009154 GTP binding site [chemical binding]; other site 1001585009155 Walker B motif; other site 1001585009156 cobyric acid synthase; Provisional; Region: PRK00784 1001585009157 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585009158 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585009159 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1001585009160 catalytic triad [active] 1001585009161 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1001585009162 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 1001585009163 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1001585009164 catalytic residue [active] 1001585009165 CobD/Cbib protein; Region: CobD_Cbib; cl00561 1001585009166 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 1001585009167 putative FMN binding site [chemical binding]; other site 1001585009168 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1001585009169 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585009170 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1001585009171 catalytic triad [active] 1001585009172 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585009173 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1001585009174 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 1001585009175 homodimer interface [polypeptide binding]; other site 1001585009176 Walker A motif; other site 1001585009177 ATP binding site [chemical binding]; other site 1001585009178 hydroxycobalamin binding site [chemical binding]; other site 1001585009179 Walker B motif; other site 1001585009180 NlpC/P60 family; Region: NLPC_P60; cl11438 1001585009181 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 1001585009182 NlpC/P60 family; Region: NLPC_P60; cl11438 1001585009183 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1001585009184 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 1001585009185 dimer interface [polypeptide binding]; other site 1001585009186 putative functional site; other site 1001585009187 putative MPT binding site; other site 1001585009188 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 1001585009189 MPT binding site; other site 1001585009190 trimer interface [polypeptide binding]; other site 1001585009191 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1001585009192 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1001585009193 GTP binding site; other site 1001585009194 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1001585009195 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1001585009196 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585009197 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; cl09210 1001585009198 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 1001585009199 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1001585009200 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 1001585009201 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 1001585009202 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1001585009203 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1001585009204 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1001585009205 synthetase active site [active] 1001585009206 NTP binding site [chemical binding]; other site 1001585009207 metal binding site [ion binding]; metal-binding site 1001585009208 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 1001585009209 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1001585009210 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1001585009211 TRAM domain; Region: TRAM; cl01282 1001585009212 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; cl16911 1001585009213 cysteine synthase B; Region: cysM; TIGR01138 1001585009214 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 1001585009215 dimer interface [polypeptide binding]; other site 1001585009216 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585009217 catalytic residue [active] 1001585009218 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1001585009219 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 1001585009220 putative ligand binding residues [chemical binding]; other site 1001585009221 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 1001585009222 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 1001585009223 dimer interface [polypeptide binding]; other site 1001585009224 phosphorylation site [posttranslational modification] 1001585009225 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585009226 ATP binding site [chemical binding]; other site 1001585009227 Mg2+ binding site [ion binding]; other site 1001585009228 G-X-G motif; other site 1001585009229 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1001585009230 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585009231 active site 1001585009232 phosphorylation site [posttranslational modification] 1001585009233 intermolecular recognition site; other site 1001585009234 dimerization interface [polypeptide binding]; other site 1001585009235 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 1001585009236 DNA binding site [nucleotide binding] 1001585009237 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 1001585009238 dimerization interface [polypeptide binding]; other site 1001585009239 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 1001585009240 dimer interface [polypeptide binding]; other site 1001585009241 phosphorylation site [posttranslational modification] 1001585009242 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585009243 ATP binding site [chemical binding]; other site 1001585009244 Mg2+ binding site [ion binding]; other site 1001585009245 G-X-G motif; other site 1001585009246 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585009247 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585009248 active site 1001585009249 phosphorylation site [posttranslational modification] 1001585009250 intermolecular recognition site; other site 1001585009251 dimerization interface [polypeptide binding]; other site 1001585009252 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 1001585009253 META domain; Region: META; cl01245 1001585009254 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1001585009255 active site 1001585009256 DNA polymerase IV; Validated; Region: PRK02406 1001585009257 DNA binding site [nucleotide binding] 1001585009258 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 1001585009259 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1001585009260 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1001585009261 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 1001585009262 FeS/SAM binding site; other site 1001585009263 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1001585009264 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 1001585009265 RNA binding surface [nucleotide binding]; other site 1001585009266 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1001585009267 active site 1001585009268 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1001585009269 homodimer interaction site [polypeptide binding]; other site 1001585009270 cofactor binding site; other site 1001585009271 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585009272 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 1001585009273 NAD(P) binding site [chemical binding]; other site 1001585009274 active site 1001585009275 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1001585009276 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 1001585009277 dimerization interface [polypeptide binding]; other site 1001585009278 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585009279 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585009280 dimer interface [polypeptide binding]; other site 1001585009281 putative CheW interface [polypeptide binding]; other site 1001585009282 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 1001585009283 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 1001585009284 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1001585009285 C-terminal domain interface [polypeptide binding]; other site 1001585009286 GSH binding site (G-site) [chemical binding]; other site 1001585009287 putative dimer interface [polypeptide binding]; other site 1001585009288 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1001585009289 dimer interface [polypeptide binding]; other site 1001585009290 N-terminal domain interface [polypeptide binding]; other site 1001585009291 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1001585009292 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 1001585009293 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1001585009294 Cupin domain; Region: Cupin_2; cl09118 1001585009295 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1001585009296 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1001585009297 dimer interface [polypeptide binding]; other site 1001585009298 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1001585009299 active site 1001585009300 Fe binding site [ion binding]; other site 1001585009301 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1001585009302 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1001585009303 conserved cys residue [active] 1001585009304 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585009305 Helix-turn-helix domains; Region: HTH; cl00088 1001585009306 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 1001585009307 dimerization interface [polypeptide binding]; other site 1001585009308 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1001585009309 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1001585009310 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585009311 Walker A/P-loop; other site 1001585009312 ATP binding site [chemical binding]; other site 1001585009313 Q-loop/lid; other site 1001585009314 ABC transporter signature motif; other site 1001585009315 Walker B; other site 1001585009316 D-loop; other site 1001585009317 H-loop/switch region; other site 1001585009318 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 1001585009319 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 1001585009320 catalytic residues [active] 1001585009321 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 1001585009322 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1001585009323 active site residue [active] 1001585009324 BolA-like protein; Region: BolA; cl00386 1001585009325 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 1001585009326 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 1001585009327 fumarate hydratase; Provisional; Region: PRK12425 1001585009328 Class II fumarases; Region: Fumarase_classII; cd01362 1001585009329 active site 1001585009330 tetramer interface [polypeptide binding]; other site 1001585009331 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1001585009332 EamA-like transporter family; Region: EamA; cl01037 1001585009333 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1001585009334 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585009335 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1001585009336 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 1001585009337 THF binding site; other site 1001585009338 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 1001585009339 substrate binding site [chemical binding]; other site 1001585009340 THF binding site; other site 1001585009341 zinc-binding site [ion binding]; other site 1001585009342 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1001585009343 Helix-turn-helix domains; Region: HTH; cl00088 1001585009344 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 1001585009345 putative dimerization interface [polypeptide binding]; other site 1001585009346 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585009347 Helix-turn-helix domains; Region: HTH; cl00088 1001585009348 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1001585009349 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 1001585009350 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1001585009351 Protein export membrane protein; Region: SecD_SecF; cl14618 1001585009352 haemagglutination activity domain; Region: Haemagg_act; cl05436 1001585009353 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1001585009354 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 1001585009355 Surface antigen; Region: Bac_surface_Ag; cl03097 1001585009356 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 1001585009357 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1001585009358 N-terminal plug; other site 1001585009359 ligand-binding site [chemical binding]; other site 1001585009360 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1001585009361 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1001585009362 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585009363 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 1001585009364 dimer interface [polypeptide binding]; other site 1001585009365 phosphorylation site [posttranslational modification] 1001585009366 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585009367 ATP binding site [chemical binding]; other site 1001585009368 Mg2+ binding site [ion binding]; other site 1001585009369 G-X-G motif; other site 1001585009370 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585009371 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585009372 active site 1001585009373 phosphorylation site [posttranslational modification] 1001585009374 intermolecular recognition site; other site 1001585009375 dimerization interface [polypeptide binding]; other site 1001585009376 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585009377 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585009378 active site 1001585009379 phosphorylation site [posttranslational modification] 1001585009380 intermolecular recognition site; other site 1001585009381 dimerization interface [polypeptide binding]; other site 1001585009382 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585009383 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585009384 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585009385 Helix-turn-helix domains; Region: HTH; cl00088 1001585009386 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 1001585009387 dimerization interface [polypeptide binding]; other site 1001585009388 putative S-transferase; Provisional; Region: PRK11752 1001585009389 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 1001585009390 C-terminal domain interface [polypeptide binding]; other site 1001585009391 GSH binding site (G-site) [chemical binding]; other site 1001585009392 dimer interface [polypeptide binding]; other site 1001585009393 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 1001585009394 dimer interface [polypeptide binding]; other site 1001585009395 N-terminal domain interface [polypeptide binding]; other site 1001585009396 active site 1001585009397 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 1001585009398 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585009399 integrase; Provisional; Region: int; PHA02601 1001585009400 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 1001585009401 active site 1001585009402 DNA binding site [nucleotide binding] 1001585009403 Int/Topo IB signature motif; other site 1001585009404 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 1001585009405 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1001585009406 ATP binding site [chemical binding]; other site 1001585009407 active site 1001585009408 substrate binding site [chemical binding]; other site 1001585009409 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1001585009410 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1001585009411 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1001585009412 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1001585009413 dimer interface [polypeptide binding]; other site 1001585009414 active site 1001585009415 catalytic residue [active] 1001585009416 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1001585009417 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1001585009418 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1001585009419 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 1001585009420 catalytic triad [active] 1001585009421 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1001585009422 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 1001585009423 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 1001585009424 CPxP motif; other site 1001585009425 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1001585009426 Peptidase family M48; Region: Peptidase_M48; cl12018 1001585009427 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1001585009428 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 1001585009429 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1001585009430 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585009431 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585009432 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585009433 Helix-turn-helix domains; Region: HTH; cl00088 1001585009434 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 1001585009435 dimerization interface [polypeptide binding]; other site 1001585009436 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585009437 chromosome segregation protein; Provisional; Region: PRK01156 1001585009438 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1001585009439 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 1001585009440 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585009441 dimer interface [polypeptide binding]; other site 1001585009442 putative CheW interface [polypeptide binding]; other site 1001585009443 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585009444 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585009445 LamB/YcsF family; Region: LamB_YcsF; cl00664 1001585009446 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1001585009447 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 1001585009448 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 1001585009449 MoxR-like ATPases [General function prediction only]; Region: COG0714 1001585009450 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585009451 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1001585009452 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 1001585009453 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 1001585009454 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 1001585009455 metal ion-dependent adhesion site (MIDAS); other site 1001585009456 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 1001585009457 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 1001585009458 TPR motif; other site 1001585009459 binding surface 1001585009460 transcription termination factor Rho; Provisional; Region: PRK12678 1001585009461 Oxygen tolerance; Region: BatD; pfam13584 1001585009462 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1001585009463 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1001585009464 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1001585009465 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1001585009466 aminopeptidase N; Provisional; Region: pepN; PRK14015 1001585009467 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1001585009468 active site 1001585009469 Zn binding site [ion binding]; other site 1001585009470 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 1001585009471 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 1001585009472 Rhomboid family; Region: Rhomboid; cl11446 1001585009473 Pseudomonas aeruginosa PA3087 and related proteins, metallophosphatase domain; Region: MPP_PA3087; cd07413 1001585009474 active site 1001585009475 metal binding site [ion binding]; metal-binding site 1001585009476 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 1001585009477 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 1001585009478 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 1001585009479 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 1001585009480 ligand binding site [chemical binding]; other site 1001585009481 flexible hinge region; other site 1001585009482 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 1001585009483 ligand binding site [chemical binding]; other site 1001585009484 flexible hinge region; other site 1001585009485 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 1001585009486 active site residue [active] 1001585009487 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 1001585009488 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 1001585009489 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1001585009490 NMT1-like family; Region: NMT1_2; cl15260 1001585009491 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 1001585009492 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1001585009493 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 1001585009494 active site 1001585009495 FMN binding site [chemical binding]; other site 1001585009496 2,4-decadienoyl-CoA binding site; other site 1001585009497 catalytic residue [active] 1001585009498 4Fe-4S cluster binding site [ion binding]; other site 1001585009499 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1001585009500 active site 1001585009501 catalytic triad [active] 1001585009502 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585009503 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585009504 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585009505 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1001585009506 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 1001585009507 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 1001585009508 active site 1001585009509 dimer interface [polypeptide binding]; other site 1001585009510 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 1001585009511 Ligand Binding Site [chemical binding]; other site 1001585009512 Molecular Tunnel; other site 1001585009513 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 1001585009514 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1001585009515 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1001585009516 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1001585009517 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 1001585009518 putative oligomer interface [polypeptide binding]; other site 1001585009519 putative active site [active] 1001585009520 metal binding site [ion binding]; metal-binding site 1001585009521 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1001585009522 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1001585009523 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585009524 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 1001585009525 dimer interface [polypeptide binding]; other site 1001585009526 phosphorylation site [posttranslational modification] 1001585009527 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585009528 ATP binding site [chemical binding]; other site 1001585009529 Mg2+ binding site [ion binding]; other site 1001585009530 G-X-G motif; other site 1001585009531 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585009532 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585009533 active site 1001585009534 phosphorylation site [posttranslational modification] 1001585009535 intermolecular recognition site; other site 1001585009536 dimerization interface [polypeptide binding]; other site 1001585009537 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 1001585009538 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 1001585009539 NeuB family; Region: NeuB; cl00496 1001585009540 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1001585009541 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1001585009542 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 1001585009543 Ligand Binding Site [chemical binding]; other site 1001585009544 DNA-J related protein; Region: DNAJ_related; pfam12339 1001585009545 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; cl02542 1001585009546 Yip1 domain; Region: Yip1; cl12048 1001585009547 Yip1 domain; Region: Yip1; cl12048 1001585009548 hypothetical protein; Provisional; Region: PRK04860 1001585009549 SprT homologues; Region: SprT; cl01182 1001585009550 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 1001585009551 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1001585009552 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1001585009553 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1001585009554 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585009555 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585009556 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585009557 active site 1001585009558 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585009559 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585009560 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585009561 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1001585009562 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 1001585009563 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585009564 ATP binding site [chemical binding]; other site 1001585009565 Mg2+ binding site [ion binding]; other site 1001585009566 G-X-G motif; other site 1001585009567 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 1001585009568 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585009569 active site 1001585009570 phosphorylation site [posttranslational modification] 1001585009571 intermolecular recognition site; other site 1001585009572 dimerization interface [polypeptide binding]; other site 1001585009573 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 1001585009574 DNA binding site [nucleotide binding] 1001585009575 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 1001585009576 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 1001585009577 NapD protein; Region: NapD; cl01163 1001585009578 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1001585009579 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 1001585009580 [4Fe-4S] binding site [ion binding]; other site 1001585009581 molybdopterin cofactor binding site; other site 1001585009582 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 1001585009583 molybdopterin cofactor binding site; other site 1001585009584 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 1001585009585 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 1001585009586 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 1001585009587 catalytic residues [active] 1001585009588 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1001585009589 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 1001585009590 ArsC family; Region: ArsC; pfam03960 1001585009591 catalytic residues [active] 1001585009592 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1001585009593 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 1001585009594 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585009595 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585009596 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 1001585009597 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1001585009598 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 1001585009599 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 1001585009600 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1001585009601 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 1001585009602 dimerization interface [polypeptide binding]; other site 1001585009603 putative ATP binding site [chemical binding]; other site 1001585009604 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1001585009605 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1001585009606 active site 1001585009607 substrate binding site [chemical binding]; other site 1001585009608 cosubstrate binding site; other site 1001585009609 catalytic site [active] 1001585009610 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1001585009611 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1001585009612 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 1001585009613 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 1001585009614 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 1001585009615 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 1001585009616 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1001585009617 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1001585009618 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 1001585009619 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 1001585009620 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1001585009621 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1001585009622 Protein with unknown function (DUF469); Region: DUF469; cl01237 1001585009623 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1001585009624 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 1001585009625 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1001585009626 THUMP domain; Region: THUMP; cl12076 1001585009627 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; cl16911 1001585009628 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 1001585009629 S-adenosylmethionine binding site [chemical binding]; other site 1001585009630 Ribosome modulation factor; Region: RMF; cl01207 1001585009631 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 1001585009632 quinone interaction residues [chemical binding]; other site 1001585009633 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 1001585009634 active site 1001585009635 catalytic residues [active] 1001585009636 FMN binding site [chemical binding]; other site 1001585009637 substrate binding site [chemical binding]; other site 1001585009638 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 1001585009639 RecX family; Region: RecX; cl00936 1001585009640 recombinase A; Provisional; Region: recA; PRK09354 1001585009641 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 1001585009642 hexamer interface [polypeptide binding]; other site 1001585009643 Walker A motif; other site 1001585009644 ATP binding site [chemical binding]; other site 1001585009645 Walker B motif; other site 1001585009646 Competence-damaged protein; Region: CinA; cl00666 1001585009647 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1001585009648 MutS domain I; Region: MutS_I; pfam01624 1001585009649 MutS domain II; Region: MutS_II; pfam05188 1001585009650 MutS family domain IV; Region: MutS_IV; pfam05190 1001585009651 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 1001585009652 Walker A/P-loop; other site 1001585009653 ATP binding site [chemical binding]; other site 1001585009654 Q-loop/lid; other site 1001585009655 ABC transporter signature motif; other site 1001585009656 Walker B; other site 1001585009657 D-loop; other site 1001585009658 H-loop/switch region; other site 1001585009659 Ferredoxin [Energy production and conversion]; Region: COG1146 1001585009660 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1001585009661 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 1001585009662 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1001585009663 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585009664 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1001585009665 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 1001585009666 DNA binding residues [nucleotide binding] 1001585009667 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 1001585009668 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 1001585009669 putative peptidoglycan binding site; other site 1001585009670 Domain of unknown function (DUF368); Region: DUF368; cl00893 1001585009671 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1001585009672 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 1001585009673 S-adenosylmethionine binding site [chemical binding]; other site 1001585009674 Survival protein SurE; Region: SurE; cl00448 1001585009675 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1001585009676 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1001585009677 Permutation of conserved domain; other site 1001585009678 active site 1001585009679 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1001585009680 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 1001585009681 homotrimer interaction site [polypeptide binding]; other site 1001585009682 zinc binding site [ion binding]; other site 1001585009683 CDP-binding sites; other site 1001585009684 Predicted esterase [General function prediction only]; Region: COG0627 1001585009685 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585009686 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1001585009687 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1001585009688 substrate binding site [chemical binding]; other site 1001585009689 catalytic Zn binding site [ion binding]; other site 1001585009690 NAD binding site [chemical binding]; other site 1001585009691 structural Zn binding site [ion binding]; other site 1001585009692 dimer interface [polypeptide binding]; other site 1001585009693 transcriptional activator TtdR; Provisional; Region: PRK09801 1001585009694 Helix-turn-helix domains; Region: HTH; cl00088 1001585009695 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 1001585009696 putative effector binding pocket; other site 1001585009697 putative dimerization interface [polypeptide binding]; other site 1001585009698 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 1001585009699 30S subunit binding site; other site 1001585009700 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1001585009701 substrate binding site; other site 1001585009702 dimer interface; other site 1001585009703 Septum formation initiator; Region: DivIC; cl11433 1001585009704 enolase; Provisional; Region: eno; PRK00077 1001585009705 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 1001585009706 dimer interface [polypeptide binding]; other site 1001585009707 metal binding site [ion binding]; metal-binding site 1001585009708 substrate binding pocket [chemical binding]; other site 1001585009709 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1001585009710 NeuB family; Region: NeuB; cl00496 1001585009711 CTP synthetase; Validated; Region: pyrG; PRK05380 1001585009712 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 1001585009713 Catalytic site [active] 1001585009714 active site 1001585009715 UTP binding site [chemical binding]; other site 1001585009716 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1001585009717 active site 1001585009718 putative oxyanion hole; other site 1001585009719 catalytic triad [active] 1001585009720 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1001585009721 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 1001585009722 Ligand Binding Site [chemical binding]; other site 1001585009723 TilS substrate binding domain; Region: TilS; pfam09179 1001585009724 B3/4 domain; Region: B3_4; cl11458 1001585009725 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 1001585009726 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1001585009727 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1001585009728 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 1001585009729 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 1001585009730 generic binding surface II; other site 1001585009731 generic binding surface I; other site 1001585009732 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1001585009733 RNA/DNA hybrid binding site [nucleotide binding]; other site 1001585009734 active site 1001585009735 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1001585009736 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1001585009737 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1001585009738 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 1001585009739 active site 1001585009740 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 1001585009741 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1001585009742 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1001585009743 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 1001585009744 trimer interface [polypeptide binding]; other site 1001585009745 active site 1001585009746 UDP-GlcNAc binding site [chemical binding]; other site 1001585009747 lipid binding site [chemical binding]; lipid-binding site 1001585009748 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 1001585009749 periplasmic chaperone; Provisional; Region: PRK10780 1001585009750 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1001585009751 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 1001585009752 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 1001585009753 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 1001585009754 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 1001585009755 Surface antigen; Region: Bac_surface_Ag; cl03097 1001585009756 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 1001585009757 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1001585009758 active site 1001585009759 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 1001585009760 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 1001585009761 protein binding site [polypeptide binding]; other site 1001585009762 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 1001585009763 putative substrate binding region [chemical binding]; other site 1001585009764 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1001585009765 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1001585009766 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1001585009767 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1001585009768 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 1001585009769 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 1001585009770 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 1001585009771 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1001585009772 catalytic residue [active] 1001585009773 putative FPP diphosphate binding site; other site 1001585009774 putative FPP binding hydrophobic cleft; other site 1001585009775 dimer interface [polypeptide binding]; other site 1001585009776 putative IPP diphosphate binding site; other site 1001585009777 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1001585009778 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 1001585009779 hinge region; other site 1001585009780 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 1001585009781 putative nucleotide binding site [chemical binding]; other site 1001585009782 uridine monophosphate binding site [chemical binding]; other site 1001585009783 homohexameric interface [polypeptide binding]; other site 1001585009784 elongation factor Ts; Provisional; Region: tsf; PRK09377 1001585009785 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 1001585009786 Elongation factor TS; Region: EF_TS; pfam00889 1001585009787 Elongation factor TS; Region: EF_TS; pfam00889 1001585009788 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 1001585009789 rRNA interaction site [nucleotide binding]; other site 1001585009790 S8 interaction site; other site 1001585009791 putative laminin-1 binding site; other site 1001585009792 methionine aminopeptidase; Provisional; Region: PRK08671 1001585009793 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 1001585009794 active site 1001585009795 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 1001585009796 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1001585009797 metal binding triad; other site 1001585009798 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1001585009799 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1001585009800 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 1001585009801 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 1001585009802 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 1001585009803 Cache domain; Region: Cache_1; pfam02743 1001585009804 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 1001585009805 dimerization interface [polypeptide binding]; other site 1001585009806 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585009807 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585009808 dimer interface [polypeptide binding]; other site 1001585009809 putative CheW interface [polypeptide binding]; other site 1001585009810 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 1001585009811 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 1001585009812 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585009813 homodimer interface [polypeptide binding]; other site 1001585009814 catalytic residue [active] 1001585009815 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 1001585009816 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 1001585009817 ArsC family; Region: ArsC; pfam03960 1001585009818 putative catalytic residues [active] 1001585009819 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 1001585009820 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 1001585009821 putative trimer interface [polypeptide binding]; other site 1001585009822 putative CoA binding site [chemical binding]; other site 1001585009823 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1001585009824 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 1001585009825 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1001585009826 catalytic residue [active] 1001585009827 Fe-S metabolism associated domain; Region: SufE; cl00951 1001585009828 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 1001585009829 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1001585009830 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1001585009831 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 1001585009832 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585009833 substrate binding pocket [chemical binding]; other site 1001585009834 membrane-bound complex binding site; other site 1001585009835 hinge residues; other site 1001585009836 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 1001585009837 putative ATP binding site [chemical binding]; other site 1001585009838 putative substrate interface [chemical binding]; other site 1001585009839 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1001585009840 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1001585009841 metal binding site [ion binding]; metal-binding site 1001585009842 dimer interface [polypeptide binding]; other site 1001585009843 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1001585009844 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 1001585009845 S-adenosylmethionine binding site [chemical binding]; other site 1001585009846 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 1001585009847 DNA-binding site [nucleotide binding]; DNA binding site 1001585009848 RNA-binding motif; other site 1001585009849 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 1001585009850 ABC-type uncharacterized transport system involved in gliding motility, auxiliary component [Cell motility and secretion]; Region: GldG; COG3225 1001585009851 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1001585009852 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 1001585009853 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 1001585009854 Walker A/P-loop; other site 1001585009855 ATP binding site [chemical binding]; other site 1001585009856 Q-loop/lid; other site 1001585009857 ABC transporter signature motif; other site 1001585009858 Walker B; other site 1001585009859 D-loop; other site 1001585009860 H-loop/switch region; other site 1001585009861 integron integrase; Region: integrase_gron; TIGR02249 1001585009862 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 1001585009863 Int/Topo IB signature motif; other site 1001585009864 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 1001585009865 binding surface 1001585009866 TPR motif; other site 1001585009867 Family of unknown function (DUF695); Region: DUF695; pfam05117 1001585009868 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1001585009869 EamA-like transporter family; Region: EamA; cl01037 1001585009870 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1001585009871 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1001585009872 putative acyl-acceptor binding pocket; other site 1001585009873 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1001585009874 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585009875 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1001585009876 LrgB-like family; Region: LrgB; cl00596 1001585009877 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 1001585009878 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1001585009879 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1001585009880 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1001585009881 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1001585009882 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1001585009883 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 1001585009884 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1001585009885 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 1001585009886 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585009887 DNA-binding site [nucleotide binding]; DNA binding site 1001585009888 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 1001585009889 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585009890 homodimer interface [polypeptide binding]; other site 1001585009891 catalytic residue [active] 1001585009892 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 1001585009893 trimer interface; other site 1001585009894 sugar binding site [chemical binding]; other site 1001585009895 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1001585009896 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 1001585009897 Walker A/P-loop; other site 1001585009898 ATP binding site [chemical binding]; other site 1001585009899 Q-loop/lid; other site 1001585009900 ABC transporter signature motif; other site 1001585009901 Walker B; other site 1001585009902 D-loop; other site 1001585009903 H-loop/switch region; other site 1001585009904 TOBE domain; Region: TOBE_2; cl01440 1001585009905 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1001585009906 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 1001585009907 dimer interface [polypeptide binding]; other site 1001585009908 conserved gate region; other site 1001585009909 putative PBP binding loops; other site 1001585009910 ABC-ATPase subunit interface; other site 1001585009911 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 1001585009912 dimer interface [polypeptide binding]; other site 1001585009913 conserved gate region; other site 1001585009914 putative PBP binding loops; other site 1001585009915 ABC-ATPase subunit interface; other site 1001585009916 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1001585009917 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 1001585009918 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 1001585009919 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1001585009920 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585009921 ATP binding site [chemical binding]; other site 1001585009922 Mg2+ binding site [ion binding]; other site 1001585009923 G-X-G motif; other site 1001585009924 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1001585009925 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585009926 active site 1001585009927 phosphorylation site [posttranslational modification] 1001585009928 intermolecular recognition site; other site 1001585009929 dimerization interface [polypeptide binding]; other site 1001585009930 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 1001585009931 DNA binding site [nucleotide binding] 1001585009932 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 1001585009933 glucokinase, proteobacterial type; Region: glk; TIGR00749 1001585009934 hypothetical protein; Provisional; Region: PRK09126 1001585009935 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585009936 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 1001585009937 Low-spin heme binding site [chemical binding]; other site 1001585009938 Putative water exit pathway; other site 1001585009939 Binuclear center (active site) [active] 1001585009940 Putative proton exit pathway; other site 1001585009941 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; cl00282 1001585009942 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 1001585009943 Bacterial SH3 domain; Region: SH3_3; cl02551 1001585009944 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 1001585009945 transcriptional regulator; Provisional; Region: PRK10632 1001585009946 Helix-turn-helix domains; Region: HTH; cl00088 1001585009947 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 1001585009948 putative effector binding pocket; other site 1001585009949 dimerization interface [polypeptide binding]; other site 1001585009950 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1001585009951 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585009952 NAD(P) binding site [chemical binding]; other site 1001585009953 active site 1001585009954 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 1001585009955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585009956 NAD(P) binding site [chemical binding]; other site 1001585009957 active site 1001585009958 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 1001585009959 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 1001585009960 CHASE3 domain; Region: CHASE3; cl05000 1001585009961 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1001585009962 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 1001585009963 dimerization interface [polypeptide binding]; other site 1001585009964 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585009965 dimer interface [polypeptide binding]; other site 1001585009966 putative CheW interface [polypeptide binding]; other site 1001585009967 acetyl-CoA synthetase; Provisional; Region: PRK00174 1001585009968 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 1001585009969 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585009970 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1001585009971 DctM-like transporters; Region: DctM; pfam06808 1001585009972 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 1001585009973 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1001585009974 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585009975 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585009976 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585009977 Helix-turn-helix domains; Region: HTH; cl00088 1001585009978 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 1001585009979 putative dimerization interface [polypeptide binding]; other site 1001585009980 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1001585009981 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1001585009982 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1001585009983 active site 1001585009984 catalytic residues [active] 1001585009985 metal binding site [ion binding]; metal-binding site 1001585009986 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585009987 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585009988 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; cl09155 1001585009989 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1001585009990 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1001585009991 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1001585009992 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585009993 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585009994 active site 1001585009995 Uncharacterized conserved protein [Function unknown]; Region: COG3777 1001585009996 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 1001585009997 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 1001585009998 active site 2 [active] 1001585009999 active site 1 [active] 1001585010000 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585010001 Helix-turn-helix domains; Region: HTH; cl00088 1001585010002 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 1001585010003 putative dimerization interface [polypeptide binding]; other site 1001585010004 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 1001585010005 nucleoside/Zn binding site; other site 1001585010006 dimer interface [polypeptide binding]; other site 1001585010007 catalytic motif [active] 1001585010008 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1001585010009 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1001585010010 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1001585010011 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585010012 Walker A motif; other site 1001585010013 ATP binding site [chemical binding]; other site 1001585010014 Walker B motif; other site 1001585010015 arginine finger; other site 1001585010016 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 1001585010017 cofactor binding site; other site 1001585010018 metal binding site [ion binding]; metal-binding site 1001585010019 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 1001585010020 aromatic arch; other site 1001585010021 DCoH dimer interaction site [polypeptide binding]; other site 1001585010022 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1001585010023 DCoH tetramer interaction site [polypeptide binding]; other site 1001585010024 substrate binding site [chemical binding]; other site 1001585010025 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1001585010026 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 1001585010027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585010028 homodimer interface [polypeptide binding]; other site 1001585010029 catalytic residue [active] 1001585010030 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 1001585010031 putative MFS family transporter protein; Provisional; Region: PRK03633 1001585010032 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 1001585010033 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 1001585010034 active site 1001585010035 motif I; other site 1001585010036 motif II; other site 1001585010037 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 1001585010038 glucosylglycerol-phosphate synthase; Region: gluc_glyc_Psyn; TIGR02398 1001585010039 active site 1001585010040 homotetramer interface [polypeptide binding]; other site 1001585010041 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1001585010042 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 1001585010043 dimer interface [polypeptide binding]; other site 1001585010044 YCII-related domain; Region: YCII; cl00999 1001585010045 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1001585010046 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 1001585010047 dimerization interface [polypeptide binding]; other site 1001585010048 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585010049 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585010050 dimer interface [polypeptide binding]; other site 1001585010051 putative CheW interface [polypeptide binding]; other site 1001585010052 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1001585010053 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1001585010054 active site 1001585010055 intersubunit interface [polypeptide binding]; other site 1001585010056 catalytic residue [active] 1001585010057 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 1001585010058 putative active site [active] 1001585010059 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1001585010060 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1001585010061 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1001585010062 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1001585010063 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1001585010064 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 1001585010065 putative active site [active] 1001585010066 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1001585010067 Membrane transport protein; Region: Mem_trans; cl09117 1001585010068 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1001585010069 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 1001585010070 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1001585010071 putative acyl-acceptor binding pocket; other site 1001585010072 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 1001585010073 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 1001585010074 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 1001585010075 dimerization interface [polypeptide binding]; other site 1001585010076 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 1001585010077 dimer interface [polypeptide binding]; other site 1001585010078 phosphorylation site [posttranslational modification] 1001585010079 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585010080 ATP binding site [chemical binding]; other site 1001585010081 Mg2+ binding site [ion binding]; other site 1001585010082 G-X-G motif; other site 1001585010083 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1001585010084 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1001585010085 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 1001585010086 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585010087 active site 1001585010088 phosphorylation site [posttranslational modification] 1001585010089 intermolecular recognition site; other site 1001585010090 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 1001585010091 DNA binding site [nucleotide binding] 1001585010092 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 1001585010093 ATP cone domain; Region: ATP-cone; pfam03477 1001585010094 ATP cone domain; Region: ATP-cone; pfam03477 1001585010095 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1001585010096 active site 1001585010097 dimer interface [polypeptide binding]; other site 1001585010098 catalytic residues [active] 1001585010099 effector binding site; other site 1001585010100 R2 peptide binding site; other site 1001585010101 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1001585010102 dimer interface [polypeptide binding]; other site 1001585010103 putative radical transfer pathway; other site 1001585010104 diiron center [ion binding]; other site 1001585010105 tyrosyl radical; other site 1001585010106 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 1001585010107 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585010108 metal binding site [ion binding]; metal-binding site 1001585010109 active site 1001585010110 I-site; other site 1001585010111 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585010112 Coenzyme A binding pocket [chemical binding]; other site 1001585010113 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1001585010114 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1001585010115 FAD binding domain; Region: FAD_binding_4; pfam01565 1001585010116 Helix-turn-helix domains; Region: HTH; cl00088 1001585010117 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1001585010118 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 1001585010119 dimerization interface [polypeptide binding]; other site 1001585010120 substrate binding pocket [chemical binding]; other site 1001585010121 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1001585010122 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 1001585010123 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 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; cl16911 1001585010125 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 1001585010126 PAS domain; Region: PAS_9; pfam13426 1001585010127 putative active site [active] 1001585010128 heme pocket [chemical binding]; other site 1001585010129 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 1001585010130 PAS domain; Region: PAS_9; pfam13426 1001585010131 putative active site [active] 1001585010132 heme pocket [chemical binding]; other site 1001585010133 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585010134 dimer interface [polypeptide binding]; other site 1001585010135 putative CheW interface [polypeptide binding]; other site 1001585010136 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1001585010137 Strictosidine synthase; Region: Str_synth; pfam03088 1001585010138 Cupin domain; Region: Cupin_2; cl09118 1001585010139 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 1001585010140 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585010141 Helix-turn-helix domains; Region: HTH; cl00088 1001585010142 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 1001585010143 putative effector binding pocket; other site 1001585010144 dimerization interface [polypeptide binding]; other site 1001585010145 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cl00178 1001585010146 secondary substrate binding site; other site 1001585010147 primary substrate binding site; other site 1001585010148 inhibition loop; other site 1001585010149 dimerization interface [polypeptide binding]; other site 1001585010150 HDOD domain; Region: HDOD; pfam08668 1001585010151 hypothetical protein; Provisional; Region: PRK10396 1001585010152 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 1001585010153 SEC-C motif; Region: SEC-C; pfam02810 1001585010154 2-isopropylmalate synthase; Validated; Region: PRK03739 1001585010155 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1001585010156 active site 1001585010157 catalytic residues [active] 1001585010158 metal binding site [ion binding]; metal-binding site 1001585010159 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 1001585010160 Helix-turn-helix domain; Region: HTH_18; pfam12833 1001585010161 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1001585010162 Peptidase family U32; Region: Peptidase_U32; cl03113 1001585010163 Collagenase; Region: DUF3656; pfam12392 1001585010164 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585010165 dimer interface [polypeptide binding]; other site 1001585010166 putative CheW interface [polypeptide binding]; other site 1001585010167 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 1001585010168 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 1001585010169 PAS domain; Region: PAS_9; pfam13426 1001585010170 putative active site [active] 1001585010171 heme pocket [chemical binding]; other site 1001585010172 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 1001585010173 PAS domain; Region: PAS_9; pfam13426 1001585010174 putative active site [active] 1001585010175 heme pocket [chemical binding]; other site 1001585010176 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585010177 dimer interface [polypeptide binding]; other site 1001585010178 putative CheW interface [polypeptide binding]; other site 1001585010179 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1001585010180 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1001585010181 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 1001585010182 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1001585010183 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 1001585010184 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585010185 metal binding site [ion binding]; metal-binding site 1001585010186 active site 1001585010187 I-site; other site 1001585010188 PPIC-type PPIASE domain; Region: Rotamase; cl08278 1001585010189 Cache domain; Region: Cache_1; pfam02743 1001585010190 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585010191 metal binding site [ion binding]; metal-binding site 1001585010192 active site 1001585010193 I-site; other site 1001585010194 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 1001585010195 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1001585010196 EamA-like transporter family; Region: EamA; cl01037 1001585010197 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 1001585010198 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1001585010199 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 1001585010200 Transcriptional regulator; Region: Transcrip_reg; cl00361 1001585010201 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 1001585010202 nudix motif; other site 1001585010203 Protein of unknown function (DUF2025); Region: DUF2025; pfam09634 1001585010204 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585010205 Coenzyme A binding pocket [chemical binding]; other site 1001585010206 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585010207 metal binding site [ion binding]; metal-binding site 1001585010208 active site 1001585010209 I-site; other site 1001585010210 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1001585010211 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 1001585010212 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 1001585010213 Helix-turn-helix domains; Region: HTH; cl00088 1001585010214 DNA-binding site [nucleotide binding]; DNA binding site 1001585010215 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1001585010216 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1001585010217 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 1001585010218 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585010219 substrate binding pocket [chemical binding]; other site 1001585010220 hinge residues; other site 1001585010221 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 1001585010222 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1001585010223 NADP binding site [chemical binding]; other site 1001585010224 dimer interface [polypeptide binding]; other site 1001585010225 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 1001585010226 putative substrate translocation pore; other site 1001585010227 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1001585010228 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1001585010229 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1001585010230 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1001585010231 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1001585010232 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585010233 metal binding site [ion binding]; metal-binding site 1001585010234 active site 1001585010235 I-site; other site 1001585010236 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 1001585010237 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1001585010238 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1001585010239 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585010240 NMT1-like family; Region: NMT1_2; cl15260 1001585010241 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 1001585010242 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1001585010243 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 1001585010244 Walker A/P-loop; other site 1001585010245 ATP binding site [chemical binding]; other site 1001585010246 Q-loop/lid; other site 1001585010247 ABC transporter signature motif; other site 1001585010248 Walker B; other site 1001585010249 D-loop; other site 1001585010250 H-loop/switch region; other site 1001585010251 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 1001585010252 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1001585010253 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 1001585010254 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 1001585010255 dimerization interface [polypeptide binding]; other site 1001585010256 putative DNA binding site [nucleotide binding]; other site 1001585010257 putative Zn2+ binding site [ion binding]; other site 1001585010258 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 1001585010259 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1001585010260 putative NAD(P) binding site [chemical binding]; other site 1001585010261 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 1001585010262 dimer interface [polypeptide binding]; other site 1001585010263 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 1001585010264 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1001585010265 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1001585010266 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585010267 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1001585010268 NAD(P) binding site [chemical binding]; other site 1001585010269 active site 1001585010270 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585010271 Helix-turn-helix domains; Region: HTH; cl00088 1001585010272 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 1001585010273 dimerization interface [polypeptide binding]; other site 1001585010274 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1001585010275 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585010276 NAD(P) binding site [chemical binding]; other site 1001585010277 active site 1001585010278 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1001585010279 classical (c) SDRs; Region: SDR_c; cd05233 1001585010280 NAD(P) binding site [chemical binding]; other site 1001585010281 active site 1001585010282 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585010283 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1001585010284 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1001585010285 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1001585010286 putative NAD(P) binding site [chemical binding]; other site 1001585010287 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1001585010288 Helix-turn-helix domains; Region: HTH; cl00088 1001585010289 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1001585010290 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 1001585010291 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585010292 NAD(P) binding site [chemical binding]; other site 1001585010293 active site 1001585010294 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1001585010295 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585010296 NAD(P) binding site [chemical binding]; other site 1001585010297 active site 1001585010298 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1001585010299 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1001585010300 conserved cys residue [active] 1001585010301 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585010302 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 1001585010303 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1001585010304 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1001585010305 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1001585010306 conserved cys residue [active] 1001585010307 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585010308 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1001585010309 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1001585010310 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 1001585010311 FAD binding pocket [chemical binding]; other site 1001585010312 FAD binding motif [chemical binding]; other site 1001585010313 phosphate binding motif [ion binding]; other site 1001585010314 beta-alpha-beta structure motif; other site 1001585010315 NAD binding pocket [chemical binding]; other site 1001585010316 Heme binding pocket [chemical binding]; other site 1001585010317 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 1001585010318 catalytic loop [active] 1001585010319 iron binding site [ion binding]; other site 1001585010320 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1001585010321 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 1001585010322 putative C-terminal domain interface [polypeptide binding]; other site 1001585010323 putative GSH binding site (G-site) [chemical binding]; other site 1001585010324 putative dimer interface [polypeptide binding]; other site 1001585010325 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 1001585010326 putative N-terminal domain interface [polypeptide binding]; other site 1001585010327 putative dimer interface [polypeptide binding]; other site 1001585010328 putative substrate binding pocket (H-site) [chemical binding]; other site 1001585010329 transcriptional regulator; Provisional; Region: PRK10632 1001585010330 Helix-turn-helix domains; Region: HTH; cl00088 1001585010331 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 1001585010332 putative effector binding pocket; other site 1001585010333 putative dimerization interface [polypeptide binding]; other site 1001585010334 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585010335 Helix-turn-helix domains; Region: HTH; cl00088 1001585010336 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 1001585010337 putative effector binding pocket; other site 1001585010338 putative dimerization interface [polypeptide binding]; other site 1001585010339 LysE type translocator; Region: LysE; cl00565 1001585010340 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 1001585010341 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 1001585010342 dimer interface [polypeptide binding]; other site 1001585010343 active site 1001585010344 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 1001585010345 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1001585010346 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1001585010347 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1001585010348 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; cl16911 1001585010349 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1001585010350 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1001585010351 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1001585010352 Family description; Region: UvrD_C_2; cl15862 1001585010353 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585010354 Helix-turn-helix domains; Region: HTH; cl00088 1001585010355 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 1001585010356 putative effector binding pocket; other site 1001585010357 dimerization interface [polypeptide binding]; other site 1001585010358 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1001585010359 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 1001585010360 putative substrate translocation pore; other site 1001585010361 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 1001585010362 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 1001585010363 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1001585010364 Ligand binding site; other site 1001585010365 DXD motif; other site 1001585010366 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1001585010367 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 1001585010368 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1001585010369 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1001585010370 Fibronectin type III-like domain; Region: Fn3-like; cl15273 1001585010371 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585010372 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585010373 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585010374 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 1001585010375 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 1001585010376 ATP binding site [chemical binding]; other site 1001585010377 putative Mg++ binding site [ion binding]; other site 1001585010378 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 1001585010379 nucleotide binding region [chemical binding]; other site 1001585010380 ATP-binding site [chemical binding]; other site 1001585010381 Phosphate-starvation-inducible E; Region: PsiE; cl01264 1001585010382 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1001585010383 YebG protein; Region: YebG; cl01217 1001585010384 Protein of unknown function, DUF488; Region: DUF488; cl01246 1001585010385 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1001585010386 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1001585010387 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1001585010388 NAD binding site [chemical binding]; other site 1001585010389 Phe binding site; other site 1001585010390 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1001585010391 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1001585010392 PilZ domain; Region: PilZ; cl01260 1001585010393 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1001585010394 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1001585010395 universal stress protein UspE; Provisional; Region: PRK11175 1001585010396 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 1001585010397 Ligand Binding Site [chemical binding]; other site 1001585010398 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 1001585010399 Ligand Binding Site [chemical binding]; other site 1001585010400 pyruvate kinase; Provisional; Region: PRK05826 1001585010401 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; cl09155 1001585010402 domain interfaces; other site 1001585010403 active site 1001585010404 enoyl-CoA hydratase; Provisional; Region: PRK06688 1001585010405 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 1001585010406 substrate binding site [chemical binding]; other site 1001585010407 oxyanion hole (OAH) forming residues; other site 1001585010408 trimer interface [polypeptide binding]; other site 1001585010409 hypothetical protein; Provisional; Region: PRK05713 1001585010410 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 1001585010411 catalytic loop [active] 1001585010412 iron binding site [ion binding]; other site 1001585010413 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 1001585010414 FAD binding pocket [chemical binding]; other site 1001585010415 FAD binding motif [chemical binding]; other site 1001585010416 phosphate binding motif [ion binding]; other site 1001585010417 beta-alpha-beta structure motif; other site 1001585010418 NAD binding pocket [chemical binding]; other site 1001585010419 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585010420 metal binding site [ion binding]; metal-binding site 1001585010421 active site 1001585010422 I-site; other site 1001585010423 putative fumarate hydratase; Provisional; Region: PRK15392 1001585010424 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 1001585010425 Fumarase C-terminus; Region: Fumerase_C; cl00795 1001585010426 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 1001585010427 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1001585010428 catalytic residue [active] 1001585010429 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 1001585010430 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1001585010431 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1001585010432 conserved cys residue [active] 1001585010433 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585010434 Isochorismatase family; Region: Isochorismatase; pfam00857 1001585010435 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 1001585010436 catalytic triad [active] 1001585010437 conserved cis-peptide bond; other site 1001585010438 Predicted ATPase [General function prediction only]; Region: COG1485 1001585010439 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585010440 Walker A/P-loop; other site 1001585010441 ATP binding site [chemical binding]; other site 1001585010442 Q-loop/lid; other site 1001585010443 ABC transporter signature motif; other site 1001585010444 Walker B; other site 1001585010445 D-loop; other site 1001585010446 H-loop/switch region; other site 1001585010447 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1001585010448 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 1001585010449 putative active site [active] 1001585010450 catalytic triad [active] 1001585010451 putative dimer interface [polypeptide binding]; other site 1001585010452 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 1001585010453 Thermostable hemolysin; Region: T_hemolysin; pfam12261 1001585010454 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 1001585010455 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585010456 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 1001585010457 heme binding pocket [chemical binding]; other site 1001585010458 heme ligand [chemical binding]; other site 1001585010459 short chain dehydrogenase; Provisional; Region: PRK09072 1001585010460 classical (c) SDRs; Region: SDR_c; cd05233 1001585010461 NAD(P) binding site [chemical binding]; other site 1001585010462 active site 1001585010463 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 1001585010464 TPR motif; other site 1001585010465 binding surface 1001585010466 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1001585010467 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585010468 active site 1001585010469 phosphorylation site [posttranslational modification] 1001585010470 intermolecular recognition site; other site 1001585010471 dimerization interface [polypeptide binding]; other site 1001585010472 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 1001585010473 DNA binding site [nucleotide binding] 1001585010474 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1001585010475 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 1001585010476 dimer interface [polypeptide binding]; other site 1001585010477 phosphorylation site [posttranslational modification] 1001585010478 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585010479 ATP binding site [chemical binding]; other site 1001585010480 Mg2+ binding site [ion binding]; other site 1001585010481 G-X-G motif; other site 1001585010482 Ribbon-helix-helix domain; Region: RHH_4; cl01775 1001585010483 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1001585010484 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1001585010485 conserved cys residue [active] 1001585010486 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 1001585010487 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1001585010488 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 1001585010489 NAD binding site [chemical binding]; other site 1001585010490 homodimer interface [polypeptide binding]; other site 1001585010491 active site 1001585010492 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 1001585010493 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585010494 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 1001585010495 intersubunit interface [polypeptide binding]; other site 1001585010496 active site 1001585010497 Zn2+ binding site [ion binding]; other site 1001585010498 Protein of unknown function, DUF606; Region: DUF606; cl01273 1001585010499 hypothetical protein; Provisional; Region: PRK08204 1001585010500 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 1001585010501 active site 1001585010502 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585010503 Helix-turn-helix domains; Region: HTH; cl00088 1001585010504 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 1001585010505 putative effector binding pocket; other site 1001585010506 putative dimerization interface [polypeptide binding]; other site 1001585010507 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1001585010508 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 1001585010509 PAS domain; Region: PAS_9; pfam13426 1001585010510 putative active site [active] 1001585010511 heme pocket [chemical binding]; other site 1001585010512 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1001585010513 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 1001585010514 DNA binding residues [nucleotide binding] 1001585010515 B12 binding domain; Region: B12-binding_2; cl03653 1001585010516 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1001585010517 dihydromonapterin reductase; Provisional; Region: PRK06483 1001585010518 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585010519 NAD(P) binding site [chemical binding]; other site 1001585010520 active site 1001585010521 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 1001585010522 homodecamer interface [polypeptide binding]; other site 1001585010523 GTP cyclohydrolase I; Provisional; Region: PLN03044 1001585010524 active site 1001585010525 putative catalytic site residues [active] 1001585010526 zinc binding site [ion binding]; other site 1001585010527 GTP-CH-I/GFRP interaction surface; other site 1001585010528 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 1001585010529 homooctamer interface [polypeptide binding]; other site 1001585010530 active site 1001585010531 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 1001585010532 HopJ type III effector protein; Region: HopJ; pfam08888 1001585010533 Putative glycolipid-binding; Region: Glycolipid_bind; cl01425 1001585010534 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 1001585010535 AzlC protein; Region: AzlC; cl00570 1001585010536 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1001585010537 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585010538 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585010539 dimer interface [polypeptide binding]; other site 1001585010540 putative CheW interface [polypeptide binding]; other site 1001585010541 Cache domain; Region: Cache_1; pfam02743 1001585010542 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 1001585010543 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585010544 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585010545 dimer interface [polypeptide binding]; other site 1001585010546 putative CheW interface [polypeptide binding]; other site 1001585010547 Nitrate and nitrite sensing; Region: NIT; pfam08376 1001585010548 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 1001585010549 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585010550 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585010551 dimer interface [polypeptide binding]; other site 1001585010552 putative CheW interface [polypeptide binding]; other site 1001585010553 Secretin and TonB N terminus short domain; Region: STN; cl06624 1001585010554 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 1001585010555 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1001585010556 N-terminal plug; other site 1001585010557 ligand-binding site [chemical binding]; other site 1001585010558 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1001585010559 FecR protein; Region: FecR; pfam04773 1001585010560 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1001585010561 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585010562 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1001585010563 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1001585010564 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585010565 Coenzyme A binding pocket [chemical binding]; other site 1001585010566 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 1001585010567 active site 1001585010568 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1001585010569 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 1001585010570 conserved cys residue [active] 1001585010571 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585010572 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1001585010573 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1001585010574 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585010575 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1001585010576 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1001585010577 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 1001585010578 FAD binding pocket [chemical binding]; other site 1001585010579 FAD binding motif [chemical binding]; other site 1001585010580 phosphate binding motif [ion binding]; other site 1001585010581 beta-alpha-beta structure motif; other site 1001585010582 NAD binding pocket [chemical binding]; other site 1001585010583 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 1001585010584 catalytic loop [active] 1001585010585 iron binding site [ion binding]; other site 1001585010586 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 1001585010587 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585010588 enoyl-CoA hydratase; Provisional; Region: PRK06142 1001585010589 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 1001585010590 substrate binding site [chemical binding]; other site 1001585010591 oxyanion hole (OAH) forming residues; other site 1001585010592 trimer interface [polypeptide binding]; other site 1001585010593 Helix-turn-helix domains; Region: HTH; cl00088 1001585010594 WHG domain; Region: WHG; pfam13305 1001585010595 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1001585010596 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1001585010597 Walker A/P-loop; other site 1001585010598 ATP binding site [chemical binding]; other site 1001585010599 Q-loop/lid; other site 1001585010600 ABC transporter signature motif; other site 1001585010601 Walker B; other site 1001585010602 D-loop; other site 1001585010603 H-loop/switch region; other site 1001585010604 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 1001585010605 ABC-ATPase subunit interface; other site 1001585010606 dimer interface [polypeptide binding]; other site 1001585010607 putative PBP binding regions; other site 1001585010608 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 1001585010609 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 1001585010610 putative ligand binding residues [chemical binding]; other site 1001585010611 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 1001585010612 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 1001585010613 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1001585010614 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 1001585010615 N-terminal plug; other site 1001585010616 ligand-binding site [chemical binding]; other site 1001585010617 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1001585010618 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585010619 active site 1001585010620 phosphorylation site [posttranslational modification] 1001585010621 intermolecular recognition site; other site 1001585010622 dimerization interface [polypeptide binding]; other site 1001585010623 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 1001585010624 DNA binding site [nucleotide binding] 1001585010625 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 1001585010626 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 1001585010627 dimer interface [polypeptide binding]; other site 1001585010628 phosphorylation site [posttranslational modification] 1001585010629 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585010630 ATP binding site [chemical binding]; other site 1001585010631 Mg2+ binding site [ion binding]; other site 1001585010632 G-X-G motif; other site 1001585010633 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1001585010634 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 1001585010635 dimerization interface [polypeptide binding]; other site 1001585010636 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585010637 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585010638 dimer interface [polypeptide binding]; other site 1001585010639 putative CheW interface [polypeptide binding]; other site 1001585010640 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 1001585010641 Imelysin; Region: Peptidase_M75; cl09159 1001585010642 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 1001585010643 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1001585010644 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1001585010645 DNA binding site [nucleotide binding] 1001585010646 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 1001585010647 putative ligand binding site [chemical binding]; other site 1001585010648 putative dimerization interface [polypeptide binding]; other site 1001585010649 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1001585010650 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585010651 active site 1001585010652 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1001585010653 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585010654 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585010655 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1001585010656 DctM-like transporters; Region: DctM; pfam06808 1001585010657 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 1001585010658 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585010659 DNA-binding site [nucleotide binding]; DNA binding site 1001585010660 FCD domain; Region: FCD; cl11656 1001585010661 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 1001585010662 active site 1001585010663 catalytic residues [active] 1001585010664 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1001585010665 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585010666 FOG: CBS domain [General function prediction only]; Region: COG0517 1001585010667 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 1001585010668 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1001585010669 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1001585010670 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1001585010671 putative active site [active] 1001585010672 putative substrate binding site [chemical binding]; other site 1001585010673 putative cosubstrate binding site; other site 1001585010674 catalytic site [active] 1001585010675 exonuclease I; Provisional; Region: sbcB; PRK11779 1001585010676 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1001585010677 active site 1001585010678 catalytic site [active] 1001585010679 substrate binding site [chemical binding]; other site 1001585010680 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1001585010681 Protein of unknown function (DUF975); Region: DUF975; cl10504 1001585010682 RDD family; Region: RDD; cl00746 1001585010683 Integral membrane protein DUF95; Region: DUF95; cl00572 1001585010684 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 1001585010685 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585010686 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 1001585010687 Walker A motif; other site 1001585010688 ATP binding site [chemical binding]; other site 1001585010689 Walker B motif; other site 1001585010690 arginine finger; other site 1001585010691 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1001585010692 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 1001585010693 superoxide dismutase; Provisional; Region: PRK10543 1001585010694 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1001585010695 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1001585010696 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1001585010697 biofilm formation regulator HmsP; Provisional; Region: PRK11829 1001585010698 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585010699 metal binding site [ion binding]; metal-binding site 1001585010700 active site 1001585010701 I-site; other site 1001585010702 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 1001585010703 E3 Ubiquitin ligase; Region: GIDE; pfam12483 1001585010704 LemA family; Region: LemA; cl00742 1001585010705 Imelysin; Region: Peptidase_M75; cl09159 1001585010706 Cupin domain; Region: Cupin_2; cl09118 1001585010707 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585010708 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585010709 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585010710 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1001585010711 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1001585010712 Sodium:solute symporter family; Region: SSF; cl00456 1001585010713 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1001585010714 PAS fold; Region: PAS_7; pfam12860 1001585010715 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 1001585010716 dimer interface [polypeptide binding]; other site 1001585010717 phosphorylation site [posttranslational modification] 1001585010718 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585010719 ATP binding site [chemical binding]; other site 1001585010720 Mg2+ binding site [ion binding]; other site 1001585010721 G-X-G motif; other site 1001585010722 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585010723 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585010724 active site 1001585010725 phosphorylation site [posttranslational modification] 1001585010726 intermolecular recognition site; other site 1001585010727 dimerization interface [polypeptide binding]; other site 1001585010728 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1001585010729 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1001585010730 DNA binding residues [nucleotide binding] 1001585010731 short chain dehydrogenase; Validated; Region: PRK05855 1001585010732 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585010733 RmuC family; Region: RmuC; pfam02646 1001585010734 Dicarboxylate transport; Region: DctA-YdbH; cl14674 1001585010735 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1001585010736 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 1001585010737 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 1001585010738 putative GSH binding site [chemical binding]; other site 1001585010739 catalytic residues [active] 1001585010740 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 1001585010741 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1001585010742 putative [Fe4-S4] binding site [ion binding]; other site 1001585010743 putative molybdopterin cofactor binding site [chemical binding]; other site 1001585010744 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 1001585010745 putative molybdopterin cofactor binding site; other site 1001585010746 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1001585010747 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1001585010748 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585010749 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1001585010750 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 1001585010751 Walker A/P-loop; other site 1001585010752 ATP binding site [chemical binding]; other site 1001585010753 Q-loop/lid; other site 1001585010754 ABC transporter signature motif; other site 1001585010755 Walker B; other site 1001585010756 D-loop; other site 1001585010757 H-loop/switch region; other site 1001585010758 TOBE domain; Region: TOBE_2; cl01440 1001585010759 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1001585010760 glycerol kinase; Region: glycerol_kin; TIGR01311 1001585010761 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1001585010762 N- and C-terminal domain interface [polypeptide binding]; other site 1001585010763 active site 1001585010764 MgATP binding site [chemical binding]; other site 1001585010765 catalytic site [active] 1001585010766 metal binding site [ion binding]; metal-binding site 1001585010767 glycerol binding site [chemical binding]; other site 1001585010768 homotetramer interface [polypeptide binding]; other site 1001585010769 homodimer interface [polypeptide binding]; other site 1001585010770 FBP binding site [chemical binding]; other site 1001585010771 protein IIAGlc interface [polypeptide binding]; other site 1001585010772 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 1001585010773 putative deacylase active site [active] 1001585010774 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1001585010775 Helix-turn-helix domains; Region: HTH; cl00088 1001585010776 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 1001585010777 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1001585010778 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1001585010779 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1001585010780 heme binding site [chemical binding]; other site 1001585010781 ferroxidase pore; other site 1001585010782 ferroxidase diiron center [ion binding]; other site 1001585010783 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 1001585010784 putative MFS family transporter protein; Provisional; Region: PRK03633 1001585010785 putative substrate translocation pore; other site 1001585010786 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1001585010787 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1001585010788 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 1001585010789 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 1001585010790 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585010791 Helix-turn-helix domains; Region: HTH; cl00088 1001585010792 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1001585010793 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; cl16911 1001585010794 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1001585010795 Protein of unknown function DUF72; Region: DUF72; cl00777 1001585010796 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 1001585010797 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1001585010798 adenylate kinase; Reviewed; Region: adk; PRK00279 1001585010799 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 1001585010800 AMP-binding site [chemical binding]; other site 1001585010801 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1001585010802 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 1001585010803 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1001585010804 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 1001585010805 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585010806 ligand binding site [chemical binding]; other site 1001585010807 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585010808 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1001585010809 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585010810 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 1001585010811 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 1001585010812 conserved hypothetical protein; Region: QEGLA; TIGR02421 1001585010813 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 1001585010814 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1001585010815 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 1001585010816 dimer interface [polypeptide binding]; other site 1001585010817 putative anticodon binding site; other site 1001585010818 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 1001585010819 motif 1; other site 1001585010820 active site 1001585010821 motif 2; other site 1001585010822 motif 3; other site 1001585010823 peptide chain release factor 2; Provisional; Region: PRK08787 1001585010824 RF-1 domain; Region: RF-1; cl02875 1001585010825 RF-1 domain; Region: RF-1; cl02875 1001585010826 choline dehydrogenase; Validated; Region: PRK02106 1001585010827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585010828 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1001585010829 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1001585010830 putative metal binding site [ion binding]; other site 1001585010831 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1001585010832 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1001585010833 dimer interface [polypeptide binding]; other site 1001585010834 active site 1001585010835 catalytic residue [active] 1001585010836 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1001585010837 DHH family; Region: DHH; pfam01368 1001585010838 DHHA1 domain; Region: DHHA1; pfam02272 1001585010839 YaeQ protein; Region: YaeQ; cl01913 1001585010840 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585010841 metal binding site [ion binding]; metal-binding site 1001585010842 active site 1001585010843 I-site; other site 1001585010844 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585010845 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585010846 Family description; Region: UvrD_C_2; cl15862 1001585010847 Catalytic domain of vertebrate phospholipase D6 and similar proteins; Region: PLDc_vPLD6_like; cd09171 1001585010848 PLD-like domain; Region: PLDc_2; pfam13091 1001585010849 putative active site [active] 1001585010850 catalytic site [active] 1001585010851 ATPase involved in DNA repair; Region: DUF3686; pfam12458 1001585010852 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1001585010853 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; cd00176 1001585010854 linker region; other site 1001585010855 AAA domain; Region: AAA_22; pfam13401 1001585010856 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585010857 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 1001585010858 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 1001585010859 PspA/IM30 family; Region: PspA_IM30; pfam04012 1001585010860 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; cl01551 1001585010861 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1001585010862 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, cyanobacteria; Region: Thr-synth_2; cd01560 1001585010863 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585010864 catalytic residue [active] 1001585010865 homoserine dehydrogenase; Provisional; Region: PRK06349 1001585010866 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585010867 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1001585010868 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 1001585010869 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 1001585010870 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 1001585010871 dimerization domain [polypeptide binding]; other site 1001585010872 dimer interface [polypeptide binding]; other site 1001585010873 catalytic residues [active] 1001585010874 OsmC-like protein; Region: OsmC; cl00767 1001585010875 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1001585010876 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1001585010877 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 1001585010878 active site 1001585010879 Int/Topo IB signature motif; other site 1001585010880 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 1001585010881 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 1001585010882 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 1001585010883 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 1001585010884 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1001585010885 RimM N-terminal domain; Region: RimM; pfam01782 1001585010886 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 1001585010887 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 1001585010888 signal recognition particle protein; Provisional; Region: PRK10867 1001585010889 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 1001585010890 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 1001585010891 P loop; other site 1001585010892 GTP binding site [chemical binding]; other site 1001585010893 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1001585010894 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1001585010895 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1001585010896 Domain of unknown function DUF21; Region: DUF21; pfam01595 1001585010897 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 1001585010898 Transporter associated domain; Region: CorC_HlyC; cl08393 1001585010899 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 1001585010900 active site 1001585010901 catalytic triad [active] 1001585010902 oxyanion hole [active] 1001585010903 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1001585010904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585010905 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1001585010906 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 1001585010907 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 1001585010908 trimer interface [polypeptide binding]; other site 1001585010909 putative metal binding site [ion binding]; other site 1001585010910 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 1001585010911 putative active site [active] 1001585010912 putative CoA binding site [chemical binding]; other site 1001585010913 nudix motif; other site 1001585010914 metal binding site [ion binding]; metal-binding site 1001585010915 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 1001585010916 nudix motif; other site 1001585010917 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 1001585010918 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1001585010919 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 1001585010920 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1001585010921 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 1001585010922 dimerization interface [polypeptide binding]; other site 1001585010923 ATP binding site [chemical binding]; other site 1001585010924 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 1001585010925 dimerization interface [polypeptide binding]; other site 1001585010926 ATP binding site [chemical binding]; other site 1001585010927 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1001585010928 putative active site [active] 1001585010929 catalytic triad [active] 1001585010930 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1001585010931 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 1001585010932 substrate binding pocket [chemical binding]; other site 1001585010933 membrane-bound complex binding site; other site 1001585010934 hinge residues; other site 1001585010935 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 1001585010936 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1001585010937 catalytic residue [active] 1001585010938 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 1001585010939 nucleoside/Zn binding site; other site 1001585010940 dimer interface [polypeptide binding]; other site 1001585010941 catalytic motif [active] 1001585010942 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1001585010943 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 1001585010944 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 1001585010945 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 1001585010946 S-adenosylmethionine binding site [chemical binding]; other site 1001585010947 GMP synthase; Reviewed; Region: guaA; PRK00074 1001585010948 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1001585010949 AMP/PPi binding site [chemical binding]; other site 1001585010950 candidate oxyanion hole; other site 1001585010951 catalytic triad [active] 1001585010952 potential glutamine specificity residues [chemical binding]; other site 1001585010953 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 1001585010954 ATP Binding subdomain [chemical binding]; other site 1001585010955 Ligand Binding sites [chemical binding]; other site 1001585010956 Dimerization subdomain; other site 1001585010957 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1001585010958 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 1001585010959 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 1001585010960 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 1001585010961 active site 1001585010962 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1001585010963 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 1001585010964 N-terminal plug; other site 1001585010965 ligand-binding site [chemical binding]; other site 1001585010966 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1001585010967 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1001585010968 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585010969 Helix-turn-helix domains; Region: HTH; cl00088 1001585010970 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 1001585010971 dimerization interface [polypeptide binding]; other site 1001585010972 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1001585010973 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 1001585010974 generic binding surface II; other site 1001585010975 generic binding surface I; other site 1001585010976 Peptidase family M23; Region: Peptidase_M23; pfam01551 1001585010977 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1001585010978 2-isopropylmalate synthase; Validated; Region: PRK03739 1001585010979 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1001585010980 active site 1001585010981 catalytic residues [active] 1001585010982 metal binding site [ion binding]; metal-binding site 1001585010983 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 1001585010984 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 1001585010985 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1001585010986 putative active site [active] 1001585010987 catalytic triad [active] 1001585010988 dimer interface [polypeptide binding]; other site 1001585010989 multimer interface [polypeptide binding]; other site 1001585010990 methionine aminotransferase; Validated; Region: PRK09082 1001585010991 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 1001585010992 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585010993 homodimer interface [polypeptide binding]; other site 1001585010994 catalytic residue [active] 1001585010995 GTP-binding protein Der; Reviewed; Region: PRK00093 1001585010996 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1001585010997 G1 box; other site 1001585010998 GTP/Mg2+ binding site [chemical binding]; other site 1001585010999 Switch I region; other site 1001585011000 G2 box; other site 1001585011001 Switch II region; other site 1001585011002 G3 box; other site 1001585011003 G4 box; other site 1001585011004 G5 box; other site 1001585011005 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1001585011006 G1 box; other site 1001585011007 GTP/Mg2+ binding site [chemical binding]; other site 1001585011008 Switch I region; other site 1001585011009 G2 box; other site 1001585011010 G3 box; other site 1001585011011 Switch II region; other site 1001585011012 G4 box; other site 1001585011013 G5 box; other site 1001585011014 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 1001585011015 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 1001585011016 Trp docking motif [polypeptide binding]; other site 1001585011017 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1001585011018 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1001585011019 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1001585011020 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 1001585011021 dimer interface [polypeptide binding]; other site 1001585011022 motif 1; other site 1001585011023 active site 1001585011024 motif 2; other site 1001585011025 motif 3; other site 1001585011026 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 1001585011027 anticodon binding site; other site 1001585011028 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1001585011029 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1001585011030 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1001585011031 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1001585011032 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1001585011033 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1001585011034 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1001585011035 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 1001585011036 binding surface 1001585011037 TPR motif; other site 1001585011038 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 1001585011039 binding surface 1001585011040 TPR motif; other site 1001585011041 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1001585011042 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 1001585011043 FeS/SAM binding site; other site 1001585011044 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 1001585011045 active site 1001585011046 multimer interface [polypeptide binding]; other site 1001585011047 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 1001585011048 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 1001585011049 catalytic loop [active] 1001585011050 iron binding site [ion binding]; other site 1001585011051 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1001585011052 co-chaperone HscB; Provisional; Region: hscB; PRK00294 1001585011053 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 1001585011054 HSP70 interaction site [polypeptide binding]; other site 1001585011055 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1001585011056 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1001585011057 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1001585011058 trimerization site [polypeptide binding]; other site 1001585011059 active site 1001585011060 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 1001585011061 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 1001585011062 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1001585011063 catalytic residue [active] 1001585011064 Helix-turn-helix domains; Region: HTH; cl00088 1001585011065 Rrf2 family protein; Region: rrf2_super; TIGR00738 1001585011066 serine O-acetyltransferase; Region: cysE; TIGR01172 1001585011067 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 1001585011068 trimer interface [polypeptide binding]; other site 1001585011069 active site 1001585011070 substrate binding site [chemical binding]; other site 1001585011071 CoA binding site [chemical binding]; other site 1001585011072 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 1001585011073 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 1001585011074 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 1001585011075 active site 1001585011076 dimerization interface [polypeptide binding]; other site 1001585011077 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1001585011078 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK08343 1001585011079 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1001585011080 Protein export membrane protein; Region: SecD_SecF; cl14618 1001585011081 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 1001585011082 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1001585011083 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1001585011084 Protein export membrane protein; Region: SecD_SecF; cl14618 1001585011085 Preprotein translocase subunit; Region: YajC; cl00806 1001585011086 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 1001585011087 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1001585011088 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1001585011089 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 1001585011090 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1001585011091 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 1001585011092 substrate binding pocket [chemical binding]; other site 1001585011093 membrane-bound complex binding site; other site 1001585011094 hinge residues; other site 1001585011095 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 1001585011096 DNA-binding site [nucleotide binding]; DNA binding site 1001585011097 RNA-binding motif; other site 1001585011098 RDD family; Region: RDD; cl00746 1001585011099 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1001585011100 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1001585011101 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1001585011102 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1001585011103 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1001585011104 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 1001585011105 interface (dimer of trimers) [polypeptide binding]; other site 1001585011106 Substrate-binding/catalytic site; other site 1001585011107 Zn-binding sites [ion binding]; other site 1001585011108 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 1001585011109 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1001585011110 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1001585011111 HIGH motif; other site 1001585011112 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1001585011113 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1001585011114 active site 1001585011115 KMSKS motif; other site 1001585011116 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1001585011117 tRNA binding surface [nucleotide binding]; other site 1001585011118 anticodon binding site; other site 1001585011119 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1001585011120 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1001585011121 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1001585011122 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; cl15357 1001585011123 transmembrane helices; other site 1001585011124 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 1001585011125 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 1001585011126 transmembrane helices; other site 1001585011127 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; cl15357 1001585011128 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; cl15357 1001585011129 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 1001585011130 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 1001585011131 octamerization interface [polypeptide binding]; other site 1001585011132 diferric-oxygen binding site [ion binding]; other site 1001585011133 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 1001585011134 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; cl16911 1001585011135 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; cl15357 1001585011136 transmembrane helices; other site 1001585011137 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585011138 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 1001585011139 substrate binding pocket [chemical binding]; other site 1001585011140 membrane-bound complex binding site; other site 1001585011141 hinge residues; other site 1001585011142 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 1001585011143 Isochorismatase family; Region: Isochorismatase; pfam00857 1001585011144 catalytic triad [active] 1001585011145 dimer interface [polypeptide binding]; other site 1001585011146 conserved cis-peptide bond; other site 1001585011147 AAA domain; Region: AAA_23; pfam13476 1001585011148 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585011149 Walker A/P-loop; other site 1001585011150 ATP binding site [chemical binding]; other site 1001585011151 Q-loop/lid; other site 1001585011152 exonuclease subunit SbcC; Provisional; Region: PRK10246 1001585011153 exonuclease subunit SbcC; Provisional; Region: PRK10246 1001585011154 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585011155 ABC transporter signature motif; other site 1001585011156 Walker B; other site 1001585011157 D-loop; other site 1001585011158 H-loop/switch region; other site 1001585011159 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585011160 metal binding site [ion binding]; metal-binding site 1001585011161 active site 1001585011162 I-site; other site 1001585011163 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1001585011164 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1001585011165 exonuclease subunit SbcD; Provisional; Region: PRK10966 1001585011166 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1001585011167 active site 1001585011168 metal binding site [ion binding]; metal-binding site 1001585011169 DNA binding site [nucleotide binding] 1001585011170 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1001585011171 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 1001585011172 Helix-turn-helix domains; Region: HTH; cl00088 1001585011173 putative transporter; Provisional; Region: PRK11021 1001585011174 NMT1-like family; Region: NMT1_2; cl15260 1001585011175 cell division control protein 6; Reviewed; Region: cdc6; PRK00411 1001585011176 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585011177 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 1001585011178 Walker A motif; other site 1001585011179 ATP binding site [chemical binding]; other site 1001585011180 Walker B motif; other site 1001585011181 arginine finger; other site 1001585011182 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585011183 Walker A motif; other site 1001585011184 ATP binding site [chemical binding]; other site 1001585011185 Walker B motif; other site 1001585011186 arginine finger; other site 1001585011187 Predicted transcriptional regulator [Transcription]; Region: COG2378 1001585011188 WYL domain; Region: WYL; cl14852 1001585011189 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1001585011190 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 1001585011191 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 1001585011192 catalytic residues [active] 1001585011193 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1001585011194 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 1001585011195 C-terminal domain interface [polypeptide binding]; other site 1001585011196 GSH binding site (G-site) [chemical binding]; other site 1001585011197 dimer interface [polypeptide binding]; other site 1001585011198 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1001585011199 substrate binding pocket (H-site) [chemical binding]; other site 1001585011200 N-terminal domain interface [polypeptide binding]; other site 1001585011201 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1001585011202 GIY-YIG motif/motif A; other site 1001585011203 putative active site [active] 1001585011204 putative metal binding site [ion binding]; other site 1001585011205 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1001585011206 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 1001585011207 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1001585011208 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1001585011209 conserved cys residue [active] 1001585011210 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585011211 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585011212 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1001585011213 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 1001585011214 Walker A/P-loop; other site 1001585011215 ATP binding site [chemical binding]; other site 1001585011216 Q-loop/lid; other site 1001585011217 ABC transporter signature motif; other site 1001585011218 Walker B; other site 1001585011219 D-loop; other site 1001585011220 H-loop/switch region; other site 1001585011221 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1001585011222 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 1001585011223 dimer interface [polypeptide binding]; other site 1001585011224 conserved gate region; other site 1001585011225 putative PBP binding loops; other site 1001585011226 ABC-ATPase subunit interface; other site 1001585011227 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1001585011228 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 1001585011229 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 1001585011230 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1001585011231 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 1001585011232 substrate binding pocket [chemical binding]; other site 1001585011233 membrane-bound complex binding site; other site 1001585011234 hinge residues; other site 1001585011235 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1001585011236 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585011237 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585011238 AMP-binding domain protein; Validated; Region: PRK07529 1001585011239 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585011240 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 1001585011241 ligand binding site [chemical binding]; other site 1001585011242 flexible hinge region; other site 1001585011243 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585011244 metal binding site [ion binding]; metal-binding site 1001585011245 active site 1001585011246 I-site; other site 1001585011247 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 1001585011248 active site 1001585011249 dimer interface [polypeptide binding]; other site 1001585011250 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK01297 1001585011251 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 1001585011252 ATP binding site [chemical binding]; other site 1001585011253 Mg++ binding site [ion binding]; other site 1001585011254 motif III; other site 1001585011255 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 1001585011256 nucleotide binding region [chemical binding]; other site 1001585011257 ATP-binding site [chemical binding]; other site 1001585011258 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1001585011259 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585011260 hypothetical protein; Provisional; Region: PRK11469 1001585011261 Domain of unknown function DUF; Region: DUF204; pfam02659 1001585011262 Domain of unknown function DUF; Region: DUF204; pfam02659 1001585011263 Integral membrane protein TerC family; Region: TerC; cl10468 1001585011264 DNA polymerase II; Reviewed; Region: PRK05762 1001585011265 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 1001585011266 active site 1001585011267 catalytic site [active] 1001585011268 substrate binding site [chemical binding]; other site 1001585011269 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 1001585011270 active site 1001585011271 metal-binding site 1001585011272 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1001585011273 heme-binding site [chemical binding]; other site 1001585011274 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 1001585011275 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 1001585011276 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; cl16911 1001585011277 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 1001585011278 GAF domain; Region: GAF; cl15785 1001585011279 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585011280 Walker A motif; other site 1001585011281 ATP binding site [chemical binding]; other site 1001585011282 Walker B motif; other site 1001585011283 arginine finger; other site 1001585011284 Helix-turn-helix domains; Region: HTH; cl00088 1001585011285 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1001585011286 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 1001585011287 heme-binding site [chemical binding]; other site 1001585011288 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 1001585011289 FAD binding pocket [chemical binding]; other site 1001585011290 FAD binding motif [chemical binding]; other site 1001585011291 phosphate binding motif [ion binding]; other site 1001585011292 beta-alpha-beta structure motif; other site 1001585011293 NAD binding pocket [chemical binding]; other site 1001585011294 Heme binding pocket [chemical binding]; other site 1001585011295 NnrS protein; Region: NnrS; cl01258 1001585011296 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1001585011297 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1001585011298 Helix-turn-helix domains; Region: HTH; cl00088 1001585011299 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 1001585011300 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 1001585011301 putative dimerization interface [polypeptide binding]; other site 1001585011302 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1001585011303 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 1001585011304 Citrate transporter; Region: CitMHS; pfam03600 1001585011305 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1001585011306 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585011307 NAD(P) binding pocket [chemical binding]; other site 1001585011308 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1001585011309 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1001585011310 dimer interface [polypeptide binding]; other site 1001585011311 active site 1001585011312 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1001585011313 catalytic residues [active] 1001585011314 substrate binding site [chemical binding]; other site 1001585011315 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 1001585011316 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1001585011317 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1001585011318 mce related protein; Region: MCE; pfam02470 1001585011319 mce related protein; Region: MCE; pfam02470 1001585011320 mce related protein; Region: MCE; pfam02470 1001585011321 mce related protein; Region: MCE; pfam02470 1001585011322 mce related protein; Region: MCE; pfam02470 1001585011323 mce related protein; Region: MCE; pfam02470 1001585011324 Paraquat-inducible protein A; Region: PqiA; pfam04403 1001585011325 Paraquat-inducible protein A; Region: PqiA; pfam04403 1001585011326 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 1001585011327 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 1001585011328 Moco binding site; other site 1001585011329 metal coordination site [ion binding]; other site 1001585011330 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1001585011331 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1001585011332 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1001585011333 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585011334 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1001585011335 Helix-turn-helix domains; Region: HTH; cl00088 1001585011336 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 1001585011337 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 1001585011338 putative dimerization interface [polypeptide binding]; other site 1001585011339 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1001585011340 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1001585011341 putative valine binding site [chemical binding]; other site 1001585011342 dimer interface [polypeptide binding]; other site 1001585011343 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1001585011344 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 1001585011345 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1001585011346 PYR/PP interface [polypeptide binding]; other site 1001585011347 dimer interface [polypeptide binding]; other site 1001585011348 TPP binding site [chemical binding]; other site 1001585011349 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 1001585011350 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 1001585011351 TPP-binding site [chemical binding]; other site 1001585011352 dimer interface [polypeptide binding]; other site 1001585011353 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1001585011354 tRNA pseudouridine synthase C; Region: DUF446; cl01187 1001585011355 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 1001585011356 TPR motif; other site 1001585011357 binding surface 1001585011358 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1001585011359 Transglycosylase; Region: Transgly; cl07896 1001585011360 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1001585011361 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 1001585011362 AAA domain; Region: AAA_33; pfam13671 1001585011363 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 1001585011364 ATP-binding site [chemical binding]; other site 1001585011365 Gluconate-6-phosphate binding site [chemical binding]; other site 1001585011366 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1001585011367 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1001585011368 TfoX N-terminal domain; Region: TfoX_N; cl01167 1001585011369 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 1001585011370 ligand binding site [chemical binding]; other site 1001585011371 flexible hinge region; other site 1001585011372 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 1001585011373 Protein of unknown function, DUF399; Region: DUF399; cl01139 1001585011374 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1001585011375 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1001585011376 Walker A/P-loop; other site 1001585011377 ATP binding site [chemical binding]; other site 1001585011378 Q-loop/lid; other site 1001585011379 ABC transporter signature motif; other site 1001585011380 Walker B; other site 1001585011381 D-loop; other site 1001585011382 H-loop/switch region; other site 1001585011383 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 1001585011384 ABC-ATPase subunit interface; other site 1001585011385 dimer interface [polypeptide binding]; other site 1001585011386 putative PBP binding regions; other site 1001585011387 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 1001585011388 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 1001585011389 intersubunit interface [polypeptide binding]; other site 1001585011390 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 1001585011391 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 1001585011392 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 1001585011393 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1001585011394 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 1001585011395 N-terminal plug; other site 1001585011396 ligand-binding site [chemical binding]; other site 1001585011397 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 1001585011398 iron-sulfur cluster [ion binding]; other site 1001585011399 [2Fe-2S] cluster binding site [ion binding]; other site 1001585011400 Sugar fermentation stimulation protein; Region: SfsA; cl00647 1001585011401 aminotransferase; Validated; Region: PRK07337 1001585011402 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 1001585011403 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585011404 homodimer interface [polypeptide binding]; other site 1001585011405 catalytic residue [active] 1001585011406 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1001585011407 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1001585011408 active site 1001585011409 HIGH motif; other site 1001585011410 nucleotide binding site [chemical binding]; other site 1001585011411 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1001585011412 KMSKS motif; other site 1001585011413 Sodium:solute symporter family; Region: SSF; cl00456 1001585011414 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1001585011415 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585011416 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 1001585011417 dimer interface [polypeptide binding]; other site 1001585011418 phosphorylation site [posttranslational modification] 1001585011419 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585011420 ATP binding site [chemical binding]; other site 1001585011421 Mg2+ binding site [ion binding]; other site 1001585011422 G-X-G motif; other site 1001585011423 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1001585011424 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585011425 active site 1001585011426 phosphorylation site [posttranslational modification] 1001585011427 intermolecular recognition site; other site 1001585011428 dimerization interface [polypeptide binding]; other site 1001585011429 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585011430 Walker A motif; other site 1001585011431 ATP binding site [chemical binding]; other site 1001585011432 Walker B motif; other site 1001585011433 arginine finger; other site 1001585011434 poly(A) polymerase; Region: pcnB; TIGR01942 1001585011435 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1001585011436 active site 1001585011437 NTP binding site [chemical binding]; other site 1001585011438 metal binding triad [ion binding]; metal-binding site 1001585011439 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1001585011440 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1001585011441 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 1001585011442 catalytic center binding site [active] 1001585011443 ATP binding site [chemical binding]; other site 1001585011444 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 1001585011445 oligomerization interface [polypeptide binding]; other site 1001585011446 active site 1001585011447 metal binding site [ion binding]; metal-binding site 1001585011448 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1001585011449 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1001585011450 active site 1001585011451 ATP-binding site [chemical binding]; other site 1001585011452 pantoate-binding site; other site 1001585011453 HXXH motif; other site 1001585011454 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1001585011455 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 1001585011456 active site 1001585011457 dimer interface [polypeptide binding]; other site 1001585011458 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 1001585011459 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 1001585011460 dimer interface [polypeptide binding]; other site 1001585011461 active site 1001585011462 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1001585011463 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1001585011464 conserved cys residue [active] 1001585011465 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585011466 DJ-1 family protein; Region: not_thiJ; TIGR01383 1001585011467 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1001585011468 conserved cys residue [active] 1001585011469 acetyl-CoA synthetase; Provisional; Region: PRK00174 1001585011470 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 1001585011471 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585011472 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1001585011473 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 1001585011474 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1001585011475 putative RNA binding site [nucleotide binding]; other site 1001585011476 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; cl16911 1001585011477 AsmA family; Region: AsmA; pfam05170 1001585011478 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1001585011479 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1001585011480 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1001585011481 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1001585011482 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1001585011483 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 1001585011484 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 1001585011485 CsbD-like; Region: CsbD; cl15799 1001585011486 BON domain; Region: BON; cl02771 1001585011487 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1001585011488 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1001585011489 RNase E interface [polypeptide binding]; other site 1001585011490 trimer interface [polypeptide binding]; other site 1001585011491 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1001585011492 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1001585011493 RNase E interface [polypeptide binding]; other site 1001585011494 trimer interface [polypeptide binding]; other site 1001585011495 active site 1001585011496 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 1001585011497 putative nucleic acid binding region [nucleotide binding]; other site 1001585011498 G-X-X-G motif; other site 1001585011499 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 1001585011500 RNA binding site [nucleotide binding]; other site 1001585011501 domain interface; other site 1001585011502 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 1001585011503 16S/18S rRNA binding site [nucleotide binding]; other site 1001585011504 S13e-L30e interaction site [polypeptide binding]; other site 1001585011505 25S rRNA binding site [nucleotide binding]; other site 1001585011506 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1001585011507 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1001585011508 RNA binding site [nucleotide binding]; other site 1001585011509 active site 1001585011510 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1001585011511 Ribosome-binding factor A; Region: RBFA; cl00542 1001585011512 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1001585011513 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1001585011514 translation initiation factor IF-2; Region: IF-2; TIGR00487 1001585011515 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1001585011516 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1001585011517 G1 box; other site 1001585011518 putative GEF interaction site [polypeptide binding]; other site 1001585011519 GTP/Mg2+ binding site [chemical binding]; other site 1001585011520 Switch I region; other site 1001585011521 G2 box; other site 1001585011522 G3 box; other site 1001585011523 Switch II region; other site 1001585011524 G4 box; other site 1001585011525 G5 box; other site 1001585011526 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 1001585011527 Translation-initiation factor 2; Region: IF-2; pfam11987 1001585011528 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 1001585011529 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1001585011530 NusA N-terminal domain; Region: NusA_N; pfam08529 1001585011531 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 1001585011532 RNA binding site [nucleotide binding]; other site 1001585011533 homodimer interface [polypeptide binding]; other site 1001585011534 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 1001585011535 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 1001585011536 G-X-X-G motif; other site 1001585011537 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1001585011538 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1001585011539 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1001585011540 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 1001585011541 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 1001585011542 Sm1 motif; other site 1001585011543 D1 - D2 interaction site; other site 1001585011544 D3 - B interaction site; other site 1001585011545 Hfq - Hfq interaction site; other site 1001585011546 RNA binding pocket [nucleotide binding]; other site 1001585011547 Sm2 motif; other site 1001585011548 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 1001585011549 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 1001585011550 substrate binding site [chemical binding]; other site 1001585011551 dimer interface [polypeptide binding]; other site 1001585011552 catalytic triad [active] 1001585011553 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1001585011554 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 1001585011555 active site 1001585011556 substrate binding site [chemical binding]; other site 1001585011557 metal binding site [ion binding]; metal-binding site 1001585011558 dihydropteroate synthase; Region: DHPS; TIGR01496 1001585011559 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 1001585011560 substrate binding pocket [chemical binding]; other site 1001585011561 dimer interface [polypeptide binding]; other site 1001585011562 inhibitor binding site; inhibition site 1001585011563 FtsH Extracellular; Region: FtsH_ext; pfam06480 1001585011564 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1001585011565 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585011566 Walker A motif; other site 1001585011567 ATP binding site [chemical binding]; other site 1001585011568 Walker B motif; other site 1001585011569 arginine finger; other site 1001585011570 Peptidase family M41; Region: Peptidase_M41; pfam01434 1001585011571 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; cl16911 1001585011572 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1001585011573 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 1001585011574 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1001585011575 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1001585011576 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1001585011577 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1001585011578 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1001585011579 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1001585011580 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1001585011581 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1001585011582 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1001585011583 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 1001585011584 IMP binding site; other site 1001585011585 dimer interface [polypeptide binding]; other site 1001585011586 interdomain contacts; other site 1001585011587 partial ornithine binding site; other site 1001585011588 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1001585011589 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 1001585011590 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1001585011591 catalytic site [active] 1001585011592 subunit interface [polypeptide binding]; other site 1001585011593 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1001585011594 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585011595 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1001585011596 chaperone protein DnaJ; Provisional; Region: PRK10767 1001585011597 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 1001585011598 HSP70 interaction site [polypeptide binding]; other site 1001585011599 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1001585011600 substrate binding site [polypeptide binding]; other site 1001585011601 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1001585011602 Zn binding sites [ion binding]; other site 1001585011603 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1001585011604 dimer interface [polypeptide binding]; other site 1001585011605 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1001585011606 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 1001585011607 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 1001585011608 dimer interface [polypeptide binding]; other site 1001585011609 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1001585011610 recombination and repair protein; Provisional; Region: PRK10869 1001585011611 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 1001585011612 Walker A/P-loop; other site 1001585011613 ATP binding site [chemical binding]; other site 1001585011614 Q-loop/lid; other site 1001585011615 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 1001585011616 ABC transporter signature motif; other site 1001585011617 Walker B; other site 1001585011618 D-loop; other site 1001585011619 H-loop/switch region; other site 1001585011620 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1001585011621 metal binding site 2 [ion binding]; metal-binding site 1001585011622 putative DNA binding helix; other site 1001585011623 metal binding site 1 [ion binding]; metal-binding site 1001585011624 dimer interface [polypeptide binding]; other site 1001585011625 structural Zn2+ binding site [ion binding]; other site 1001585011626 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 1001585011627 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 1001585011628 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1001585011629 putative coenzyme Q binding site [chemical binding]; other site 1001585011630 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 1001585011631 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 1001585011632 SmpB-tmRNA interface; other site 1001585011633 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 1001585011634 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585011635 DNA-binding site [nucleotide binding]; DNA binding site 1001585011636 FCD domain; Region: FCD; cl11656 1001585011637 L-lactate permease; Region: Lactate_perm; cl00701 1001585011638 glycolate transporter; Provisional; Region: PRK09695 1001585011639 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1001585011640 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 1001585011641 phosphate binding site [ion binding]; other site 1001585011642 D-lactate dehydrogenase; Provisional; Region: PRK11183 1001585011643 FAD binding domain; Region: FAD_binding_4; pfam01565 1001585011644 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1001585011645 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1001585011646 Clp amino terminal domain; Region: Clp_N; pfam02861 1001585011647 Clp amino terminal domain; Region: Clp_N; pfam02861 1001585011648 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585011649 Walker A motif; other site 1001585011650 ATP binding site [chemical binding]; other site 1001585011651 Walker B motif; other site 1001585011652 arginine finger; other site 1001585011653 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585011654 Walker A motif; other site 1001585011655 ATP binding site [chemical binding]; other site 1001585011656 Walker B motif; other site 1001585011657 arginine finger; other site 1001585011658 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1001585011659 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 1001585011660 FMN binding site [chemical binding]; other site 1001585011661 dimer interface [polypeptide binding]; other site 1001585011662 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 1001585011663 catalytic residues [active] 1001585011664 dimer interface [polypeptide binding]; other site 1001585011665 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 1001585011666 acetate kinase; Region: ackA; TIGR00016 1001585011667 Acetokinase family; Region: Acetate_kinase; cl01029 1001585011668 phosphate acetyltransferase; Reviewed; Region: PRK05632 1001585011669 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585011670 DRTGG domain; Region: DRTGG; cl12147 1001585011671 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 1001585011672 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1001585011673 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1001585011674 putative acyl-acceptor binding pocket; other site 1001585011675 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585011676 active site 1001585011677 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 1001585011678 phosphorylation site [posttranslational modification] 1001585011679 intermolecular recognition site; other site 1001585011680 dimerization interface [polypeptide binding]; other site 1001585011681 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1001585011682 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585011683 metal binding site [ion binding]; metal-binding site 1001585011684 active site 1001585011685 I-site; other site 1001585011686 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 1001585011687 CHASE domain; Region: CHASE; cl01369 1001585011688 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1001585011689 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1001585011690 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585011691 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 1001585011692 dimer interface [polypeptide binding]; other site 1001585011693 phosphorylation site [posttranslational modification] 1001585011694 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585011695 ATP binding site [chemical binding]; other site 1001585011696 Mg2+ binding site [ion binding]; other site 1001585011697 G-X-G motif; other site 1001585011698 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585011699 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585011700 active site 1001585011701 phosphorylation site [posttranslational modification] 1001585011702 intermolecular recognition site; other site 1001585011703 dimerization interface [polypeptide binding]; other site 1001585011704 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585011705 phosphorylation site [posttranslational modification] 1001585011706 intermolecular recognition site; other site 1001585011707 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585011708 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585011709 active site 1001585011710 phosphorylation site [posttranslational modification] 1001585011711 intermolecular recognition site; other site 1001585011712 dimerization interface [polypeptide binding]; other site 1001585011713 putative outer membrane lipoprotein; Provisional; Region: PRK10510 1001585011714 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585011715 ligand binding site [chemical binding]; other site 1001585011716 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1001585011717 ligand binding site [chemical binding]; other site 1001585011718 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1001585011719 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585011720 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585011721 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585011722 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1001585011723 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1001585011724 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585011725 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585011726 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 1001585011727 Helix-turn-helix domains; Region: HTH; cl00088 1001585011728 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1001585011729 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585011730 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 1001585011731 DNA binding residues [nucleotide binding] 1001585011732 dimerization interface [polypeptide binding]; other site 1001585011733 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1001585011734 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1001585011735 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1001585011736 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585011737 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585011738 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1001585011739 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 1001585011740 dimer interface [polypeptide binding]; other site 1001585011741 active site 1001585011742 LysE type translocator; Region: LysE; cl00565 1001585011743 glycerate dehydrogenase; Provisional; Region: PRK06487 1001585011744 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585011745 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1001585011746 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1001585011747 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; cl16911 1001585011748 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1001585011749 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1001585011750 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 1001585011751 Peptidase family M48; Region: Peptidase_M48; cl12018 1001585011752 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 1001585011753 dimerization interface [polypeptide binding]; other site 1001585011754 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585011755 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585011756 dimer interface [polypeptide binding]; other site 1001585011757 putative CheW interface [polypeptide binding]; other site 1001585011758 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 1001585011759 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1001585011760 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 1001585011761 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1001585011762 putative acyl-acceptor binding pocket; other site 1001585011763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585011764 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1001585011765 CreA protein; Region: CreA; pfam05981 1001585011766 gamma-glutamyl kinase; Provisional; Region: PRK05429 1001585011767 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 1001585011768 nucleotide binding site [chemical binding]; other site 1001585011769 homotetrameric interface [polypeptide binding]; other site 1001585011770 putative phosphate binding site [ion binding]; other site 1001585011771 putative allosteric binding site; other site 1001585011772 PUA domain; Region: PUA; cl00607 1001585011773 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1001585011774 GTP1/OBG; Region: GTP1_OBG; pfam01018 1001585011775 Obg GTPase; Region: Obg; cd01898 1001585011776 G1 box; other site 1001585011777 GTP/Mg2+ binding site [chemical binding]; other site 1001585011778 Switch I region; other site 1001585011779 G2 box; other site 1001585011780 G3 box; other site 1001585011781 Switch II region; other site 1001585011782 G4 box; other site 1001585011783 G5 box; other site 1001585011784 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 1001585011785 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 1001585011786 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1001585011787 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1001585011788 substrate binding pocket [chemical binding]; other site 1001585011789 chain length determination region; other site 1001585011790 substrate-Mg2+ binding site; other site 1001585011791 catalytic residues [active] 1001585011792 aspartate-rich region 1; other site 1001585011793 active site lid residues [active] 1001585011794 aspartate-rich region 2; other site 1001585011795 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1001585011796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585011797 NAD(P) binding site [chemical binding]; other site 1001585011798 active site 1001585011799 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1001585011800 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1001585011801 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 1001585011802 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 1001585011803 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 1001585011804 oligomerisation interface [polypeptide binding]; other site 1001585011805 mobile loop; other site 1001585011806 roof hairpin; other site 1001585011807 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1001585011808 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 1001585011809 ring oligomerisation interface [polypeptide binding]; other site 1001585011810 ATP/Mg binding site [chemical binding]; other site 1001585011811 stacking interactions; other site 1001585011812 hinge regions; other site 1001585011813 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1001585011814 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 1001585011815 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 1001585011816 active site clefts [active] 1001585011817 zinc binding site [ion binding]; other site 1001585011818 dimer interface [polypeptide binding]; other site 1001585011819 Sulfate transporter family; Region: Sulfate_transp; cl15842 1001585011820 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 1001585011821 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 1001585011822 putative metal binding site [ion binding]; other site 1001585011823 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 1001585011824 N-acetyltransferase; Region: Acetyltransf_2; cl00949 1001585011825 Phospholipid methyltransferase; Region: PEMT; cl00763 1001585011826 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1001585011827 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1001585011828 tetrameric interface [polypeptide binding]; other site 1001585011829 NAD binding site [chemical binding]; other site 1001585011830 catalytic residues [active] 1001585011831 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1001585011832 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 1001585011833 inhibitor-cofactor binding pocket; inhibition site 1001585011834 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585011835 catalytic residue [active] 1001585011836 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585011837 Helix-turn-helix domains; Region: HTH; cl00088 1001585011838 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 1001585011839 dimerization interface [polypeptide binding]; other site 1001585011840 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 1001585011841 dimerization interface [polypeptide binding]; other site 1001585011842 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585011843 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585011844 dimer interface [polypeptide binding]; other site 1001585011845 putative CheW interface [polypeptide binding]; other site 1001585011846 Helix-turn-helix domains; Region: HTH; cl00088 1001585011847 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1001585011848 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1001585011849 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1001585011850 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1001585011851 Bacterial protein of unknown function (DUF922); Region: DUF922; cl02415 1001585011852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585011853 NAD(P) binding site [chemical binding]; other site 1001585011854 active site 1001585011855 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1001585011856 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585011857 Coenzyme A binding pocket [chemical binding]; other site 1001585011858 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 1001585011859 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1001585011860 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 1001585011861 Walker A/P-loop; other site 1001585011862 ATP binding site [chemical binding]; other site 1001585011863 Q-loop/lid; other site 1001585011864 ABC transporter signature motif; other site 1001585011865 Walker B; other site 1001585011866 D-loop; other site 1001585011867 H-loop/switch region; other site 1001585011868 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 1001585011869 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 1001585011870 TM-ABC transporter signature motif; other site 1001585011871 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 1001585011872 TM-ABC transporter signature motif; other site 1001585011873 Transposase IS200 like; Region: Y1_Tnp; cl00848 1001585011874 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1001585011875 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1001585011876 DNA binding residues [nucleotide binding] 1001585011877 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 1001585011878 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 1001585011879 active site 1001585011880 putative substrate binding pocket [chemical binding]; other site 1001585011881 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1001585011882 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 1001585011883 putative ligand binding site [chemical binding]; other site 1001585011884 oxidase reductase; Provisional; Region: PTZ00273 1001585011885 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 1001585011886 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 1001585011887 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1001585011888 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 1001585011889 active site 1001585011890 purine riboside binding site [chemical binding]; other site 1001585011891 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 1001585011892 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 1001585011893 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1001585011894 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 1001585011895 N-terminal plug; other site 1001585011896 ligand-binding site [chemical binding]; other site 1001585011897 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1001585011898 Protein of unknown function (DUF461); Region: DUF461; cl01071 1001585011899 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1001585011900 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 1001585011901 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 1001585011902 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 1001585011903 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1001585011904 transcriptional regulator; Provisional; Region: PRK10632 1001585011905 Helix-turn-helix domains; Region: HTH; cl00088 1001585011906 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 1001585011907 putative effector binding pocket; other site 1001585011908 dimerization interface [polypeptide binding]; other site 1001585011909 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1001585011910 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1001585011911 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1001585011912 putative NAD(P) binding site [chemical binding]; other site 1001585011913 dimer interface [polypeptide binding]; other site 1001585011914 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1001585011915 Helix-turn-helix domains; Region: HTH; cl00088 1001585011916 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 1001585011917 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 1001585011918 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 1001585011919 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 1001585011920 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1001585011921 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1001585011922 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1001585011923 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 1001585011924 active site 1001585011925 motif I; other site 1001585011926 motif II; other site 1001585011927 acyl-CoA thioesterase II; Provisional; Region: PRK10526 1001585011928 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 1001585011929 active site 1001585011930 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 1001585011931 catalytic triad [active] 1001585011932 dimer interface [polypeptide binding]; other site 1001585011933 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 1001585011934 NADPH bind site [chemical binding]; other site 1001585011935 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 1001585011936 putative FMN binding site [chemical binding]; other site 1001585011937 NADPH bind site [chemical binding]; other site 1001585011938 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1001585011939 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 1001585011940 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1001585011941 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1001585011942 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 1001585011943 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 1001585011944 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1001585011945 catalytic residue [active] 1001585011946 HI0933-like protein; Region: HI0933_like; pfam03486 1001585011947 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585011948 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585011949 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585011950 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585011951 active site 1001585011952 phosphorylation site [posttranslational modification] 1001585011953 intermolecular recognition site; other site 1001585011954 dimerization interface [polypeptide binding]; other site 1001585011955 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1001585011956 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 1001585011957 putative active site [active] 1001585011958 heme pocket [chemical binding]; other site 1001585011959 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 1001585011960 active site 1001585011961 metal binding site [ion binding]; metal-binding site 1001585011962 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1001585011963 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 1001585011964 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1001585011965 ATP binding site [chemical binding]; other site 1001585011966 Mg++ binding site [ion binding]; other site 1001585011967 motif III; other site 1001585011968 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 1001585011969 nucleotide binding region [chemical binding]; other site 1001585011970 ATP-binding site [chemical binding]; other site 1001585011971 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1001585011972 active site 1001585011973 catalytic site [active] 1001585011974 substrate binding site [chemical binding]; other site 1001585011975 LabA_like proteins; Region: LabA; cd10911 1001585011976 putative metal binding site [ion binding]; other site 1001585011977 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 1001585011978 putative deacylase active site [active] 1001585011979 Uncharacterized protein family (UPF0259); Region: UPF0259; cl11642 1001585011980 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1001585011981 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 1001585011982 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 1001585011983 substrate binding pocket [chemical binding]; other site 1001585011984 membrane-bound complex binding site; other site 1001585011985 short chain dehydrogenase; Provisional; Region: PRK06181 1001585011986 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585011987 NAD(P) binding site [chemical binding]; other site 1001585011988 active site 1001585011989 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1001585011990 putative catalytic site [active] 1001585011991 putative metal binding site [ion binding]; other site 1001585011992 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1001585011993 putative catalytic site [active] 1001585011994 putative phosphate binding site [ion binding]; other site 1001585011995 putative phosphate binding site [ion binding]; other site 1001585011996 putative metal binding site [ion binding]; other site 1001585011997 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585011998 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 1001585011999 substrate binding pocket [chemical binding]; other site 1001585012000 membrane-bound complex binding site; other site 1001585012001 hinge residues; other site 1001585012002 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1001585012003 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 1001585012004 catalytic residues [active] 1001585012005 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 1001585012006 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 1001585012007 ATP binding site [chemical binding]; other site 1001585012008 putative Mg++ binding site [ion binding]; other site 1001585012009 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 1001585012010 nucleotide binding region [chemical binding]; other site 1001585012011 ATP-binding site [chemical binding]; other site 1001585012012 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1001585012013 Cation efflux family; Region: Cation_efflux; cl00316 1001585012014 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1001585012015 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 1001585012016 putative DNA binding site [nucleotide binding]; other site 1001585012017 putative Zn2+ binding site [ion binding]; other site 1001585012018 Helix-turn-helix domains; Region: HTH; cl00088 1001585012019 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 1001585012020 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1001585012021 heme-binding site [chemical binding]; other site 1001585012022 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1001585012023 pseudouridine synthase; Region: TIGR00093 1001585012024 active site 1001585012025 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1001585012026 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1001585012027 putative NAD(P) binding site [chemical binding]; other site 1001585012028 putative substrate binding site [chemical binding]; other site 1001585012029 catalytic Zn binding site [ion binding]; other site 1001585012030 structural Zn binding site [ion binding]; other site 1001585012031 dimer interface [polypeptide binding]; other site 1001585012032 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1001585012033 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585012034 Coenzyme A binding pocket [chemical binding]; other site 1001585012035 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 1001585012036 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585012037 DNA-binding site [nucleotide binding]; DNA binding site 1001585012038 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 1001585012039 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585012040 homodimer interface [polypeptide binding]; other site 1001585012041 catalytic residue [active] 1001585012042 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1001585012043 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 1001585012044 tetramer interface [polypeptide binding]; other site 1001585012045 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585012046 catalytic residue [active] 1001585012047 AMP nucleosidase; Provisional; Region: PRK08292 1001585012048 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1001585012049 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1001585012050 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 1001585012051 CoenzymeA binding site [chemical binding]; other site 1001585012052 subunit interaction site [polypeptide binding]; other site 1001585012053 PHB binding site; other site 1001585012054 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1001585012055 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585012056 active site 1001585012057 TetR family transcriptional regulator; Provisional; Region: PRK14996 1001585012058 Helix-turn-helix domains; Region: HTH; cl00088 1001585012059 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1001585012060 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1001585012061 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 1001585012062 dimer interface [polypeptide binding]; other site 1001585012063 phosphorylation site [posttranslational modification] 1001585012064 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585012065 ATP binding site [chemical binding]; other site 1001585012066 Mg2+ binding site [ion binding]; other site 1001585012067 G-X-G motif; other site 1001585012068 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585012069 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585012070 active site 1001585012071 phosphorylation site [posttranslational modification] 1001585012072 intermolecular recognition site; other site 1001585012073 dimerization interface [polypeptide binding]; other site 1001585012074 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 1001585012075 substrate binding site [chemical binding]; other site 1001585012076 dimer interface [polypeptide binding]; other site 1001585012077 ATP binding site [chemical binding]; other site 1001585012078 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 1001585012079 thiamine phosphate binding site [chemical binding]; other site 1001585012080 active site 1001585012081 pyrophosphate binding site [ion binding]; other site 1001585012082 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1001585012083 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 1001585012084 inhibitor-cofactor binding pocket; inhibition site 1001585012085 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585012086 catalytic residue [active] 1001585012087 Sel1 repeat; Region: Sel1; cl02723 1001585012088 Sel1 repeat; Region: Sel1; cl02723 1001585012089 Domain of unknown function (DUF1820); Region: DUF1820; cl11545 1001585012090 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1001585012091 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1001585012092 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 1001585012093 FeS/SAM binding site; other site 1001585012094 TRAM domain; Region: TRAM; cl01282 1001585012095 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1001585012096 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585012097 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 1001585012098 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1001585012099 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 1001585012100 Transporter associated domain; Region: CorC_HlyC; cl08393 1001585012101 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1001585012102 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1001585012103 putative active site [active] 1001585012104 catalytic triad [active] 1001585012105 putative dimer interface [polypeptide binding]; other site 1001585012106 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 1001585012107 putative active site [active] 1001585012108 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1001585012109 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1001585012110 HIGH motif; other site 1001585012111 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1001585012112 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1001585012113 active site 1001585012114 KMSKS motif; other site 1001585012115 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1001585012116 tRNA binding surface [nucleotide binding]; other site 1001585012117 Lipopolysaccharide-assembly; Region: LptE; cl01125 1001585012118 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1001585012119 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1001585012120 Domain of unknown function; Region: DUF331; cl01149 1001585012121 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1001585012122 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 1001585012123 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1001585012124 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 1001585012125 lipoyl synthase; Provisional; Region: PRK05481 1001585012126 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 1001585012127 FeS/SAM binding site; other site 1001585012128 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1001585012129 Protein of unknown function (DUF493); Region: DUF493; cl01102 1001585012130 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1001585012131 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1001585012132 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 1001585012133 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 1001585012134 Sporulation related domain; Region: SPOR; cl10051 1001585012135 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1001585012136 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 1001585012137 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1001585012138 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1001585012139 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1001585012140 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1001585012141 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1001585012142 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 1001585012143 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 1001585012144 Oligomerisation domain; Region: Oligomerisation; cl00519 1001585012145 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1001585012146 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1001585012147 active site 1001585012148 (T/H)XGH motif; other site 1001585012149 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1001585012150 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1001585012151 putative catalytic cysteine [active] 1001585012152 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585012153 Leucine carboxyl methyltransferase; Region: LCM; cl01306 1001585012154 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1001585012155 active site 1001585012156 DNA binding site [nucleotide binding] 1001585012157 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1001585012158 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 1001585012159 active site 1001585012160 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1001585012161 LrgB-like family; Region: LrgB; cl00596 1001585012162 LrgA family; Region: LrgA; cl00608 1001585012163 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 1001585012164 putative active site [active] 1001585012165 putative catalytic site [active] 1001585012166 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1001585012167 MORN repeat; Region: MORN; cl14787 1001585012168 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1001585012169 Peptidase C13 family; Region: Peptidase_C13; cl02159 1001585012170 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1001585012171 NAD binding site [chemical binding]; other site 1001585012172 active site 1001585012173 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 1001585012174 S-adenosylmethionine binding site [chemical binding]; other site 1001585012175 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1001585012176 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585012177 active site 1001585012178 phosphorylation site [posttranslational modification] 1001585012179 intermolecular recognition site; other site 1001585012180 dimerization interface [polypeptide binding]; other site 1001585012181 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 1001585012182 DNA binding residues [nucleotide binding] 1001585012183 dimerization interface [polypeptide binding]; other site 1001585012184 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 1001585012185 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585012186 putative active site [active] 1001585012187 heme pocket [chemical binding]; other site 1001585012188 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 1001585012189 dimer interface [polypeptide binding]; other site 1001585012190 phosphorylation site [posttranslational modification] 1001585012191 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585012192 ATP binding site [chemical binding]; other site 1001585012193 G-X-G motif; other site 1001585012194 acyl-CoA synthetase; Validated; Region: PRK08162 1001585012195 AMP-binding enzyme; Region: AMP-binding; cl15778 1001585012196 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1001585012197 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1001585012198 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1001585012199 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585012200 active site 1001585012201 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1001585012202 putative acyltransferase; Provisional; Region: PRK05790 1001585012203 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 1001585012204 dimer interface [polypeptide binding]; other site 1001585012205 active site 1001585012206 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1001585012207 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 1001585012208 putative deacylase active site [active] 1001585012209 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 1001585012210 aromatic acid decarboxylase; Validated; Region: PRK05920 1001585012211 Flavoprotein; Region: Flavoprotein; cl08021 1001585012212 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1001585012213 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1001585012214 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1001585012215 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1001585012216 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585012217 Coenzyme A binding pocket [chemical binding]; other site 1001585012218 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 1001585012219 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 1001585012220 dimer interface [polypeptide binding]; other site 1001585012221 substrate binding site [chemical binding]; other site 1001585012222 metal binding sites [ion binding]; metal-binding site 1001585012223 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1001585012224 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1001585012225 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 1001585012226 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585012227 dimer interface [polypeptide binding]; other site 1001585012228 putative CheW interface [polypeptide binding]; other site 1001585012229 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 1001585012230 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1001585012231 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; cl16911 1001585012232 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 1001585012233 binding surface 1001585012234 TPR motif; other site 1001585012235 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 1001585012236 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 1001585012237 putative binding surface; other site 1001585012238 active site 1001585012239 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1001585012240 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585012241 ATP binding site [chemical binding]; other site 1001585012242 Mg2+ binding site [ion binding]; other site 1001585012243 G-X-G motif; other site 1001585012244 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 1001585012245 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585012246 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585012247 active site 1001585012248 phosphorylation site [posttranslational modification] 1001585012249 intermolecular recognition site; other site 1001585012250 dimerization interface [polypeptide binding]; other site 1001585012251 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 1001585012252 CheB methylesterase; Region: CheB_methylest; pfam01339 1001585012253 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585012254 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585012255 active site 1001585012256 phosphorylation site [posttranslational modification] 1001585012257 intermolecular recognition site; other site 1001585012258 dimerization interface [polypeptide binding]; other site 1001585012259 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585012260 metal binding site [ion binding]; metal-binding site 1001585012261 active site 1001585012262 I-site; other site 1001585012263 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 1001585012264 active site 1001585012265 trimer interface [polypeptide binding]; other site 1001585012266 dimer interface [polypeptide binding]; other site 1001585012267 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 1001585012268 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1001585012269 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1001585012270 shikimate binding site; other site 1001585012271 NAD(P) binding site [chemical binding]; other site 1001585012272 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585012273 Helix-turn-helix domains; Region: HTH; cl00088 1001585012274 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1001585012275 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 1001585012276 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1001585012277 dimer interface [polypeptide binding]; other site 1001585012278 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1001585012279 active site 1001585012280 Fe binding site [ion binding]; other site 1001585012281 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1001585012282 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1001585012283 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1001585012284 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585012285 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1001585012286 Helix-turn-helix domains; Region: HTH; cl00088 1001585012287 Bacterial transcriptional regulator; Region: IclR; pfam01614 1001585012288 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1001585012289 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 1001585012290 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1001585012291 NMT1-like family; Region: NMT1_2; cl15260 1001585012292 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585012293 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 1001585012294 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585012295 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585012296 dimer interface [polypeptide binding]; other site 1001585012297 putative CheW interface [polypeptide binding]; other site 1001585012298 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 1001585012299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585012300 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1001585012301 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1001585012302 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 1001585012303 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1001585012304 tetramer interface [polypeptide binding]; other site 1001585012305 active site 1001585012306 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1001585012307 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 1001585012308 dimer interface [polypeptide binding]; other site 1001585012309 active site 1001585012310 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 1001585012311 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 1001585012312 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585012313 dimer interface [polypeptide binding]; other site 1001585012314 putative CheW interface [polypeptide binding]; other site 1001585012315 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585012316 Benzoate membrane transport protein; Region: BenE; pfam03594 1001585012317 benzoate transporter; Region: benE; TIGR00843 1001585012318 benzoate transport; Region: 2A0115; TIGR00895 1001585012319 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 1001585012320 putative substrate translocation pore; other site 1001585012321 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1001585012322 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 1001585012323 putative NAD(P) binding site [chemical binding]; other site 1001585012324 active site 1001585012325 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 1001585012326 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 1001585012327 catalytic loop [active] 1001585012328 iron binding site [ion binding]; other site 1001585012329 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 1001585012330 FAD binding pocket [chemical binding]; other site 1001585012331 FAD binding motif [chemical binding]; other site 1001585012332 phosphate binding motif [ion binding]; other site 1001585012333 beta-alpha-beta structure motif; other site 1001585012334 NAD binding pocket [chemical binding]; other site 1001585012335 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 1001585012336 inter-subunit interface; other site 1001585012337 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 1001585012338 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 1001585012339 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 1001585012340 putative alpha subunit interface [polypeptide binding]; other site 1001585012341 putative active site [active] 1001585012342 putative substrate binding site [chemical binding]; other site 1001585012343 Fe binding site [ion binding]; other site 1001585012344 Cupin domain; Region: Cupin_2; cl09118 1001585012345 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585012346 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585012347 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585012348 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1001585012349 Helix-turn-helix domains; Region: HTH; cl00088 1001585012350 Bacterial transcriptional regulator; Region: IclR; pfam01614 1001585012351 Membrane transport protein; Region: Mem_trans; cl09117 1001585012352 Predicted ATPase [General function prediction only]; Region: COG1485 1001585012353 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 1001585012354 heterodimer interface [polypeptide binding]; other site 1001585012355 active site 1001585012356 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 1001585012357 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 1001585012358 active site 1001585012359 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1001585012360 Helix-turn-helix domains; Region: HTH; cl00088 1001585012361 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 1001585012362 dimerization interface [polypeptide binding]; other site 1001585012363 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 1001585012364 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1001585012365 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 1001585012366 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1001585012367 catalytic residue [active] 1001585012368 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 1001585012369 intersubunit interface [polypeptide binding]; other site 1001585012370 active site 1001585012371 Zn2+ binding site [ion binding]; other site 1001585012372 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1001585012373 uncharacterized xylulose kinase-like proteins, subgroup 2; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 1001585012374 N- and C-terminal domain interface [polypeptide binding]; other site 1001585012375 active site 1001585012376 catalytic site [active] 1001585012377 metal binding site [ion binding]; metal-binding site 1001585012378 xylulose binding site [chemical binding]; other site 1001585012379 ATP binding site [chemical binding]; other site 1001585012380 putative homodimer interface [polypeptide binding]; other site 1001585012381 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585012382 Helix-turn-helix domains; Region: HTH; cl00088 1001585012383 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1001585012384 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1001585012385 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 1001585012386 putative substrate translocation pore; other site 1001585012387 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1001585012388 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 1001585012389 dimer interface [polypeptide binding]; other site 1001585012390 active site 1001585012391 Muconolactone delta-isomerase; Region: MIase; cl01992 1001585012392 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 1001585012393 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 1001585012394 octamer interface [polypeptide binding]; other site 1001585012395 active site 1001585012396 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1001585012397 Helix-turn-helix domains; Region: HTH; cl00088 1001585012398 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 1001585012399 dimerization interface [polypeptide binding]; other site 1001585012400 NIPSNAP; Region: NIPSNAP; pfam07978 1001585012401 NIPSNAP; Region: NIPSNAP; pfam07978 1001585012402 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585012403 Flavin Reductases; Region: FlaRed; cl00801 1001585012404 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1001585012405 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 1001585012406 FMN-binding pocket [chemical binding]; other site 1001585012407 flavin binding motif; other site 1001585012408 phosphate binding motif [ion binding]; other site 1001585012409 beta-alpha-beta structure motif; other site 1001585012410 NAD binding pocket [chemical binding]; other site 1001585012411 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 1001585012412 catalytic loop [active] 1001585012413 iron binding site [ion binding]; other site 1001585012414 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1001585012415 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585012416 NAD(P) binding site [chemical binding]; other site 1001585012417 active site 1001585012418 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 1001585012419 inter-subunit interface; other site 1001585012420 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 1001585012421 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 1001585012422 [2Fe-2S] cluster binding site [ion binding]; other site 1001585012423 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 1001585012424 putative alpha subunit interface [polypeptide binding]; other site 1001585012425 putative active site [active] 1001585012426 putative substrate binding site [chemical binding]; other site 1001585012427 Fe binding site [ion binding]; other site 1001585012428 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 1001585012429 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585012430 active site 1001585012431 Amidase; Region: Amidase; cl11426 1001585012432 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1001585012433 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 1001585012434 putative ligand binding site [chemical binding]; other site 1001585012435 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 1001585012436 TM-ABC transporter signature motif; other site 1001585012437 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 1001585012438 TM-ABC transporter signature motif; other site 1001585012439 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1001585012440 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 1001585012441 Walker A/P-loop; other site 1001585012442 ATP binding site [chemical binding]; other site 1001585012443 Q-loop/lid; other site 1001585012444 ABC transporter signature motif; other site 1001585012445 Walker B; other site 1001585012446 D-loop; other site 1001585012447 H-loop/switch region; other site 1001585012448 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1001585012449 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 1001585012450 Walker A/P-loop; other site 1001585012451 ATP binding site [chemical binding]; other site 1001585012452 Q-loop/lid; other site 1001585012453 ABC transporter signature motif; other site 1001585012454 Walker B; other site 1001585012455 D-loop; other site 1001585012456 H-loop/switch region; other site 1001585012457 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1001585012458 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585012459 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1001585012460 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 1001585012461 intersubunit interface [polypeptide binding]; other site 1001585012462 active site 1001585012463 Zn2+ binding site [ion binding]; other site 1001585012464 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 1001585012465 putative active site [active] 1001585012466 heme pocket [chemical binding]; other site 1001585012467 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585012468 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585012469 dimer interface [polypeptide binding]; other site 1001585012470 putative CheW interface [polypeptide binding]; other site 1001585012471 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1001585012472 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 1001585012473 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1001585012474 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1001585012475 NAD(P) binding site [chemical binding]; other site 1001585012476 catalytic residues [active] 1001585012477 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 1001585012478 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585012479 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1001585012480 Helix-turn-helix domains; Region: HTH; cl00088 1001585012481 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1001585012482 methylamine dehydrogenase heavy chain; Region: TTQ_MADH_Hv; TIGR02658 1001585012483 DoxX; Region: DoxX; cl00976 1001585012484 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1001585012485 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 1001585012486 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1001585012487 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 1001585012488 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1001585012489 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1001585012490 substrate binding pocket [chemical binding]; other site 1001585012491 chain length determination region; other site 1001585012492 substrate-Mg2+ binding site; other site 1001585012493 catalytic residues [active] 1001585012494 aspartate-rich region 1; other site 1001585012495 active site lid residues [active] 1001585012496 aspartate-rich region 2; other site 1001585012497 Protein of unknown function (DUF2388); Region: DUF2388; cl09731 1001585012498 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1001585012499 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1001585012500 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1001585012501 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 1001585012502 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 1001585012503 2-oxoglutarate dehydrogenase complex dihydrolipoamide succinyltransferase (E2 component); Region: sucB; TIGR01347 1001585012504 carboxyltransferase (CT) interaction site; other site 1001585012505 biotinylation site [posttranslational modification]; other site 1001585012506 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1001585012507 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 1001585012508 trimer interface [polypeptide binding]; other site 1001585012509 oxyanion hole (OAH) forming residues; other site 1001585012510 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 1001585012511 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585012512 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585012513 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1001585012514 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 1001585012515 TPP-binding site; other site 1001585012516 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 1001585012517 PYR/PP interface [polypeptide binding]; other site 1001585012518 dimer interface [polypeptide binding]; other site 1001585012519 TPP binding site [chemical binding]; other site 1001585012520 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1001585012521 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 1001585012522 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 1001585012523 [4Fe-4S] binding site [ion binding]; other site 1001585012524 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 1001585012525 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 1001585012526 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 1001585012527 molybdopterin cofactor binding site; other site 1001585012528 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1001585012529 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1001585012530 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 1001585012531 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1001585012532 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 1001585012533 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1001585012534 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1001585012535 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 1001585012536 N-terminal plug; other site 1001585012537 ligand-binding site [chemical binding]; other site 1001585012538 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1001585012539 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 1001585012540 cobalamin binding residues [chemical binding]; other site 1001585012541 putative BtuC binding residues; other site 1001585012542 dimer interface [polypeptide binding]; other site 1001585012543 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 1001585012544 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 1001585012545 dimerization interface [polypeptide binding]; other site 1001585012546 active site 1001585012547 Predicted aspartyl protease [General function prediction only]; Region: COG3577 1001585012548 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1001585012549 catalytic motif [active] 1001585012550 Catalytic residue [active] 1001585012551 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1001585012552 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 1001585012553 substrate binding pocket [chemical binding]; other site 1001585012554 membrane-bound complex binding site; other site 1001585012555 hinge residues; other site 1001585012556 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1001585012557 tetramer interfaces [polypeptide binding]; other site 1001585012558 binuclear metal-binding site [ion binding]; other site 1001585012559 thiamine monophosphate kinase; Provisional; Region: PRK05731 1001585012560 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 1001585012561 ATP binding site [chemical binding]; other site 1001585012562 dimerization interface [polypeptide binding]; other site 1001585012563 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 1001585012564 putative RNA binding site [nucleotide binding]; other site 1001585012565 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 1001585012566 homopentamer interface [polypeptide binding]; other site 1001585012567 active site 1001585012568 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1001585012569 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 1001585012570 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; cl00522 1001585012571 dimerization interface [polypeptide binding]; other site 1001585012572 active site 1001585012573 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1001585012574 Lumazine binding domain; Region: Lum_binding; pfam00677 1001585012575 Lumazine binding domain; Region: Lum_binding; pfam00677 1001585012576 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1001585012577 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 1001585012578 catalytic motif [active] 1001585012579 Zn binding site [ion binding]; other site 1001585012580 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; cl00161 1001585012581 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1001585012582 ATP cone domain; Region: ATP-cone; pfam03477 1001585012583 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 1001585012584 Predicted methyltransferase [General function prediction only]; Region: COG3897 1001585012585 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1001585012586 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 1001585012587 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 1001585012588 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1001585012589 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 1001585012590 Walker A/P-loop; other site 1001585012591 ATP binding site [chemical binding]; other site 1001585012592 Q-loop/lid; other site 1001585012593 ABC transporter signature motif; other site 1001585012594 Walker B; other site 1001585012595 D-loop; other site 1001585012596 H-loop/switch region; other site 1001585012597 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1001585012598 FtsX-like permease family; Region: FtsX; cl15850 1001585012599 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 1001585012600 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1001585012601 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 1001585012602 binding surface 1001585012603 TPR motif; other site 1001585012604 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1001585012605 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1001585012606 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1001585012607 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1001585012608 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 1001585012609 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 1001585012610 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 1001585012611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585012612 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1001585012613 NAD(P) binding site [chemical binding]; other site 1001585012614 active site 1001585012615 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1001585012616 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585012617 NAD(P) binding site [chemical binding]; other site 1001585012618 active site 1001585012619 Helix-turn-helix domains; Region: HTH; cl00088 1001585012620 glutathionine S-transferase; Provisional; Region: PRK10542 1001585012621 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 1001585012622 C-terminal domain interface [polypeptide binding]; other site 1001585012623 GSH binding site (G-site) [chemical binding]; other site 1001585012624 dimer interface [polypeptide binding]; other site 1001585012625 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1001585012626 N-terminal domain interface [polypeptide binding]; other site 1001585012627 dimer interface [polypeptide binding]; other site 1001585012628 substrate binding pocket (H-site) [chemical binding]; other site 1001585012629 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 1001585012630 dimer interface [polypeptide binding]; other site 1001585012631 ssDNA binding site [nucleotide binding]; other site 1001585012632 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1001585012633 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 1001585012634 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1001585012635 putative substrate translocation pore; other site 1001585012636 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1001585012637 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 1001585012638 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 1001585012639 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 1001585012640 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1001585012641 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1001585012642 heme binding site [chemical binding]; other site 1001585012643 ferroxidase pore; other site 1001585012644 ferroxidase diiron center [ion binding]; other site 1001585012645 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1001585012646 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1001585012647 dimer interface [polypeptide binding]; other site 1001585012648 active site 1001585012649 heme binding site [chemical binding]; other site 1001585012650 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1001585012651 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 1001585012652 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1001585012653 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1001585012654 alphaNTD homodimer interface [polypeptide binding]; other site 1001585012655 alphaNTD - beta interaction site [polypeptide binding]; other site 1001585012656 alphaNTD - beta' interaction site [polypeptide binding]; other site 1001585012657 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 1001585012658 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1001585012659 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1001585012660 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 1001585012661 RNA binding surface [nucleotide binding]; other site 1001585012662 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 1001585012663 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 1001585012664 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1001585012665 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 1001585012666 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1001585012667 SecY translocase; Region: SecY; pfam00344 1001585012668 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 1001585012669 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 1001585012670 23S rRNA binding site [nucleotide binding]; other site 1001585012671 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1001585012672 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1001585012673 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1001585012674 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 1001585012675 5S rRNA interface [nucleotide binding]; other site 1001585012676 23S rRNA interface [nucleotide binding]; other site 1001585012677 L5 interface [polypeptide binding]; other site 1001585012678 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1001585012679 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1001585012680 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1001585012681 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 1001585012682 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 1001585012683 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1001585012684 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1001585012685 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1001585012686 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1001585012687 KOW motif; Region: KOW; cl00354 1001585012688 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 1001585012689 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 1001585012690 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 1001585012691 23S rRNA interface [nucleotide binding]; other site 1001585012692 putative translocon interaction site; other site 1001585012693 signal recognition particle (SRP54) interaction site; other site 1001585012694 L23 interface [polypeptide binding]; other site 1001585012695 trigger factor interaction site; other site 1001585012696 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 1001585012697 23S rRNA interface [nucleotide binding]; other site 1001585012698 5S rRNA interface [nucleotide binding]; other site 1001585012699 putative antibiotic binding site [chemical binding]; other site 1001585012700 L25 interface [polypeptide binding]; other site 1001585012701 L27 interface [polypeptide binding]; other site 1001585012702 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1001585012703 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 1001585012704 G-X-X-G motif; other site 1001585012705 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1001585012706 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 1001585012707 putative translocon binding site; other site 1001585012708 protein-rRNA interface [nucleotide binding]; other site 1001585012709 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 1001585012710 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1001585012711 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1001585012712 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1001585012713 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 1001585012714 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 1001585012715 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 1001585012716 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 1001585012717 elongation factor Tu; Reviewed; Region: PRK00049 1001585012718 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1001585012719 G1 box; other site 1001585012720 GEF interaction site [polypeptide binding]; other site 1001585012721 GTP/Mg2+ binding site [chemical binding]; other site 1001585012722 Switch I region; other site 1001585012723 G2 box; other site 1001585012724 G3 box; other site 1001585012725 Switch II region; other site 1001585012726 G4 box; other site 1001585012727 G5 box; other site 1001585012728 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 1001585012729 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 1001585012730 Antibiotic Binding Site [chemical binding]; other site 1001585012731 elongation factor G; Reviewed; Region: PRK00007 1001585012732 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1001585012733 G1 box; other site 1001585012734 putative GEF interaction site [polypeptide binding]; other site 1001585012735 GTP/Mg2+ binding site [chemical binding]; other site 1001585012736 Switch I region; other site 1001585012737 G2 box; other site 1001585012738 G3 box; other site 1001585012739 Switch II region; other site 1001585012740 G4 box; other site 1001585012741 G5 box; other site 1001585012742 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 1001585012743 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 1001585012744 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 1001585012745 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 1001585012746 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 1001585012747 S17 interaction site [polypeptide binding]; other site 1001585012748 S8 interaction site; other site 1001585012749 16S rRNA interaction site [nucleotide binding]; other site 1001585012750 streptomycin interaction site [chemical binding]; other site 1001585012751 23S rRNA interaction site [nucleotide binding]; other site 1001585012752 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1001585012753 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1001585012754 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1001585012755 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 1001585012756 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1001585012757 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 1001585012758 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1001585012759 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1001585012760 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1001585012761 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 1001585012762 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1001585012763 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1001585012764 DNA binding site [nucleotide binding] 1001585012765 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1001585012766 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 1001585012767 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1001585012768 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1001585012769 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1001585012770 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 1001585012771 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 1001585012772 RPB11 interaction site [polypeptide binding]; other site 1001585012773 RPB12 interaction site [polypeptide binding]; other site 1001585012774 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 1001585012775 RPB3 interaction site [polypeptide binding]; other site 1001585012776 RPB1 interaction site [polypeptide binding]; other site 1001585012777 RPB11 interaction site [polypeptide binding]; other site 1001585012778 RPB10 interaction site [polypeptide binding]; other site 1001585012779 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 1001585012780 core dimer interface [polypeptide binding]; other site 1001585012781 peripheral dimer interface [polypeptide binding]; other site 1001585012782 L10 interface [polypeptide binding]; other site 1001585012783 L11 interface [polypeptide binding]; other site 1001585012784 putative EF-Tu interaction site [polypeptide binding]; other site 1001585012785 putative EF-G interaction site [polypeptide binding]; other site 1001585012786 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 1001585012787 23S rRNA interface [nucleotide binding]; other site 1001585012788 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1001585012789 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 1001585012790 mRNA/rRNA interface [nucleotide binding]; other site 1001585012791 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1001585012792 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 1001585012793 23S rRNA interface [nucleotide binding]; other site 1001585012794 L7/L12 interface [polypeptide binding]; other site 1001585012795 putative thiostrepton binding site; other site 1001585012796 L25 interface [polypeptide binding]; other site 1001585012797 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 1001585012798 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1001585012799 putative homodimer interface [polypeptide binding]; other site 1001585012800 KOW motif; Region: KOW; cl00354 1001585012801 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 1001585012802 elongation factor Tu; Reviewed; Region: PRK00049 1001585012803 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1001585012804 G1 box; other site 1001585012805 GEF interaction site [polypeptide binding]; other site 1001585012806 GTP/Mg2+ binding site [chemical binding]; other site 1001585012807 Switch I region; other site 1001585012808 G2 box; other site 1001585012809 G3 box; other site 1001585012810 Switch II region; other site 1001585012811 G4 box; other site 1001585012812 G5 box; other site 1001585012813 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 1001585012814 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 1001585012815 Antibiotic Binding Site [chemical binding]; other site 1001585012816 Sporulation related domain; Region: SPOR; cl10051 1001585012817 Type III pantothenate kinase; Region: Pan_kinase; cl09130 1001585012818 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1001585012819 Helix-turn-helix domains; Region: HTH; cl00088 1001585012820 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1001585012821 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1001585012822 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1001585012823 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1001585012824 active site 1001585012825 HIGH motif; other site 1001585012826 dimer interface [polypeptide binding]; other site 1001585012827 KMSKS motif; other site 1001585012828 putative peptidase; Provisional; Region: PRK11649 1001585012829 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1001585012830 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 1001585012831 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1001585012832 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1001585012833 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1001585012834 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585012835 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 1001585012836 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 1001585012837 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1001585012838 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 1001585012839 FMN binding site [chemical binding]; other site 1001585012840 substrate binding site [chemical binding]; other site 1001585012841 putative catalytic residue [active] 1001585012842 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1001585012843 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1001585012844 catalytic residue [active] 1001585012845 Protein of unknown function (DUF805); Region: DUF805; cl01224 1001585012846 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 1001585012847 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1001585012848 classical (c) SDRs; Region: SDR_c; cd05233 1001585012849 NAD(P) binding site [chemical binding]; other site 1001585012850 active site 1001585012851 Ycf46; Provisional; Region: ycf46; CHL00195 1001585012852 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585012853 Walker A motif; other site 1001585012854 ATP binding site [chemical binding]; other site 1001585012855 Walker B motif; other site 1001585012856 arginine finger; other site 1001585012857 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 1001585012858 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1001585012859 diiron binding motif [ion binding]; other site 1001585012860 OsmC-like protein; Region: OsmC; cl00767 1001585012861 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1001585012862 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 1001585012863 ligand binding site [chemical binding]; other site 1001585012864 flexible hinge region; other site 1001585012865 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 1001585012866 putative switch regulator; other site 1001585012867 non-specific DNA interactions [nucleotide binding]; other site 1001585012868 DNA binding site [nucleotide binding] 1001585012869 sequence specific DNA binding site [nucleotide binding]; other site 1001585012870 putative cAMP binding site [chemical binding]; other site 1001585012871 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 1001585012872 active site 1001585012873 ribulose/triose binding site [chemical binding]; other site 1001585012874 phosphate binding site [ion binding]; other site 1001585012875 substrate (anthranilate) binding pocket [chemical binding]; other site 1001585012876 product (indole) binding pocket [chemical binding]; other site 1001585012877 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1001585012878 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1001585012879 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1001585012880 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1001585012881 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1001585012882 glutamine binding [chemical binding]; other site 1001585012883 catalytic triad [active] 1001585012884 anthranilate synthase component I; Provisional; Region: PRK13565 1001585012885 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1001585012886 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1001585012887 phosphoglycolate phosphatase; Provisional; Region: PRK13223 1001585012888 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 1001585012889 motif II; other site 1001585012890 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 1001585012891 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1001585012892 substrate binding site [chemical binding]; other site 1001585012893 hexamer interface [polypeptide binding]; other site 1001585012894 metal binding site [ion binding]; metal-binding site 1001585012895 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1001585012896 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1001585012897 tetramerization interface [polypeptide binding]; other site 1001585012898 NAD(P) binding site [chemical binding]; other site 1001585012899 catalytic residues [active] 1001585012900 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1001585012901 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1001585012902 active site 1001585012903 NAD binding site [chemical binding]; other site 1001585012904 metal binding site [ion binding]; metal-binding site 1001585012905 PAS domain S-box; Region: sensory_box; TIGR00229 1001585012906 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1001585012907 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1001585012908 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1001585012909 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585012910 Walker A motif; other site 1001585012911 ATP binding site [chemical binding]; other site 1001585012912 Walker B motif; other site 1001585012913 arginine finger; other site 1001585012914 Helix-turn-helix domains; Region: HTH; cl00088 1001585012915 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 1001585012916 dimer interface [polypeptide binding]; other site 1001585012917 conserved gate region; other site 1001585012918 putative PBP binding loops; other site 1001585012919 ABC-ATPase subunit interface; other site 1001585012920 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 1001585012921 dimer interface [polypeptide binding]; other site 1001585012922 conserved gate region; other site 1001585012923 putative PBP binding loops; other site 1001585012924 ABC-ATPase subunit interface; other site 1001585012925 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1001585012926 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 1001585012927 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1001585012928 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 1001585012929 Walker A/P-loop; other site 1001585012930 ATP binding site [chemical binding]; other site 1001585012931 Q-loop/lid; other site 1001585012932 ABC transporter signature motif; other site 1001585012933 Walker B; other site 1001585012934 D-loop; other site 1001585012935 H-loop/switch region; other site 1001585012936 TOBE domain; Region: TOBE_2; cl01440 1001585012937 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1001585012938 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585012939 active site 1001585012940 phosphorylation site [posttranslational modification] 1001585012941 intermolecular recognition site; other site 1001585012942 dimerization interface [polypeptide binding]; other site 1001585012943 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 1001585012944 DNA binding residues [nucleotide binding] 1001585012945 dimerization interface [polypeptide binding]; other site 1001585012946 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1001585012947 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; cl15306 1001585012948 substrate binding pocket [chemical binding]; other site 1001585012949 membrane-bound complex binding site; other site 1001585012950 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 1001585012951 PAS domain; Region: PAS_9; pfam13426 1001585012952 putative active site [active] 1001585012953 heme pocket [chemical binding]; other site 1001585012954 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1001585012955 putative active site [active] 1001585012956 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1001585012957 heme pocket [chemical binding]; other site 1001585012958 Histidine kinase; Region: HisKA_3; pfam07730 1001585012959 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585012960 ATP binding site [chemical binding]; other site 1001585012961 Mg2+ binding site [ion binding]; other site 1001585012962 G-X-G motif; other site 1001585012963 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 1001585012964 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1001585012965 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 1001585012966 putative metal binding site [ion binding]; other site 1001585012967 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 1001585012968 HSP70 interaction site [polypeptide binding]; other site 1001585012969 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1001585012970 Substrate binding site; other site 1001585012971 metal-binding site 1001585012972 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1001585012973 Phosphotransferase enzyme family; Region: APH; pfam01636 1001585012974 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1001585012975 OstA-like protein; Region: OstA; cl00844 1001585012976 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1001585012977 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1001585012978 SurA N-terminal domain; Region: SurA_N_3; cl07813 1001585012979 PPIC-type PPIASE domain; Region: Rotamase; cl08278 1001585012980 PPIC-type PPIASE domain; Region: Rotamase; cl08278 1001585012981 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 1001585012982 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1001585012983 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; cl16911 1001585012984 Protein of unknown function (DUF525); Region: DUF525; cl01119 1001585012985 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1001585012986 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1001585012987 active site 1001585012988 metal binding site [ion binding]; metal-binding site 1001585012989 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 1001585012990 active site residue [active] 1001585012991 PrkA family serine protein kinase; Provisional; Region: PRK15455 1001585012992 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1001585012993 Uncharacterized conserved protein [Function unknown]; Region: COG2718 1001585012994 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 1001585012995 SpoVR family protein; Provisional; Region: PRK11767 1001585012996 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1001585012997 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1001585012998 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1001585012999 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1001585013000 active site 1001585013001 NTP binding site [chemical binding]; other site 1001585013002 metal binding triad [ion binding]; metal-binding site 1001585013003 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1001585013004 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1001585013005 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 1001585013006 catalytic center binding site [active] 1001585013007 ATP binding site [chemical binding]; other site 1001585013008 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 1001585013009 active site 1001585013010 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 1001585013011 UGMP family protein; Validated; Region: PRK09604 1001585013012 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 1001585013013 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 1001585013014 DNA primase, catalytic core; Region: dnaG; TIGR01391 1001585013015 CHC2 zinc finger; Region: zf-CHC2; cl15369 1001585013016 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1001585013017 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 1001585013018 active site 1001585013019 metal binding site [ion binding]; metal-binding site 1001585013020 interdomain interaction site; other site 1001585013021 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1001585013022 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 1001585013023 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1001585013024 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1001585013025 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1001585013026 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1001585013027 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585013028 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1001585013029 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 1001585013030 DNA binding residues [nucleotide binding] 1001585013031 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585013032 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 1001585013033 substrate binding pocket [chemical binding]; other site 1001585013034 membrane-bound complex binding site; other site 1001585013035 hinge residues; other site 1001585013036 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 1001585013037 PAS fold; Region: PAS_3; pfam08447 1001585013038 putative active site [active] 1001585013039 heme pocket [chemical binding]; other site 1001585013040 PAS domain S-box; Region: sensory_box; TIGR00229 1001585013041 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 1001585013042 putative active site [active] 1001585013043 heme pocket [chemical binding]; other site 1001585013044 PAS domain S-box; Region: sensory_box; TIGR00229 1001585013045 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 1001585013046 putative active site [active] 1001585013047 heme pocket [chemical binding]; other site 1001585013048 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 1001585013049 PAS domain; Region: PAS_9; pfam13426 1001585013050 putative active site [active] 1001585013051 heme pocket [chemical binding]; other site 1001585013052 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585013053 metal binding site [ion binding]; metal-binding site 1001585013054 active site 1001585013055 I-site; other site 1001585013056 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 1001585013057 TIGR03440 family protein; Region: unchr_TIGR03440 1001585013058 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 1001585013059 probable methyltransferase; Region: TIGR03438 1001585013060 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; cl16911 1001585013061 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 1001585013062 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 1001585013063 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1001585013064 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585013065 active site 1001585013066 phosphorylation site [posttranslational modification] 1001585013067 intermolecular recognition site; other site 1001585013068 dimerization interface [polypeptide binding]; other site 1001585013069 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 1001585013070 DNA binding residues [nucleotide binding] 1001585013071 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 1001585013072 dimer interface [polypeptide binding]; other site 1001585013073 phosphorylation site [posttranslational modification] 1001585013074 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585013075 ATP binding site [chemical binding]; other site 1001585013076 Mg2+ binding site [ion binding]; other site 1001585013077 G-X-G motif; other site 1001585013078 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585013079 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585013080 active site 1001585013081 phosphorylation site [posttranslational modification] 1001585013082 intermolecular recognition site; other site 1001585013083 dimerization interface [polypeptide binding]; other site 1001585013084 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585013085 metal binding site [ion binding]; metal-binding site 1001585013086 active site 1001585013087 I-site; other site 1001585013088 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 1001585013089 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1001585013090 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585013091 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585013092 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1001585013093 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585013094 Walker A motif; other site 1001585013095 ATP binding site [chemical binding]; other site 1001585013096 Walker B motif; other site 1001585013097 arginine finger; other site 1001585013098 Helix-turn-helix domains; Region: HTH; cl00088 1001585013099 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1001585013100 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 1001585013101 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 1001585013102 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 1001585013103 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1001585013104 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 1001585013105 putative molybdopterin cofactor binding site [chemical binding]; other site 1001585013106 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 1001585013107 putative molybdopterin cofactor binding site; other site 1001585013108 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1001585013109 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1001585013110 conserved cys residue [active] 1001585013111 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 1001585013112 acetylornithine aminotransferase; Provisional; Region: PRK02627 1001585013113 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1001585013114 catalytic residue [active] 1001585013115 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 1001585013116 MOSC domain; Region: MOSC; pfam03473 1001585013117 3-alpha domain; Region: 3-alpha; pfam03475 1001585013118 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 1001585013119 Helix-turn-helix domains; Region: HTH; cl00088 1001585013120 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 1001585013121 dimerization interface [polypeptide binding]; other site 1001585013122 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585013123 Helix-turn-helix domains; Region: HTH; cl00088 1001585013124 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1001585013125 Endonuclease I; Region: Endonuclease_1; cl01003 1001585013126 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1001585013127 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585013128 DNA-binding site [nucleotide binding]; DNA binding site 1001585013129 UTRA domain; Region: UTRA; cl01230 1001585013130 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1001585013131 active sites [active] 1001585013132 tetramer interface [polypeptide binding]; other site 1001585013133 urocanate hydratase; Provisional; Region: PRK05414 1001585013134 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 1001585013135 Nucleoside recognition; Region: Gate; cl00486 1001585013136 Arginase family; Region: Arginase; cl00306 1001585013137 imidazolonepropionase; Validated; Region: PRK09356 1001585013138 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 1001585013139 active site 1001585013140 HutD; Region: HutD; cl01532 1001585013141 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1001585013142 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1001585013143 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585013144 active site 1001585013145 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1001585013146 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585013147 metal binding site [ion binding]; metal-binding site 1001585013148 active site 1001585013149 I-site; other site 1001585013150 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1001585013151 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1001585013152 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1001585013153 active site 1001585013154 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1001585013155 SprA-related family; Region: SprA-related; pfam12118 1001585013156 AAA domain; Region: AAA_26; pfam13500 1001585013157 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585013158 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1001585013159 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 1001585013160 S-adenosylmethionine binding site [chemical binding]; other site 1001585013161 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 1001585013162 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 1001585013163 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 1001585013164 substrate-cofactor binding pocket; other site 1001585013165 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585013166 catalytic residue [active] 1001585013167 biotin synthase; Provisional; Region: PRK15108 1001585013168 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 1001585013169 FeS/SAM binding site; other site 1001585013170 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 1001585013171 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1001585013172 active site 1001585013173 Helix-turn-helix domains; Region: HTH; cl00088 1001585013174 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 1001585013175 TOBE domain; Region: TOBE_2; cl01440 1001585013176 TOBE domain; Region: TOBE_2; cl01440 1001585013177 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1001585013178 active site 1001585013179 ATP binding site [chemical binding]; other site 1001585013180 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1001585013181 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1001585013182 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1001585013183 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1001585013184 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1001585013185 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585013186 Coenzyme A binding pocket [chemical binding]; other site 1001585013187 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 1001585013188 active site 1001585013189 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1001585013190 Sulfatase; Region: Sulfatase; cl10460 1001585013191 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1001585013192 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 1001585013193 ligand binding site [chemical binding]; other site 1001585013194 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 1001585013195 flexible hinge region; other site 1001585013196 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 1001585013197 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1001585013198 metal binding triad; other site 1001585013199 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1001585013200 active site 1001585013201 catalytic site [active] 1001585013202 substrate binding site [chemical binding]; other site 1001585013203 putative protease; Provisional; Region: PRK15452 1001585013204 Peptidase family U32; Region: Peptidase_U32; cl03113 1001585013205 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1001585013206 Sodium:solute symporter family; Region: SSF; cl00456 1001585013207 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 1001585013208 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1001585013209 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 1001585013210 N-terminal plug; other site 1001585013211 ligand-binding site [chemical binding]; other site 1001585013212 Inner membrane protein CreD; Region: CreD; cl01844 1001585013213 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 1001585013214 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1001585013215 DEAD_2; Region: DEAD_2; pfam06733 1001585013216 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585013217 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 1001585013218 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1001585013219 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 1001585013220 sensory histidine kinase CreC; Provisional; Region: PRK11100 1001585013221 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 1001585013222 dimerization interface [polypeptide binding]; other site 1001585013223 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 1001585013224 dimer interface [polypeptide binding]; other site 1001585013225 phosphorylation site [posttranslational modification] 1001585013226 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585013227 ATP binding site [chemical binding]; other site 1001585013228 G-X-G motif; other site 1001585013229 DNA-binding response regulator CreB; Provisional; Region: PRK11083 1001585013230 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585013231 active site 1001585013232 phosphorylation site [posttranslational modification] 1001585013233 intermolecular recognition site; other site 1001585013234 dimerization interface [polypeptide binding]; other site 1001585013235 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 1001585013236 DNA binding site [nucleotide binding] 1001585013237 FOG: CBS domain [General function prediction only]; Region: COG0517 1001585013238 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 1001585013239 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 1001585013240 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1001585013241 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585013242 dimer interface [polypeptide binding]; other site 1001585013243 putative CheW interface [polypeptide binding]; other site 1001585013244 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 1001585013245 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1001585013246 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1001585013247 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1001585013248 Zn2+ binding site [ion binding]; other site 1001585013249 Mg2+ binding site [ion binding]; other site 1001585013250 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1001585013251 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1001585013252 putative acyl-acceptor binding pocket; other site 1001585013253 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1001585013254 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 1001585013255 substrate binding pocket [chemical binding]; other site 1001585013256 membrane-bound complex binding site; other site 1001585013257 hinge residues; other site 1001585013258 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 1001585013259 dimer interface [polypeptide binding]; other site 1001585013260 conserved gate region; other site 1001585013261 putative PBP binding loops; other site 1001585013262 ABC-ATPase subunit interface; other site 1001585013263 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 1001585013264 dimer interface [polypeptide binding]; other site 1001585013265 conserved gate region; other site 1001585013266 putative PBP binding loops; other site 1001585013267 ABC-ATPase subunit interface; other site 1001585013268 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1001585013269 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 1001585013270 Walker A/P-loop; other site 1001585013271 ATP binding site [chemical binding]; other site 1001585013272 Q-loop/lid; other site 1001585013273 ABC transporter signature motif; other site 1001585013274 Walker B; other site 1001585013275 D-loop; other site 1001585013276 H-loop/switch region; other site 1001585013277 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1001585013278 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 1001585013279 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585013280 ATP binding site [chemical binding]; other site 1001585013281 Mg2+ binding site [ion binding]; other site 1001585013282 G-X-G motif; other site 1001585013283 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1001585013284 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585013285 active site 1001585013286 phosphorylation site [posttranslational modification] 1001585013287 intermolecular recognition site; other site 1001585013288 dimerization interface [polypeptide binding]; other site 1001585013289 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585013290 Walker A motif; other site 1001585013291 ATP binding site [chemical binding]; other site 1001585013292 Walker B motif; other site 1001585013293 arginine finger; other site 1001585013294 Helix-turn-helix domains; Region: HTH; cl00088 1001585013295 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 1001585013296 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 1001585013297 NAD binding site [chemical binding]; other site 1001585013298 catalytic Zn binding site [ion binding]; other site 1001585013299 structural Zn binding site [ion binding]; other site 1001585013300 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 1001585013301 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1001585013302 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1001585013303 putative active site [active] 1001585013304 putative substrate binding site [chemical binding]; other site 1001585013305 putative cosubstrate binding site; other site 1001585013306 catalytic site [active] 1001585013307 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1001585013308 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1001585013309 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 1001585013310 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1001585013311 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1001585013312 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 1001585013313 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1001585013314 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585013315 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1001585013316 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 1001585013317 dimer interface [polypeptide binding]; other site 1001585013318 active site 1001585013319 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1001585013320 folate binding site [chemical binding]; other site 1001585013321 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1001585013322 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 1001585013323 tetramer interface [polypeptide binding]; other site 1001585013324 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585013325 catalytic residue [active] 1001585013326 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1001585013327 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 1001585013328 FAD binding pocket [chemical binding]; other site 1001585013329 FAD binding motif [chemical binding]; other site 1001585013330 phosphate binding motif [ion binding]; other site 1001585013331 beta-alpha-beta structure motif; other site 1001585013332 NAD binding pocket [chemical binding]; other site 1001585013333 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 1001585013334 catalytic loop [active] 1001585013335 iron binding site [ion binding]; other site 1001585013336 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1001585013337 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 1001585013338 [2Fe-2S] cluster binding site [ion binding]; other site 1001585013339 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 1001585013340 putative alpha subunit interface [polypeptide binding]; other site 1001585013341 putative active site [active] 1001585013342 putative substrate binding site [chemical binding]; other site 1001585013343 Fe binding site [ion binding]; other site 1001585013344 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 1001585013345 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585013346 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585013347 dimer interface [polypeptide binding]; other site 1001585013348 putative CheW interface [polypeptide binding]; other site 1001585013349 Predicted transcriptional regulator [Transcription]; Region: COG2378 1001585013350 WYL domain; Region: WYL; cl14852 1001585013351 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1001585013352 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1001585013353 G1 box; other site 1001585013354 putative GEF interaction site [polypeptide binding]; other site 1001585013355 GTP/Mg2+ binding site [chemical binding]; other site 1001585013356 Switch I region; other site 1001585013357 G2 box; other site 1001585013358 G3 box; other site 1001585013359 Switch II region; other site 1001585013360 G4 box; other site 1001585013361 G5 box; other site 1001585013362 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 1001585013363 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 1001585013364 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1001585013365 THUMP domain; Region: THUMP; cl12076 1001585013366 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 1001585013367 Ligand Binding Site [chemical binding]; other site 1001585013368 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 1001585013369 glutamine synthetase; Provisional; Region: glnA; PRK09469 1001585013370 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1001585013371 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1001585013372 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1001585013373 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1001585013374 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1001585013375 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 1001585013376 dimer interface [polypeptide binding]; other site 1001585013377 phosphorylation site [posttranslational modification] 1001585013378 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585013379 ATP binding site [chemical binding]; other site 1001585013380 Mg2+ binding site [ion binding]; other site 1001585013381 G-X-G motif; other site 1001585013382 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1001585013383 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585013384 active site 1001585013385 phosphorylation site [posttranslational modification] 1001585013386 intermolecular recognition site; other site 1001585013387 dimerization interface [polypeptide binding]; other site 1001585013388 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585013389 Walker A motif; other site 1001585013390 ATP binding site [chemical binding]; other site 1001585013391 Walker B motif; other site 1001585013392 arginine finger; other site 1001585013393 Helix-turn-helix domains; Region: HTH; cl00088 1001585013394 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; cl01353 1001585013395 TM2 domain; Region: TM2; cl00984 1001585013396 TM2 domain; Region: TM2; cl00984 1001585013397 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 1001585013398 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 1001585013399 FeS/SAM binding site; other site 1001585013400 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 1001585013401 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 1001585013402 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 1001585013403 Walker A motif; other site 1001585013404 ATP binding site [chemical binding]; other site 1001585013405 Walker B motif; other site 1001585013406 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1001585013407 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 1001585013408 Walker A motif; other site 1001585013409 ATP binding site [chemical binding]; other site 1001585013410 Walker B motif; other site 1001585013411 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1001585013412 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1001585013413 catalytic residue [active] 1001585013414 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1001585013415 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585013416 YGGT family; Region: YGGT; cl00508 1001585013417 YGGT family; Region: YGGT; cl00508 1001585013418 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 1001585013419 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585013420 G1 box; other site 1001585013421 GTP/Mg2+ binding site [chemical binding]; other site 1001585013422 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 1001585013423 G2 box; other site 1001585013424 Switch I region; other site 1001585013425 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585013426 G3 box; other site 1001585013427 Switch II region; other site 1001585013428 GTP/Mg2+ binding site [chemical binding]; other site 1001585013429 G4 box; other site 1001585013430 G5 box; other site 1001585013431 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 1001585013432 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585013433 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1001585013434 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 1001585013435 S-adenosylmethionine binding site [chemical binding]; other site 1001585013436 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 1001585013437 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 1001585013438 active site 1001585013439 dimerization interface [polypeptide binding]; other site 1001585013440 Protein of unknown function (DUF3916); Region: DUF3916; pfam13079 1001585013441 HemN family oxidoreductase; Provisional; Region: PRK05660 1001585013442 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 1001585013443 FeS/SAM binding site; other site 1001585013444 HemN C-terminal domain; Region: HemN_C; pfam06969 1001585013445 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585013446 metal binding site [ion binding]; metal-binding site 1001585013447 active site 1001585013448 I-site; other site 1001585013449 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 1001585013450 Cache domain; Region: Cache_1; pfam02743 1001585013451 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 1001585013452 dimerization interface [polypeptide binding]; other site 1001585013453 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585013454 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585013455 dimer interface [polypeptide binding]; other site 1001585013456 putative CheW interface [polypeptide binding]; other site 1001585013457 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585013458 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1001585013459 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585013460 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1001585013461 Coenzyme A binding pocket [chemical binding]; other site 1001585013462 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1001585013463 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 1001585013464 S-adenosylmethionine binding site [chemical binding]; other site 1001585013465 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 1001585013466 ThiS interaction site; other site 1001585013467 putative active site [active] 1001585013468 tetramer interface [polypeptide binding]; other site 1001585013469 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1001585013470 thiS-thiF/thiG interaction site; other site 1001585013471 Protein of unknown function (DUF423); Region: DUF423; cl01008 1001585013472 Transglycosylase; Region: Transgly; cl07896 1001585013473 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1001585013474 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1001585013475 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1001585013476 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 1001585013477 DNA binding residues [nucleotide binding] 1001585013478 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1001585013479 FtsX-like permease family; Region: FtsX; cl15850 1001585013480 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1001585013481 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585013482 Walker A/P-loop; other site 1001585013483 ATP binding site [chemical binding]; other site 1001585013484 Q-loop/lid; other site 1001585013485 ABC transporter signature motif; other site 1001585013486 Walker B; other site 1001585013487 D-loop; other site 1001585013488 H-loop/switch region; other site 1001585013489 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1001585013490 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 1001585013491 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 1001585013492 P loop; other site 1001585013493 GTP binding site [chemical binding]; other site 1001585013494 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1001585013495 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1001585013496 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1001585013497 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1001585013498 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1001585013499 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; cl16911 1001585013500 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1001585013501 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1001585013502 Helix-turn-helix domains; Region: HTH; cl00088 1001585013503 Bacterial transcriptional repressor; Region: TetR; pfam13972 1001585013504 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 1001585013505 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 1001585013506 NAD(P) binding site [chemical binding]; other site 1001585013507 catalytic residues [active] 1001585013508 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1001585013509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585013510 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1001585013511 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1001585013512 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1001585013513 active site 1001585013514 (T/H)XGH motif; other site 1001585013515 ferredoxin; Validated; Region: PRK07118 1001585013516 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1001585013517 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1001585013518 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 1001585013519 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1001585013520 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1001585013521 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 1001585013522 putative acyl-acceptor binding pocket; other site 1001585013523 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1001585013524 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1001585013525 DNA binding site [nucleotide binding] 1001585013526 catalytic residue [active] 1001585013527 H2TH interface [polypeptide binding]; other site 1001585013528 putative catalytic residues [active] 1001585013529 turnover-facilitating residue; other site 1001585013530 intercalation triad [nucleotide binding]; other site 1001585013531 8OG recognition residue [nucleotide binding]; other site 1001585013532 putative reading head residues; other site 1001585013533 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1001585013534 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1001585013535 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1001585013536 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1001585013537 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1001585013538 putative RNA binding site [nucleotide binding]; other site 1001585013539 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 1001585013540 S-adenosylmethionine binding site [chemical binding]; other site 1001585013541 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1001585013542 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585013543 Walker A/P-loop; other site 1001585013544 ATP binding site [chemical binding]; other site 1001585013545 Q-loop/lid; other site 1001585013546 ABC transporter signature motif; other site 1001585013547 Walker B; other site 1001585013548 D-loop; other site 1001585013549 H-loop/switch region; other site 1001585013550 TOBE domain; Region: TOBE_2; cl01440 1001585013551 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1001585013552 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 1001585013553 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 1001585013554 putative PBP binding loops; other site 1001585013555 ABC-ATPase subunit interface; other site 1001585013556 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 1001585013557 dimer interface [polypeptide binding]; other site 1001585013558 conserved gate region; other site 1001585013559 putative PBP binding loops; other site 1001585013560 ABC-ATPase subunit interface; other site 1001585013561 Histidine kinase; Region: HisKA_3; pfam07730 1001585013562 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585013563 ATP binding site [chemical binding]; other site 1001585013564 Mg2+ binding site [ion binding]; other site 1001585013565 G-X-G motif; other site 1001585013566 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1001585013567 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585013568 active site 1001585013569 phosphorylation site [posttranslational modification] 1001585013570 intermolecular recognition site; other site 1001585013571 dimerization interface [polypeptide binding]; other site 1001585013572 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 1001585013573 DNA binding residues [nucleotide binding] 1001585013574 dimerization interface [polypeptide binding]; other site 1001585013575 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585013576 dimer interface [polypeptide binding]; other site 1001585013577 putative CheW interface [polypeptide binding]; other site 1001585013578 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585013579 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585013580 active site 1001585013581 phosphorylation site [posttranslational modification] 1001585013582 intermolecular recognition site; other site 1001585013583 dimerization interface [polypeptide binding]; other site 1001585013584 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 1001585013585 anti sigma factor interaction site; other site 1001585013586 regulatory phosphorylation site [posttranslational modification]; other site 1001585013587 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1001585013588 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 1001585013589 putative binding surface; other site 1001585013590 active site 1001585013591 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1001585013592 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585013593 ATP binding site [chemical binding]; other site 1001585013594 Mg2+ binding site [ion binding]; other site 1001585013595 G-X-G motif; other site 1001585013596 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 1001585013597 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 1001585013598 putative CheA interaction surface; other site 1001585013599 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1001585013600 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 1001585013601 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585013602 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585013603 dimer interface [polypeptide binding]; other site 1001585013604 putative CheW interface [polypeptide binding]; other site 1001585013605 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 1001585013606 putative CheA interaction surface; other site 1001585013607 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1001585013608 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 1001585013609 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; cl16911 1001585013610 CheD chemotactic sensory transduction; Region: CheD; cl00810 1001585013611 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1001585013612 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585013613 active site 1001585013614 phosphorylation site [posttranslational modification] 1001585013615 intermolecular recognition site; other site 1001585013616 dimerization interface [polypeptide binding]; other site 1001585013617 CheB methylesterase; Region: CheB_methylest; pfam01339 1001585013618 Dehydratase family; Region: ILVD_EDD; cl00340 1001585013619 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1001585013620 active site 1001585013621 metal binding site [ion binding]; metal-binding site 1001585013622 homotetramer interface [polypeptide binding]; other site 1001585013623 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1001585013624 dimer interface [polypeptide binding]; other site 1001585013625 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1001585013626 active site 1001585013627 metal binding site [ion binding]; metal-binding site 1001585013628 glutathione binding site [chemical binding]; other site 1001585013629 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1001585013630 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1001585013631 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 1001585013632 folate binding site [chemical binding]; other site 1001585013633 NADP+ binding site [chemical binding]; other site 1001585013634 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1001585013635 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 1001585013636 putative active site [active] 1001585013637 catalytic site [active] 1001585013638 putative metal binding site [ion binding]; other site 1001585013639 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 1001585013640 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1001585013641 G1 box; other site 1001585013642 GTP/Mg2+ binding site [chemical binding]; other site 1001585013643 G2 box; other site 1001585013644 Switch I region; other site 1001585013645 G3 box; other site 1001585013646 Switch II region; other site 1001585013647 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 1001585013648 G5 box; other site 1001585013649 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 1001585013650 dimerization interface [polypeptide binding]; other site 1001585013651 active site 1001585013652 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1001585013653 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 1001585013654 NRDE protein; Region: NRDE; cl01315 1001585013655 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 1001585013656 GAF domain; Region: GAF; cl15785 1001585013657 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1001585013658 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 1001585013659 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; cl09155 1001585013660 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 1001585013661 putative active site [active] 1001585013662 Ap4A binding site [chemical binding]; other site 1001585013663 nudix motif; other site 1001585013664 putative metal binding site [ion binding]; other site 1001585013665 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1001585013666 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1001585013667 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 1001585013668 threonine dehydratase; Reviewed; Region: PRK09224 1001585013669 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 1001585013670 tetramer interface [polypeptide binding]; other site 1001585013671 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585013672 catalytic residue [active] 1001585013673 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1001585013674 putative Ile/Val binding site [chemical binding]; other site 1001585013675 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1001585013676 putative Ile/Val binding site [chemical binding]; other site 1001585013677 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 1001585013678 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1001585013679 active site 1001585013680 dimer interface [polypeptide binding]; other site 1001585013681 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 1001585013682 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1001585013683 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 1001585013684 metal-binding site [ion binding] 1001585013685 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1001585013686 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1001585013687 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1001585013688 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1001585013689 DNA binding residues [nucleotide binding] 1001585013690 dimer interface [polypeptide binding]; other site 1001585013691 putative metal binding site [ion binding]; other site 1001585013692 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 1001585013693 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 1001585013694 SdiA-regulated; Region: SdiA-regulated; pfam06977 1001585013695 SdiA-regulated; Region: SdiA-regulated; cd09971 1001585013696 putative active site [active] 1001585013697 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 1001585013698 SdiA-regulated; Region: SdiA-regulated; pfam06977 1001585013699 SdiA-regulated; Region: SdiA-regulated; cd09971 1001585013700 putative active site [active] 1001585013701 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1001585013702 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1001585013703 FAD binding domain; Region: FAD_binding_4; pfam01565 1001585013704 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1001585013705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585013706 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1001585013707 L-serine binding site [chemical binding]; other site 1001585013708 ACT domain interface; other site 1001585013709 Protein of unknown function (DUF523); Region: DUF523; cl00733 1001585013710 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 1001585013711 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 1001585013712 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 1001585013713 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1001585013714 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585013715 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585013716 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585013717 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585013718 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1001585013719 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 1001585013720 active site 1001585013721 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 1001585013722 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 1001585013723 SecA binding site; other site 1001585013724 Preprotein binding site; other site 1001585013725 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 1001585013726 GSH binding site [chemical binding]; other site 1001585013727 catalytic residues [active] 1001585013728 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 1001585013729 active site residue [active] 1001585013730 Sulfatase; Region: Sulfatase; cl10460 1001585013731 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 1001585013732 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1001585013733 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1001585013734 C-terminal peptidase (prc); Region: prc; TIGR00225 1001585013735 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 1001585013736 protein binding site [polypeptide binding]; other site 1001585013737 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1001585013738 Catalytic dyad [active] 1001585013739 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 1001585013740 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585013741 substrate binding pocket [chemical binding]; other site 1001585013742 membrane-bound complex binding site; other site 1001585013743 hinge residues; other site 1001585013744 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 1001585013745 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585013746 substrate binding pocket [chemical binding]; other site 1001585013747 membrane-bound complex binding site; other site 1001585013748 hinge residues; other site 1001585013749 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 1001585013750 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585013751 substrate binding pocket [chemical binding]; other site 1001585013752 membrane-bound complex binding site; other site 1001585013753 hinge residues; other site 1001585013754 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 1001585013755 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1001585013756 substrate binding site [chemical binding]; other site 1001585013757 glutamase interaction surface [polypeptide binding]; other site 1001585013758 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 1001585013759 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 1001585013760 catalytic residues [active] 1001585013761 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 1001585013762 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1001585013763 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1001585013764 putative active site [active] 1001585013765 oxyanion strand; other site 1001585013766 catalytic triad [active] 1001585013767 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 1001585013768 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1001585013769 putative active site pocket [active] 1001585013770 4-fold oligomerization interface [polypeptide binding]; other site 1001585013771 metal binding residues [ion binding]; metal-binding site 1001585013772 3-fold/trimer interface [polypeptide binding]; other site 1001585013773 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1001585013774 AsmA family; Region: AsmA; pfam05170 1001585013775 AsmA-like C-terminal region; Region: AsmA_2; cl15864 1001585013776 adenine DNA glycosylase; Provisional; Region: PRK10880 1001585013777 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1001585013778 minor groove reading motif; other site 1001585013779 helix-hairpin-helix signature motif; other site 1001585013780 substrate binding pocket [chemical binding]; other site 1001585013781 active site 1001585013782 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 1001585013783 DNA binding and oxoG recognition site [nucleotide binding] 1001585013784 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 1001585013785 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1001585013786 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 1001585013787 Walker A/P-loop; other site 1001585013788 ATP binding site [chemical binding]; other site 1001585013789 Q-loop/lid; other site 1001585013790 ABC transporter signature motif; other site 1001585013791 Walker B; other site 1001585013792 D-loop; other site 1001585013793 H-loop/switch region; other site 1001585013794 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585013795 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 1001585013796 substrate binding pocket [chemical binding]; other site 1001585013797 membrane-bound complex binding site; other site 1001585013798 hinge residues; other site 1001585013799 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1001585013800 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 1001585013801 dimer interface [polypeptide binding]; other site 1001585013802 conserved gate region; other site 1001585013803 putative PBP binding loops; other site 1001585013804 ABC-ATPase subunit interface; other site 1001585013805 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 1001585013806 dimer interface [polypeptide binding]; other site 1001585013807 conserved gate region; other site 1001585013808 putative PBP binding loops; other site 1001585013809 ABC-ATPase subunit interface; other site 1001585013810 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; cl16911 1001585013811 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1001585013812 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1001585013813 Cupin domain; Region: Cupin_2; cl09118 1001585013814 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 1001585013815 Bacterial sugar transferase; Region: Bac_transf; cl00939 1001585013816 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 1001585013817 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1001585013818 NAD binding site [chemical binding]; other site 1001585013819 substrate binding site [chemical binding]; other site 1001585013820 homodimer interface [polypeptide binding]; other site 1001585013821 active site 1001585013822 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1001585013823 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1001585013824 substrate binding site; other site 1001585013825 tetramer interface; other site 1001585013826 Cupin domain; Region: Cupin_2; cl09118 1001585013827 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1001585013828 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1001585013829 NADP binding site [chemical binding]; other site 1001585013830 active site 1001585013831 putative substrate binding site [chemical binding]; other site 1001585013832 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585013833 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585013834 dimer interface [polypeptide binding]; other site 1001585013835 putative CheW interface [polypeptide binding]; other site 1001585013836 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1001585013837 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 1001585013838 dimer interface [polypeptide binding]; other site 1001585013839 phosphorylation site [posttranslational modification] 1001585013840 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585013841 ATP binding site [chemical binding]; other site 1001585013842 G-X-G motif; other site 1001585013843 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1001585013844 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585013845 active site 1001585013846 phosphorylation site [posttranslational modification] 1001585013847 intermolecular recognition site; other site 1001585013848 dimerization interface [polypeptide binding]; other site 1001585013849 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585013850 Walker A motif; other site 1001585013851 ATP binding site [chemical binding]; other site 1001585013852 Walker B motif; other site 1001585013853 arginine finger; other site 1001585013854 Helix-turn-helix domains; Region: HTH; cl00088 1001585013855 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1001585013856 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585013857 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1001585013858 DctM-like transporters; Region: DctM; pfam06808 1001585013859 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 1001585013860 Protein of unknown function (DUF502); Region: DUF502; cl01107 1001585013861 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1001585013862 Helix-turn-helix domains; Region: HTH; cl00088 1001585013863 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1001585013864 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1001585013865 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 1001585013866 Walker A motif; other site 1001585013867 ATP binding site [chemical binding]; other site 1001585013868 Walker B motif; other site 1001585013869 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 1001585013870 Protein of unknown function (DUF2388); Region: DUF2388; cl09731 1001585013871 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585013872 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 1001585013873 PAS fold; Region: PAS_3; pfam08447 1001585013874 putative active site [active] 1001585013875 heme pocket [chemical binding]; other site 1001585013876 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585013877 metal binding site [ion binding]; metal-binding site 1001585013878 active site 1001585013879 I-site; other site 1001585013880 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 1001585013881 Di-iron ligands [ion binding]; other site 1001585013882 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 1001585013883 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1001585013884 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 1001585013885 PAS fold; Region: PAS_3; pfam08447 1001585013886 putative active site [active] 1001585013887 heme pocket [chemical binding]; other site 1001585013888 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 1001585013889 PAS domain; Region: PAS_9; pfam13426 1001585013890 putative active site [active] 1001585013891 heme pocket [chemical binding]; other site 1001585013892 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585013893 metal binding site [ion binding]; metal-binding site 1001585013894 active site 1001585013895 I-site; other site 1001585013896 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 1001585013897 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585013898 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585013899 active site 1001585013900 phosphorylation site [posttranslational modification] 1001585013901 intermolecular recognition site; other site 1001585013902 dimerization interface [polypeptide binding]; other site 1001585013903 HDOD domain; Region: HDOD; pfam08668 1001585013904 GAF domain; Region: GAF_2; pfam13185 1001585013905 GAF domain; Region: GAF; cl15785 1001585013906 PAS domain S-box; Region: sensory_box; TIGR00229 1001585013907 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 1001585013908 putative active site [active] 1001585013909 heme pocket [chemical binding]; other site 1001585013910 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 1001585013911 PAS fold; Region: PAS_3; pfam08447 1001585013912 putative active site [active] 1001585013913 heme pocket [chemical binding]; other site 1001585013914 PAS domain S-box; Region: sensory_box; TIGR00229 1001585013915 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 1001585013916 putative active site [active] 1001585013917 heme pocket [chemical binding]; other site 1001585013918 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1001585013919 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 1001585013920 putative active site [active] 1001585013921 heme pocket [chemical binding]; other site 1001585013922 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 1001585013923 dimer interface [polypeptide binding]; other site 1001585013924 phosphorylation site [posttranslational modification] 1001585013925 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585013926 ATP binding site [chemical binding]; other site 1001585013927 Mg2+ binding site [ion binding]; other site 1001585013928 G-X-G motif; other site 1001585013929 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1001585013930 GAF domain; Region: GAF; cl15785 1001585013931 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 1001585013932 PAS domain; Region: PAS_9; pfam13426 1001585013933 putative active site [active] 1001585013934 heme pocket [chemical binding]; other site 1001585013935 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 1001585013936 putative active site [active] 1001585013937 heme pocket [chemical binding]; other site 1001585013938 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 1001585013939 dimer interface [polypeptide binding]; other site 1001585013940 phosphorylation site [posttranslational modification] 1001585013941 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585013942 ATP binding site [chemical binding]; other site 1001585013943 Mg2+ binding site [ion binding]; other site 1001585013944 G-X-G motif; other site 1001585013945 CHASE domain; Region: CHASE; cl01369 1001585013946 PAS fold; Region: PAS_3; pfam08447 1001585013947 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1001585013948 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 1001585013949 dimer interface [polypeptide binding]; other site 1001585013950 phosphorylation site [posttranslational modification] 1001585013951 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585013952 ATP binding site [chemical binding]; other site 1001585013953 Mg2+ binding site [ion binding]; other site 1001585013954 G-X-G motif; other site 1001585013955 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585013956 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585013957 active site 1001585013958 phosphorylation site [posttranslational modification] 1001585013959 intermolecular recognition site; other site 1001585013960 dimerization interface [polypeptide binding]; other site 1001585013961 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1001585013962 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585013963 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585013964 active site 1001585013965 phosphorylation site [posttranslational modification] 1001585013966 intermolecular recognition site; other site 1001585013967 dimerization interface [polypeptide binding]; other site 1001585013968 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585013969 active site 1001585013970 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 1001585013971 phosphorylation site [posttranslational modification] 1001585013972 intermolecular recognition site; other site 1001585013973 dimerization interface [polypeptide binding]; other site 1001585013974 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585013975 active site 1001585013976 phosphorylation site [posttranslational modification] 1001585013977 intermolecular recognition site; other site 1001585013978 dimerization interface [polypeptide binding]; other site 1001585013979 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585013980 metal binding site [ion binding]; metal-binding site 1001585013981 active site 1001585013982 I-site; other site 1001585013983 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 1001585013984 dimer interface [polypeptide binding]; other site 1001585013985 conserved gate region; other site 1001585013986 putative PBP binding loops; other site 1001585013987 ABC-ATPase subunit interface; other site 1001585013988 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 1001585013989 dimer interface [polypeptide binding]; other site 1001585013990 conserved gate region; other site 1001585013991 putative PBP binding loops; other site 1001585013992 ABC-ATPase subunit interface; other site 1001585013993 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 1001585013994 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1001585013995 TOBE domain; Region: TOBE_2; cl01440 1001585013996 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 1001585013997 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585013998 Walker A/P-loop; other site 1001585013999 ATP binding site [chemical binding]; other site 1001585014000 Q-loop/lid; other site 1001585014001 ABC transporter signature motif; other site 1001585014002 Walker B; other site 1001585014003 D-loop; other site 1001585014004 H-loop/switch region; other site 1001585014005 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 1001585014006 dimer interface [polypeptide binding]; other site 1001585014007 conserved gate region; other site 1001585014008 putative PBP binding loops; other site 1001585014009 ABC-ATPase subunit interface; other site 1001585014010 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1001585014011 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 1001585014012 active site 1001585014013 dimer interface [polypeptide binding]; other site 1001585014014 non-prolyl cis peptide bond; other site 1001585014015 insertion regions; other site 1001585014016 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1001585014017 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 1001585014018 substrate binding pocket [chemical binding]; other site 1001585014019 membrane-bound complex binding site; other site 1001585014020 hinge residues; other site 1001585014021 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1001585014022 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1001585014023 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1001585014024 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 1001585014025 dimer interface [polypeptide binding]; other site 1001585014026 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1001585014027 catalytic triad [active] 1001585014028 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585014029 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1001585014030 Coenzyme A binding pocket [chemical binding]; other site 1001585014031 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1001585014032 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585014033 active site 1001585014034 phosphorylation site [posttranslational modification] 1001585014035 intermolecular recognition site; other site 1001585014036 dimerization interface [polypeptide binding]; other site 1001585014037 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 1001585014038 DNA binding site [nucleotide binding] 1001585014039 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1001585014040 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1001585014041 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 1001585014042 Ligand Binding Site [chemical binding]; other site 1001585014043 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 1001585014044 dimer interface [polypeptide binding]; other site 1001585014045 phosphorylation site [posttranslational modification] 1001585014046 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585014047 ATP binding site [chemical binding]; other site 1001585014048 Mg2+ binding site [ion binding]; other site 1001585014049 G-X-G motif; other site 1001585014050 K+-transporting ATPase, c chain; Region: KdpC; cl00944 1001585014051 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1001585014052 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1001585014053 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1001585014054 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 1001585014055 Chromate transporter; Region: Chromate_transp; pfam02417 1001585014056 Chromate transporter; Region: Chromate_transp; pfam02417 1001585014057 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1001585014058 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 1001585014059 Walker A/P-loop; other site 1001585014060 ATP binding site [chemical binding]; other site 1001585014061 Q-loop/lid; other site 1001585014062 ABC transporter signature motif; other site 1001585014063 Walker B; other site 1001585014064 D-loop; other site 1001585014065 H-loop/switch region; other site 1001585014066 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1001585014067 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 1001585014068 dimer interface [polypeptide binding]; other site 1001585014069 conserved gate region; other site 1001585014070 putative PBP binding loops; other site 1001585014071 ABC-ATPase subunit interface; other site 1001585014072 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1001585014073 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; cl15306 1001585014074 NMT1-like family; Region: NMT1_2; cl15260 1001585014075 membrane-bound complex binding site; other site 1001585014076 outer membrane porin, OprD family; Region: OprD; pfam03573 1001585014077 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1001585014078 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 1001585014079 membrane-bound complex binding site; other site 1001585014080 hinge residues; other site 1001585014081 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1001585014082 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1001585014083 Flavin binding site [chemical binding]; other site 1001585014084 enterobactin exporter EntS; Provisional; Region: PRK10489 1001585014085 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 1001585014086 S-adenosylmethionine binding site [chemical binding]; other site 1001585014087 NIPSNAP; Region: NIPSNAP; pfam07978 1001585014088 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 1001585014089 homodimer interface [polypeptide binding]; other site 1001585014090 homotetramer interface [polypeptide binding]; other site 1001585014091 active site pocket [active] 1001585014092 cleavage site 1001585014093 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 1001585014094 dimer interface [polypeptide binding]; other site 1001585014095 conserved gate region; other site 1001585014096 putative PBP binding loops; other site 1001585014097 ABC-ATPase subunit interface; other site 1001585014098 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 1001585014099 dimer interface [polypeptide binding]; other site 1001585014100 conserved gate region; other site 1001585014101 putative PBP binding loops; other site 1001585014102 ABC-ATPase subunit interface; other site 1001585014103 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1001585014104 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585014105 Walker A/P-loop; other site 1001585014106 ATP binding site [chemical binding]; other site 1001585014107 Q-loop/lid; other site 1001585014108 ABC transporter signature motif; other site 1001585014109 Walker B; other site 1001585014110 D-loop; other site 1001585014111 H-loop/switch region; other site 1001585014112 TOBE domain; Region: TOBE_2; cl01440 1001585014113 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1001585014114 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 1001585014115 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1001585014116 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1001585014117 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1001585014118 Protein of unknown function (DUF998); Region: DUF998; pfam06197 1001585014119 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 1001585014120 putative substrate translocation pore; other site 1001585014121 Cupin domain; Region: Cupin_2; cl09118 1001585014122 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1001585014123 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585014124 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585014125 Helix-turn-helix domains; Region: HTH; cl00088 1001585014126 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 1001585014127 putative dimerization interface [polypeptide binding]; other site 1001585014128 EamA-like transporter family; Region: EamA; cl01037 1001585014129 EamA-like transporter family; Region: EamA; cl01037 1001585014130 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 1001585014131 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585014132 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585014133 dimer interface [polypeptide binding]; other site 1001585014134 putative CheW interface [polypeptide binding]; other site 1001585014135 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1001585014136 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 1001585014137 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 1001585014138 dimer interface [polypeptide binding]; other site 1001585014139 conserved gate region; other site 1001585014140 putative PBP binding loops; other site 1001585014141 ABC-ATPase subunit interface; other site 1001585014142 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585014143 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 1001585014144 Walker A/P-loop; other site 1001585014145 ATP binding site [chemical binding]; other site 1001585014146 Q-loop/lid; other site 1001585014147 ABC transporter signature motif; other site 1001585014148 Walker B; other site 1001585014149 D-loop; other site 1001585014150 H-loop/switch region; other site 1001585014151 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585014152 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1001585014153 Walker A motif; other site 1001585014154 ATP binding site [chemical binding]; other site 1001585014155 Walker B motif; other site 1001585014156 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585014157 Uncharacterized small protein (DUF2292); Region: DUF2292; cl02371 1001585014158 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 1001585014159 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1001585014160 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1001585014161 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 1001585014162 dimer interface [polypeptide binding]; other site 1001585014163 conserved gate region; other site 1001585014164 putative PBP binding loops; other site 1001585014165 ABC-ATPase subunit interface; other site 1001585014166 sulfate transport protein; Provisional; Region: cysT; CHL00187 1001585014167 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 1001585014168 dimer interface [polypeptide binding]; other site 1001585014169 conserved gate region; other site 1001585014170 putative PBP binding loops; other site 1001585014171 ABC-ATPase subunit interface; other site 1001585014172 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1001585014173 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 1001585014174 Walker A/P-loop; other site 1001585014175 ATP binding site [chemical binding]; other site 1001585014176 Q-loop/lid; other site 1001585014177 ABC transporter signature motif; other site 1001585014178 Walker B; other site 1001585014179 D-loop; other site 1001585014180 H-loop/switch region; other site 1001585014181 TOBE-like domain; Region: TOBE_3; pfam12857 1001585014182 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 1001585014183 putative DNA binding site [nucleotide binding]; other site 1001585014184 putative Zn2+ binding site [ion binding]; other site 1001585014185 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1001585014186 Protein of unknown function (DUF962); Region: DUF962; cl01879 1001585014187 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 1001585014188 ligand binding site [chemical binding]; other site 1001585014189 flexible hinge region; other site 1001585014190 Helix-turn-helix domains; Region: HTH; cl00088 1001585014191 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1001585014192 metal binding site [ion binding]; metal-binding site 1001585014193 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1001585014194 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1001585014195 Isochorismatase family; Region: Isochorismatase; pfam00857 1001585014196 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 1001585014197 catalytic triad [active] 1001585014198 dimer interface [polypeptide binding]; other site 1001585014199 conserved cis-peptide bond; other site 1001585014200 LysR family transcriptional regulator; Provisional; Region: PRK14997 1001585014201 Helix-turn-helix domains; Region: HTH; cl00088 1001585014202 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 1001585014203 putative effector binding pocket; other site 1001585014204 putative dimerization interface [polypeptide binding]; other site 1001585014205 Transmembrane secretion effector; Region: MFS_3; pfam05977 1001585014206 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 1001585014207 putative substrate translocation pore; other site 1001585014208 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1001585014209 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 1001585014210 active site 1001585014211 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1001585014212 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 1001585014213 Isochorismatase family; Region: Isochorismatase; pfam00857 1001585014214 catalytic triad [active] 1001585014215 dimer interface [polypeptide binding]; other site 1001585014216 conserved cis-peptide bond; other site 1001585014217 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 1001585014218 homotrimer interaction site [polypeptide binding]; other site 1001585014219 putative active site [active] 1001585014220 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585014221 Helix-turn-helix domains; Region: HTH; cl00088 1001585014222 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 1001585014223 dimerization interface [polypeptide binding]; other site 1001585014224 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585014225 FAD dependent oxidoreductase; Region: DAO; pfam01266 1001585014226 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1001585014227 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1001585014228 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585014229 dimer interface [polypeptide binding]; other site 1001585014230 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1001585014231 putative CheW interface [polypeptide binding]; other site 1001585014232 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 1001585014233 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585014234 DNA-binding transcriptional regulator GadX; Provisional; Region: PRK09978 1001585014235 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585014236 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1001585014237 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1001585014238 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1001585014239 PAS domain S-box; Region: sensory_box; TIGR00229 1001585014240 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1001585014241 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585014242 metal binding site [ion binding]; metal-binding site 1001585014243 active site 1001585014244 I-site; other site 1001585014245 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 1001585014246 Response regulator receiver domain; Region: Response_reg; pfam00072 1001585014247 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585014248 active site 1001585014249 phosphorylation site [posttranslational modification] 1001585014250 intermolecular recognition site; other site 1001585014251 dimerization interface [polypeptide binding]; other site 1001585014252 HDOD domain; Region: HDOD; pfam08668 1001585014253 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 1001585014254 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 1001585014255 hypothetical protein; Reviewed; Region: PRK00024 1001585014256 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1001585014257 MPN+ (JAMM) motif; other site 1001585014258 Zinc-binding site [ion binding]; other site 1001585014259 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1001585014260 Flavoprotein; Region: Flavoprotein; cl08021 1001585014261 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 1001585014262 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1001585014263 trimer interface [polypeptide binding]; other site 1001585014264 active site 1001585014265 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1001585014266 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 1001585014267 active site 1001585014268 substrate binding site [chemical binding]; other site 1001585014269 metal binding site [ion binding]; metal-binding site 1001585014270 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 1001585014271 feedback inhibition sensing region; other site 1001585014272 homohexameric interface [polypeptide binding]; other site 1001585014273 nucleotide binding site [chemical binding]; other site 1001585014274 N-acetyl-L-glutamate binding site [chemical binding]; other site 1001585014275 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 1001585014276 active site 1001585014277 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1001585014278 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1001585014279 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 1001585014280 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1001585014281 active site 1001585014282 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 1001585014283 putative active site [active] 1001585014284 putative catalytic site [active] 1001585014285 putative DNA binding site [nucleotide binding]; other site 1001585014286 putative phosphate binding site [ion binding]; other site 1001585014287 metal binding site A [ion binding]; metal-binding site 1001585014288 putative AP binding site [nucleotide binding]; other site 1001585014289 putative metal binding site B [ion binding]; other site 1001585014290 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296; cl15800 1001585014291 ribonuclease PH; Reviewed; Region: rph; PRK00173 1001585014292 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1001585014293 hexamer interface [polypeptide binding]; other site 1001585014294 active site 1001585014295 hypothetical protein; Provisional; Region: PRK11820 1001585014296 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1001585014297 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1001585014298 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1001585014299 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 1001585014300 catalytic site [active] 1001585014301 G-X2-G-X-G-K; other site 1001585014302 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 1001585014303 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1001585014304 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1001585014305 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1001585014306 synthetase active site [active] 1001585014307 NTP binding site [chemical binding]; other site 1001585014308 metal binding site [ion binding]; metal-binding site 1001585014309 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 1001585014310 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1001585014311 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 1001585014312 homotrimer interaction site [polypeptide binding]; other site 1001585014313 putative active site [active] 1001585014314 LysE type translocator; Region: LysE; cl00565 1001585014315 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585014316 Cupin domain; Region: Cupin_2; cl09118 1001585014317 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585014318 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585014319 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1001585014320 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1001585014321 putative NAD(P) binding site [chemical binding]; other site 1001585014322 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1001585014323 Helix-turn-helix domains; Region: HTH; cl00088 1001585014324 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 1001585014325 dimerization interface [polypeptide binding]; other site 1001585014326 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1001585014327 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 1001585014328 generic binding surface II; other site 1001585014329 ssDNA binding site; other site 1001585014330 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 1001585014331 ATP binding site [chemical binding]; other site 1001585014332 putative Mg++ binding site [ion binding]; other site 1001585014333 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 1001585014334 nucleotide binding region [chemical binding]; other site 1001585014335 ATP-binding site [chemical binding]; other site 1001585014336 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; cl00022 1001585014337 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1001585014338 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 1001585014339 IHF dimer interface [polypeptide binding]; other site 1001585014340 IHF - DNA interface [nucleotide binding]; other site 1001585014341 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 1001585014342 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585014343 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 1001585014344 Domain of unknown function DUF21; Region: DUF21; pfam01595 1001585014345 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1001585014346 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 1001585014347 Transporter associated domain; Region: CorC_HlyC; cl08393 1001585014348 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 1001585014349 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1001585014350 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1001585014351 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 1001585014352 dimer interface [polypeptide binding]; other site 1001585014353 phosphorylation site [posttranslational modification] 1001585014354 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585014355 ATP binding site [chemical binding]; other site 1001585014356 Mg2+ binding site [ion binding]; other site 1001585014357 G-X-G motif; other site 1001585014358 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1001585014359 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585014360 active site 1001585014361 phosphorylation site [posttranslational modification] 1001585014362 intermolecular recognition site; other site 1001585014363 dimerization interface [polypeptide binding]; other site 1001585014364 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 1001585014365 DNA binding site [nucleotide binding] 1001585014366 UbiA prenyltransferase family; Region: UbiA; cl00337 1001585014367 UTRA domain; Region: UTRA; cl01230 1001585014368 FlgN protein; Region: FlgN; cl09176 1001585014369 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 1001585014370 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 1001585014371 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 1001585014372 Walker A motif/ATP binding site; other site 1001585014373 Walker B motif; other site 1001585014374 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 1001585014375 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 1001585014376 Flagellar assembly protein FliH; Region: FliH; pfam02108 1001585014377 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 1001585014378 MgtE intracellular N domain; Region: MgtE_N; cl15244 1001585014379 FliG C-terminal domain; Region: FliG_C; pfam01706 1001585014380 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 1001585014381 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1001585014382 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1001585014383 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 1001585014384 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1001585014385 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585014386 Walker A motif; other site 1001585014387 ATP binding site [chemical binding]; other site 1001585014388 Walker B motif; other site 1001585014389 arginine finger; other site 1001585014390 Helix-turn-helix domains; Region: HTH; cl00088 1001585014391 flagellar motor switch protein FliM; Region: fliM_switch; TIGR01397 1001585014392 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1001585014393 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1001585014394 FliP family; Region: FliP; cl00593 1001585014395 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 1001585014396 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 1001585014397 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1001585014398 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1001585014399 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 1001585014400 FHIPEP family; Region: FHIPEP; pfam00771 1001585014401 PilZ domain; Region: PilZ; cl01260 1001585014402 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1001585014403 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1001585014404 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1001585014405 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1001585014406 FAD binding site [chemical binding]; other site 1001585014407 substrate binding pocket [chemical binding]; other site 1001585014408 catalytic base [active] 1001585014409 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1001585014410 Helix-turn-helix domains; Region: HTH; cl00088 1001585014411 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 1001585014412 dimerization interface [polypeptide binding]; other site 1001585014413 substrate binding pocket [chemical binding]; other site 1001585014414 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1001585014415 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 1001585014416 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1001585014417 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1001585014418 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 1001585014419 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1001585014420 Sulfatase; Region: Sulfatase; cl10460 1001585014421 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 1001585014422 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 1001585014423 OpgC protein; Region: OpgC_C; cl00792 1001585014424 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1001585014425 OpgC protein; Region: OpgC_C; cl00792 1001585014426 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1001585014427 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 1001585014428 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; cl16911 1001585014429 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 1001585014430 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 1001585014431 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 1001585014432 active site 1001585014433 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 1001585014434 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1001585014435 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1001585014436 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 1001585014437 Walker A/P-loop; other site 1001585014438 ATP binding site [chemical binding]; other site 1001585014439 Q-loop/lid; other site 1001585014440 ABC transporter signature motif; other site 1001585014441 Walker B; other site 1001585014442 D-loop; other site 1001585014443 H-loop/switch region; other site 1001585014444 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 1001585014445 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 1001585014446 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 1001585014447 Probable Catalytic site; other site 1001585014448 metal-binding site 1001585014449 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1001585014450 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1001585014451 Probable Catalytic site; other site 1001585014452 metal-binding site 1001585014453 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1001585014454 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1001585014455 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 1001585014456 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 1001585014457 ligand-binding site [chemical binding]; other site 1001585014458 Protein of unknown function (DUF2388); Region: DUF2388; cl09731 1001585014459 Protein of unknown function (DUF2388); Region: DUF2388; cl09731 1001585014460 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1001585014461 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 1001585014462 Membrane transport protein; Region: Mem_trans; cl09117 1001585014463 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 1001585014464 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585014465 substrate binding pocket [chemical binding]; other site 1001585014466 membrane-bound complex binding site; other site 1001585014467 hinge residues; other site 1001585014468 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 1001585014469 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585014470 Walker A motif; other site 1001585014471 ATP binding site [chemical binding]; other site 1001585014472 Walker B motif; other site 1001585014473 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1001585014474 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1001585014475 PhoU domain; Region: PhoU; pfam01895 1001585014476 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1001585014477 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 1001585014478 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 1001585014479 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 1001585014480 NMT1-like family; Region: NMT1_2; cl15260 1001585014481 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1001585014482 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 1001585014483 homotrimer interaction site [polypeptide binding]; other site 1001585014484 putative active site [active] 1001585014485 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1001585014486 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1001585014487 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585014488 Helix-turn-helix domains; Region: HTH; cl00088 1001585014489 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 1001585014490 dimerization interface [polypeptide binding]; other site 1001585014491 NMT1-like family; Region: NMT1_2; cl15260 1001585014492 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1001585014493 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1001585014494 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585014495 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585014496 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1001585014497 heme-binding site [chemical binding]; other site 1001585014498 PAS domain S-box; Region: sensory_box; TIGR00229 1001585014499 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 1001585014500 putative active site [active] 1001585014501 heme pocket [chemical binding]; other site 1001585014502 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585014503 metal binding site [ion binding]; metal-binding site 1001585014504 active site 1001585014505 I-site; other site 1001585014506 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 1001585014507 PAS domain; Region: PAS_9; pfam13426 1001585014508 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 1001585014509 putative active site [active] 1001585014510 heme pocket [chemical binding]; other site 1001585014511 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585014512 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585014513 dimer interface [polypeptide binding]; other site 1001585014514 putative CheW interface [polypeptide binding]; other site 1001585014515 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1001585014516 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1001585014517 OsmC-like protein; Region: OsmC; cl00767 1001585014518 Predicted aminopeptidase [General function prediction only]; Region: COG4324 1001585014519 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 1001585014520 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 1001585014521 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 1001585014522 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 1001585014523 motif II; other site 1001585014524 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1001585014525 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 1001585014526 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 1001585014527 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1001585014528 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 1001585014529 Walker A/P-loop; other site 1001585014530 ATP binding site [chemical binding]; other site 1001585014531 Q-loop/lid; other site 1001585014532 ABC transporter signature motif; other site 1001585014533 Walker B; other site 1001585014534 D-loop; other site 1001585014535 H-loop/switch region; other site 1001585014536 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1001585014537 FtsX-like permease family; Region: FtsX; cl15850 1001585014538 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1001585014539 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1001585014540 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1001585014541 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585014542 Coenzyme A binding pocket [chemical binding]; other site 1001585014543 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1001585014544 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 1001585014545 trimer interface [polypeptide binding]; other site 1001585014546 putative metal binding site [ion binding]; other site 1001585014547 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1001585014548 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1001585014549 active site 1001585014550 Zn binding site [ion binding]; other site 1001585014551 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 1001585014552 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 1001585014553 Protein of unknown function; Region: DUF3658; pfam12395 1001585014554 Cupin domain; Region: Cupin_2; cl09118 1001585014555 Helix-turn-helix domain; Region: HTH_18; pfam12833 1001585014556 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585014557 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1001585014558 Membrane transport protein; Region: Mem_trans; cl09117 1001585014559 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1001585014560 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 1001585014561 active site clefts [active] 1001585014562 zinc binding site [ion binding]; other site 1001585014563 dimer interface [polypeptide binding]; other site 1001585014564 pyruvate carboxylase subunit B; Validated; Region: PRK09282 1001585014565 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1001585014566 active site 1001585014567 catalytic residues [active] 1001585014568 metal binding site [ion binding]; metal-binding site 1001585014569 homodimer binding site [polypeptide binding]; other site 1001585014570 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 1001585014571 carboxyltransferase (CT) interaction site; other site 1001585014572 biotinylation site [posttranslational modification]; other site 1001585014573 pyruvate carboxylase subunit A; Validated; Region: PRK07178 1001585014574 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1001585014575 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1001585014576 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 1001585014577 Helix-turn-helix domains; Region: HTH; cl00088 1001585014578 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1001585014579 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 1001585014580 putative dimerization interface [polypeptide binding]; other site 1001585014581 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1001585014582 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1001585014583 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1001585014584 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1001585014585 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1001585014586 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1001585014587 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 1001585014588 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1001585014589 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1001585014590 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1001585014591 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 1001585014592 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1001585014593 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1001585014594 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1001585014595 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 1001585014596 putative active site [active] 1001585014597 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1001585014598 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1001585014599 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1001585014600 muropeptide transporter; Validated; Region: ampG; PRK11010 1001585014601 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 1001585014602 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 1001585014603 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1001585014604 metal binding site [ion binding]; metal-binding site 1001585014605 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1001585014606 metal binding site 2 [ion binding]; metal-binding site 1001585014607 putative DNA binding helix; other site 1001585014608 metal binding site 1 [ion binding]; metal-binding site 1001585014609 dimer interface [polypeptide binding]; other site 1001585014610 structural Zn2+ binding site [ion binding]; other site 1001585014611 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 1001585014612 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 1001585014613 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 1001585014614 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 1001585014615 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1001585014616 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 1001585014617 Walker A/P-loop; other site 1001585014618 ATP binding site [chemical binding]; other site 1001585014619 Q-loop/lid; other site 1001585014620 ABC transporter signature motif; other site 1001585014621 Walker B; other site 1001585014622 D-loop; other site 1001585014623 H-loop/switch region; other site 1001585014624 NIL domain; Region: NIL; cl09633 1001585014625 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 1001585014626 dimer interface [polypeptide binding]; other site 1001585014627 conserved gate region; other site 1001585014628 ABC-ATPase subunit interface; other site 1001585014629 NMT1-like family; Region: NMT1_2; cl15260 1001585014630 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 1001585014631 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585014632 Helix-turn-helix domains; Region: HTH; cl00088 1001585014633 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 1001585014634 putative dimerization interface [polypeptide binding]; other site 1001585014635 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 1001585014636 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1001585014637 putative metal binding site [ion binding]; other site 1001585014638 PAS fold; Region: PAS_3; pfam08447 1001585014639 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1001585014640 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 1001585014641 PAS domain; Region: PAS_9; pfam13426 1001585014642 putative active site [active] 1001585014643 heme pocket [chemical binding]; other site 1001585014644 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1001585014645 metal binding site [ion binding]; metal-binding site 1001585014646 active site 1001585014647 I-site; other site 1001585014648 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 1001585014649 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1001585014650 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585014651 Family description; Region: UvrD_C_2; cl15862 1001585014652 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585014653 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1001585014654 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1001585014655 Tim44-like domain; Region: Tim44; cl09208 1001585014656 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585014657 Coenzyme A binding pocket [chemical binding]; other site 1001585014658 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585014659 DNA-binding site [nucleotide binding]; DNA binding site 1001585014660 FCD domain; Region: FCD; cl11656 1001585014661 aminotransferase; Validated; Region: PRK07046 1001585014662 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 1001585014663 inhibitor-cofactor binding pocket; inhibition site 1001585014664 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1001585014665 catalytic residue [active] 1001585014666 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1001585014667 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1001585014668 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1001585014669 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 1001585014670 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 1001585014671 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 1001585014672 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1001585014673 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1001585014674 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585014675 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 1001585014676 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 1001585014677 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1001585014678 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585014679 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 1001585014680 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1001585014681 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 1001585014682 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 1001585014683 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 1001585014684 LemA family; Region: LemA; cl00742 1001585014685 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1001585014686 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 1001585014687 ligand binding site [chemical binding]; other site 1001585014688 flexible hinge region; other site 1001585014689 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 1001585014690 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1001585014691 metal binding triad; other site 1001585014692 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1001585014693 active site 1001585014694 catalytic site [active] 1001585014695 substrate binding site [chemical binding]; other site 1001585014696 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 1001585014697 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1001585014698 Helix-turn-helix domains; Region: HTH; cl00088 1001585014699 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 1001585014700 putative dimerization interface [polypeptide binding]; other site 1001585014701 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1001585014702 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1001585014703 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 1001585014704 BCCT family transporter; Region: BCCT; cl00569 1001585014705 BCCT family transporter; Region: BCCT; cl00569 1001585014706 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1001585014707 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1001585014708 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 1001585014709 putative active site [active] 1001585014710 catalytic site [active] 1001585014711 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 1001585014712 putative active site [active] 1001585014713 catalytic site [active] 1001585014714 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1001585014715 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 1001585014716 substrate binding pocket [chemical binding]; other site 1001585014717 membrane-bound complex binding site; other site 1001585014718 hinge residues; other site 1001585014719 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1001585014720 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 1001585014721 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 1001585014722 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1001585014723 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 1001585014724 N-terminal plug; other site 1001585014725 ligand-binding site [chemical binding]; other site 1001585014726 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 1001585014727 Domain of unknown function (DUF1850); Region: DUF1850; cl01950 1001585014728 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 1001585014729 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1001585014730 NMT1-like family; Region: NMT1_2; cl15260 1001585014731 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1001585014732 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1001585014733 active site 1001585014734 phosphorylation site [posttranslational modification] 1001585014735 intermolecular recognition site; other site 1001585014736 dimerization interface [polypeptide binding]; other site 1001585014737 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient 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 1001585014738 Walker A motif; other site 1001585014739 ATP binding site [chemical binding]; other site 1001585014740 Walker B motif; other site 1001585014741 arginine finger; other site 1001585014742 Helix-turn-helix domains; Region: HTH; cl00088 1001585014743 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1001585014744 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 1001585014745 dimer interface [polypeptide binding]; other site 1001585014746 phosphorylation site [posttranslational modification] 1001585014747 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1001585014748 ATP binding site [chemical binding]; other site 1001585014749 Mg2+ binding site [ion binding]; other site 1001585014750 G-X-G motif; other site 1001585014751 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 1001585014752 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 1001585014753 S-adenosylmethionine binding site [chemical binding]; other site 1001585014754 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1001585014755 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 1001585014756 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1001585014757 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1001585014758 dimer interface [polypeptide binding]; other site 1001585014759 putative CheW interface [polypeptide binding]; other site 1001585014760 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 1001585014761 ABC-ATPase subunit interface; other site 1001585014762 dimer interface [polypeptide binding]; other site 1001585014763 putative PBP binding regions; other site 1001585014764 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 1001585014765 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 1001585014766 putative ligand binding residues [chemical binding]; other site 1001585014767 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1001585014768 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1001585014769 Walker A/P-loop; other site 1001585014770 ATP binding site [chemical binding]; other site 1001585014771 Q-loop/lid; other site 1001585014772 ABC transporter signature motif; other site 1001585014773 Walker B; other site 1001585014774 D-loop; other site 1001585014775 H-loop/switch region; other site 1001585014776 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1001585014777 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 1001585014778 N-terminal plug; other site 1001585014779 ligand-binding site [chemical binding]; other site 1001585014780 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 1001585014781 dimer interface [polypeptide binding]; other site 1001585014782 [2Fe-2S] cluster binding site [ion binding]; other site 1001585014783 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1001585014784 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1001585014785 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1001585014786 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585014787 DNA-binding site [nucleotide binding]; DNA binding site 1001585014788 FCD domain; Region: FCD; cl11656 1001585014789 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1001585014790 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1001585014791 DNA-binding site [nucleotide binding]; DNA binding site 1001585014792 FCD domain; Region: FCD; cl11656 1001585014793 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 1001585014794 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 1001585014795 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 1001585014796 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 1001585014797 S-adenosylmethionine binding site [chemical binding]; other site 1001585014798 precorrin-3B synthase; Region: CobG; TIGR02435 1001585014799 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1001585014800 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1001585014801 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 1001585014802 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1001585014803 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 1001585014804 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 1001585014805 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1001585014806 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1001585014807 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 1001585014808 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 1001585014809 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; cl16911 1001585014810 Cupin domain; Region: Cupin_2; cl09118 1001585014811 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1001585014812 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585014813 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585014814 LysE type translocator; Region: LysE; cl00565 1001585014815 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1001585014816 conserved cys residue [active] 1001585014817 Helix-turn-helix domain; Region: HTH_18; pfam12833 1001585014818 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585014819 LysE type translocator; Region: LysE; cl00565 1001585014820 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1001585014821 Sel1 repeat; Region: Sel1; cl02723 1001585014822 Flavin Reductases; Region: FlaRed; cl00801 1001585014823 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 1001585014824 metabolite-proton symporter; Region: 2A0106; TIGR00883 1001585014825 putative substrate translocation pore; other site 1001585014826 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1001585014827 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 1001585014828 N-terminal plug; other site 1001585014829 ligand-binding site [chemical binding]; other site 1001585014830 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 1001585014831 muropeptide transporter; Validated; Region: ampG; PRK11010 1001585014832 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1001585014833 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1001585014834 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1001585014835 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1001585014836 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 1001585014837 N-terminal plug; other site 1001585014838 ligand-binding site [chemical binding]; other site 1001585014839 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1001585014840 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1001585014841 Coenzyme A binding pocket [chemical binding]; other site 1001585014842 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 1001585014843 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 1001585014844 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 1001585014845 metal ion-dependent adhesion site (MIDAS); other site 1001585014846 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 1001585014847 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585014848 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1001585014849 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 1001585014850 putative substrate translocation pore; other site 1001585014851 Helix-turn-helix domains; Region: HTH; cl00088 1001585014852 LysR family transcriptional regulator; Provisional; Region: PRK14997 1001585014853 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 1001585014854 putative effector binding pocket; other site 1001585014855 putative dimerization interface [polypeptide binding]; other site 1001585014856 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1001585014857 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585014858 Walker A/P-loop; other site 1001585014859 ATP binding site [chemical binding]; other site 1001585014860 Q-loop/lid; other site 1001585014861 ABC transporter signature motif; other site 1001585014862 Walker B; other site 1001585014863 D-loop; other site 1001585014864 H-loop/switch region; other site 1001585014865 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 1001585014866 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1001585014867 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1001585014868 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1001585014869 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 1001585014870 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1001585014871 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 1001585014872 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 1001585014873 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 1001585014874 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 1001585014875 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 1001585014876 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 1001585014877 active site 1001585014878 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1001585014879 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 1001585014880 glutaminase active site [active] 1001585014881 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 1001585014882 dimer interface [polypeptide binding]; other site 1001585014883 active site 1001585014884 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 1001585014885 dimer interface [polypeptide binding]; other site 1001585014886 active site 1001585014887 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1001585014888 Helix-turn-helix domains; Region: HTH; cl00088 1001585014889 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 1001585014890 LysE type translocator; Region: LysE; cl00565 1001585014891 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 1001585014892 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1001585014893 Substrate binding site; other site 1001585014894 Mg++ binding site; other site 1001585014895 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 1001585014896 active site 1001585014897 substrate binding site [chemical binding]; other site 1001585014898 CoA binding site [chemical binding]; other site 1001585014899 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1001585014900 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 1001585014901 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1001585014902 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 1001585014903 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 1001585014904 alpha subunit interaction interface [polypeptide binding]; other site 1001585014905 Walker A motif; other site 1001585014906 ATP binding site [chemical binding]; other site 1001585014907 Walker B motif; other site 1001585014908 inhibitor binding site; inhibition site 1001585014909 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1001585014910 ATP synthase; Region: ATP-synt; cl00365 1001585014911 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 1001585014912 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1001585014913 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 1001585014914 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 1001585014915 beta subunit interaction interface [polypeptide binding]; other site 1001585014916 Walker A motif; other site 1001585014917 ATP binding site [chemical binding]; other site 1001585014918 Walker B motif; other site 1001585014919 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1001585014920 Plant ATP synthase F0; Region: YMF19; cl07975 1001585014921 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1001585014922 Plant ATP synthase F0; Region: YMF19; cl07975 1001585014923 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1001585014924 ATP synthase subunit C; Region: ATP-synt_C; cl00466 1001585014925 ATP synthase A chain; Region: ATP-synt_A; cl00413 1001585014926 ATP synthase I chain; Region: ATP_synt_I; cl09170 1001585014927 ParB-like partition proteins; Region: parB_part; TIGR00180 1001585014928 ParB-like nuclease domain; Region: ParBc; cl02129 1001585014929 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1001585014930 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 1001585014931 P-loop; other site 1001585014932 Magnesium ion binding site [ion binding]; other site 1001585014933 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 1001585014934 Magnesium ion binding site [ion binding]; other site 1001585014935 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; cl16911 1001585014936 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1001585014937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1001585014938 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1001585014939 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1001585014940 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1001585014941 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1001585014942 G1 box; other site 1001585014943 GTP/Mg2+ binding site [chemical binding]; other site 1001585014944 Switch I region; other site 1001585014945 G2 box; other site 1001585014946 Switch II region; other site 1001585014947 G3 box; other site 1001585014948 G4 box; other site 1001585014949 G5 box; other site 1001585014950 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1001585014951 membrane protein insertase; Provisional; Region: PRK01318 1001585014952 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1001585014953 Haemolytic domain; Region: Haemolytic; cl00506 1001585014954 Ribonuclease P; Region: Ribonuclease_P; cl00457 1001585014955 Ribosomal protein L34; Region: Ribosomal_L34; cl00370