-- dump date 20140620_062610 -- class Genbank::misc_feature -- table misc_feature_note -- id note 435998000001 F0F1 ATP synthase subunit I; Validated; Region: PRK08049 435998000002 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 435998000003 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 435998000004 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 435998000005 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 435998000006 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 435998000007 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 435998000008 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 435998000009 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 435998000010 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 435998000011 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 435998000012 beta subunit interaction interface [polypeptide binding]; other site 435998000013 Walker A motif; other site 435998000014 ATP binding site [chemical binding]; other site 435998000015 Walker B motif; other site 435998000016 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 435998000017 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 435998000018 core domain interface [polypeptide binding]; other site 435998000019 delta subunit interface [polypeptide binding]; other site 435998000020 epsilon subunit interface [polypeptide binding]; other site 435998000021 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 435998000022 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 435998000023 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 435998000024 alpha subunit interaction interface [polypeptide binding]; other site 435998000025 Walker A motif; other site 435998000026 ATP binding site [chemical binding]; other site 435998000027 Walker B motif; other site 435998000028 inhibitor binding site; inhibition site 435998000029 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 435998000030 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 435998000031 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 435998000032 gamma subunit interface [polypeptide binding]; other site 435998000033 epsilon subunit interface [polypeptide binding]; other site 435998000034 LBP interface [polypeptide binding]; other site 435998000035 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 435998000036 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 435998000037 Substrate binding site; other site 435998000038 Mg++ binding site; other site 435998000039 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 435998000040 active site 435998000041 substrate binding site [chemical binding]; other site 435998000042 CoA binding site [chemical binding]; other site 435998000043 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 435998000044 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 435998000045 glutaminase active site [active] 435998000046 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 435998000047 dimer interface [polypeptide binding]; other site 435998000048 active site 435998000049 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 435998000050 dimer interface [polypeptide binding]; other site 435998000051 active site 435998000052 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 435998000053 substrate binding pocket [chemical binding]; other site 435998000054 membrane-bound complex binding site; other site 435998000055 hinge residues; other site 435998000056 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 435998000057 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 435998000058 dimer interface [polypeptide binding]; other site 435998000059 conserved gate region; other site 435998000060 putative PBP binding loops; other site 435998000061 ABC-ATPase subunit interface; other site 435998000062 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 435998000063 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 435998000064 dimer interface [polypeptide binding]; other site 435998000065 conserved gate region; other site 435998000066 putative PBP binding loops; other site 435998000067 ABC-ATPase subunit interface; other site 435998000068 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 435998000069 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 435998000070 Walker A/P-loop; other site 435998000071 ATP binding site [chemical binding]; other site 435998000072 Q-loop/lid; other site 435998000073 ABC transporter signature motif; other site 435998000074 Walker B; other site 435998000075 D-loop; other site 435998000076 H-loop/switch region; other site 435998000077 transcriptional regulator PhoU; Provisional; Region: PRK11115 435998000078 PhoU domain; Region: PhoU; pfam01895 435998000079 PhoU domain; Region: PhoU; pfam01895 435998000080 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 435998000081 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 435998000082 substrate binding pocket [chemical binding]; other site 435998000083 membrane-bound complex binding site; other site 435998000084 hinge residues; other site 435998000085 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 435998000086 dimer interface [polypeptide binding]; other site 435998000087 conserved gate region; other site 435998000088 putative PBP binding loops; other site 435998000089 ABC-ATPase subunit interface; other site 435998000090 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 435998000091 dimer interface [polypeptide binding]; other site 435998000092 conserved gate region; other site 435998000093 putative PBP binding loops; other site 435998000094 ABC-ATPase subunit interface; other site 435998000095 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 435998000096 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 435998000097 active site 435998000098 motif I; other site 435998000099 motif II; other site 435998000100 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 435998000101 nudix motif; other site 435998000102 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 435998000103 Predicted esterase [General function prediction only]; Region: COG0400 435998000104 Predicted flavoprotein [General function prediction only]; Region: COG0431 435998000105 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 435998000106 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 435998000107 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 435998000108 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 435998000109 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 435998000110 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 435998000111 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 435998000112 trmE is a tRNA modification GTPase; Region: trmE; cd04164 435998000113 G1 box; other site 435998000114 GTP/Mg2+ binding site [chemical binding]; other site 435998000115 Switch I region; other site 435998000116 G2 box; other site 435998000117 Switch II region; other site 435998000118 G3 box; other site 435998000119 G4 box; other site 435998000120 G5 box; other site 435998000121 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 435998000122 membrane protein insertase; Provisional; Region: PRK01318 435998000123 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 435998000124 ribonuclease P; Reviewed; Region: rnpA; PRK01732 435998000125 DnaA N-terminal domain; Region: DnaA_N; pfam11638 435998000126 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 435998000127 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998000128 Walker A motif; other site 435998000129 ATP binding site [chemical binding]; other site 435998000130 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 435998000131 Walker B motif; other site 435998000132 arginine finger; other site 435998000133 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 435998000134 DnaA box-binding interface [nucleotide binding]; other site 435998000135 DNA polymerase III subunit beta; Validated; Region: PRK05643 435998000136 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 435998000137 putative DNA binding surface [nucleotide binding]; other site 435998000138 dimer interface [polypeptide binding]; other site 435998000139 beta-clamp/clamp loader binding surface; other site 435998000140 beta-clamp/translesion DNA polymerase binding surface; other site 435998000141 recF protein; Region: recf; TIGR00611 435998000142 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998000143 Walker A/P-loop; other site 435998000144 ATP binding site [chemical binding]; other site 435998000145 Q-loop/lid; other site 435998000146 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998000147 ABC transporter signature motif; other site 435998000148 Walker B; other site 435998000149 D-loop; other site 435998000150 H-loop/switch region; other site 435998000151 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 435998000152 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998000153 Mg2+ binding site [ion binding]; other site 435998000154 G-X-G motif; other site 435998000155 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 435998000156 anchoring element; other site 435998000157 dimer interface [polypeptide binding]; other site 435998000158 ATP binding site [chemical binding]; other site 435998000159 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 435998000160 active site 435998000161 putative metal-binding site [ion binding]; other site 435998000162 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 435998000163 sugar phosphate phosphatase; Provisional; Region: PRK10513 435998000164 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 435998000165 active site 435998000166 motif I; other site 435998000167 motif II; other site 435998000168 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 435998000169 motif I; other site 435998000170 active site 435998000171 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 435998000172 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 435998000173 ornithine cyclodeaminase; Validated; Region: PRK06823 435998000174 hypothetical protein; Provisional; Region: PRK06815 435998000175 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 435998000176 tetramer interface [polypeptide binding]; other site 435998000177 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998000178 catalytic residue [active] 435998000179 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 435998000180 active site 435998000181 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 435998000182 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 435998000183 hypothetical protein; Provisional; Region: PRK11616 435998000184 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 435998000185 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 435998000186 putative dimer interface [polypeptide binding]; other site 435998000187 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 435998000188 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 435998000189 putative dimer interface [polypeptide binding]; other site 435998000190 putative transporter; Validated; Region: PRK03818 435998000191 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 435998000192 TrkA-C domain; Region: TrkA_C; pfam02080 435998000193 TrkA-C domain; Region: TrkA_C; pfam02080 435998000194 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 435998000195 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 435998000196 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 435998000197 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998000198 homodimer interface [polypeptide binding]; other site 435998000199 catalytic residue [active] 435998000200 alpha-amylase; Reviewed; Region: malS; PRK09505 435998000201 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 435998000202 active site 435998000203 catalytic site [active] 435998000204 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 435998000205 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 435998000206 dimerization interface [polypeptide binding]; other site 435998000207 ligand binding site [chemical binding]; other site 435998000208 NADP binding site [chemical binding]; other site 435998000209 catalytic site [active] 435998000210 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 435998000211 D-galactonate transporter; Region: 2A0114; TIGR00893 435998000212 putative substrate translocation pore; other site 435998000213 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 435998000214 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 435998000215 substrate binding site [chemical binding]; other site 435998000216 ATP binding site [chemical binding]; other site 435998000217 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 435998000218 Transcriptional regulators [Transcription]; Region: PurR; COG1609 435998000219 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998000220 DNA binding site [nucleotide binding] 435998000221 domain linker motif; other site 435998000222 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 435998000223 putative dimerization interface [polypeptide binding]; other site 435998000224 putative ligand binding site [chemical binding]; other site 435998000225 putative outer membrane lipoprotein; Provisional; Region: PRK10510 435998000226 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 435998000227 ligand binding site [chemical binding]; other site 435998000228 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 435998000229 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998000230 Coenzyme A binding pocket [chemical binding]; other site 435998000231 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 435998000232 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 435998000233 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 435998000234 active site 435998000235 oxyanion hole [active] 435998000236 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 435998000237 catalytic triad [active] 435998000238 Autotransporter beta-domain; Region: Autotransporter; cl17461 435998000239 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 435998000240 dimer interface [polypeptide binding]; other site 435998000241 motif 1; other site 435998000242 active site 435998000243 motif 2; other site 435998000244 motif 3; other site 435998000245 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 435998000246 DALR anticodon binding domain; Region: DALR_1; pfam05746 435998000247 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 435998000248 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 435998000249 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 435998000250 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 435998000251 active site 435998000252 P-loop; other site 435998000253 phosphorylation site [posttranslational modification] 435998000254 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 435998000255 active site 435998000256 phosphorylation site [posttranslational modification] 435998000257 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 435998000258 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 435998000259 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 435998000260 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 435998000261 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 435998000262 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 435998000263 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 435998000264 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998000265 DNA-binding site [nucleotide binding]; DNA binding site 435998000266 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 435998000267 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998000268 homodimer interface [polypeptide binding]; other site 435998000269 catalytic residue [active] 435998000270 hypothetical protein; Provisional; Region: PRK11020 435998000271 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 435998000272 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 435998000273 S-adenosylmethionine binding site [chemical binding]; other site 435998000274 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 435998000275 MOSC domain; Region: MOSC; pfam03473 435998000276 3-alpha domain; Region: 3-alpha; pfam03475 435998000277 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 435998000278 catalytic core [active] 435998000279 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 435998000280 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 435998000281 dimerization interface [polypeptide binding]; other site 435998000282 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 435998000283 dimer interface [polypeptide binding]; other site 435998000284 putative CheW interface [polypeptide binding]; other site 435998000285 superoxide dismutase; Provisional; Region: PRK10925 435998000286 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 435998000287 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 435998000288 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 435998000289 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 435998000290 molybdopterin cofactor binding site; other site 435998000291 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 435998000292 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 435998000293 molybdopterin cofactor binding site; other site 435998000294 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 435998000295 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 435998000296 formate dehydrogenase-O subunit gamma; Provisional; Region: PRK10639 435998000297 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 435998000298 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 435998000299 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 435998000300 hypothetical protein; Provisional; Region: PRK11615 435998000301 putative glutathione S-transferase; Provisional; Region: PRK10357 435998000302 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 435998000303 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 435998000304 N-terminal domain interface [polypeptide binding]; other site 435998000305 putative substrate binding pocket (H-site) [chemical binding]; other site 435998000306 dimer interface [polypeptide binding]; other site 435998000307 selenocysteine synthase; Provisional; Region: PRK04311 435998000308 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 435998000309 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 435998000310 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 435998000311 catalytic residue [active] 435998000312 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 435998000313 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 435998000314 G1 box; other site 435998000315 putative GEF interaction site [polypeptide binding]; other site 435998000316 GTP/Mg2+ binding site [chemical binding]; other site 435998000317 Switch I region; other site 435998000318 G2 box; other site 435998000319 G3 box; other site 435998000320 Switch II region; other site 435998000321 G4 box; other site 435998000322 G5 box; other site 435998000323 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 435998000324 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 435998000325 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 435998000326 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 435998000327 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 435998000328 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998000329 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 435998000330 dimerization interface [polypeptide binding]; other site 435998000331 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 435998000332 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 435998000333 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 435998000334 putative substrate translocation pore; other site 435998000335 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 435998000336 Acyltransferase family; Region: Acyl_transf_3; pfam01757 435998000337 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 435998000338 conserved cys residue [active] 435998000339 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998000340 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 435998000341 catalytic triad [active] 435998000342 conserved cis-peptide bond; other site 435998000343 putative deaminase; Validated; Region: PRK06846 435998000344 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 435998000345 active site 435998000346 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 435998000347 dimerization interface [polypeptide binding]; other site 435998000348 putative DNA binding site [nucleotide binding]; other site 435998000349 putative Zn2+ binding site [ion binding]; other site 435998000350 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 435998000351 active site 435998000352 NTP binding site [chemical binding]; other site 435998000353 metal binding triad [ion binding]; metal-binding site 435998000354 antibiotic binding site [chemical binding]; other site 435998000355 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998000356 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 435998000357 dimerization interface [polypeptide binding]; other site 435998000358 putative cyanate transporter; Provisional; Region: cynX; PRK09705 435998000359 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 435998000360 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 435998000361 integrase; Provisional; Region: PRK09692 435998000362 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 435998000363 active site 435998000364 Int/Topo IB signature motif; other site 435998000365 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 435998000366 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 435998000367 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 435998000368 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 435998000369 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 435998000370 active site 435998000371 metal binding site [ion binding]; metal-binding site 435998000372 interdomain interaction site; other site 435998000373 D5 N terminal like; Region: D5_N; smart00885 435998000374 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 435998000375 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 435998000376 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 435998000377 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 435998000378 active site 435998000379 catalytic site [active] 435998000380 substrate binding site [chemical binding]; other site 435998000381 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 435998000382 active site 435998000383 NTP binding site [chemical binding]; other site 435998000384 metal binding triad [ion binding]; metal-binding site 435998000385 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 435998000386 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 435998000387 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 435998000388 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 435998000389 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 435998000390 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 435998000391 DNA binding residues [nucleotide binding] 435998000392 dimerization interface [polypeptide binding]; other site 435998000393 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 435998000394 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 435998000395 DNA binding site [nucleotide binding] 435998000396 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998000397 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998000398 putative fimbrial outer membrane usher protein StfC; Provisional; Region: PRK15284 435998000399 PapC N-terminal domain; Region: PapC_N; pfam13954 435998000400 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 435998000401 PapC C-terminal domain; Region: PapC_C; pfam13953 435998000402 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 435998000403 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 435998000404 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998000405 Fimbrial protein; Region: Fimbrial; pfam00419 435998000406 Fimbrial protein; Region: Fimbrial; cl01416 435998000407 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998000408 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 435998000409 active site 435998000410 NTP binding site [chemical binding]; other site 435998000411 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 435998000412 nucleic acid binding site [nucleotide binding]; other site 435998000413 Virulence protein [General function prediction only]; Region: COG3943 435998000414 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 435998000415 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998000416 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_1; cd08460 435998000417 putative substrate binding pocket [chemical binding]; other site 435998000418 putative dimerization interface [polypeptide binding]; other site 435998000419 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 435998000420 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 435998000421 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 435998000422 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435998000423 HlyD family secretion protein; Region: HlyD_3; pfam13437 435998000424 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 435998000425 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 435998000426 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 435998000427 FAD binding pocket [chemical binding]; other site 435998000428 FAD binding motif [chemical binding]; other site 435998000429 phosphate binding motif [ion binding]; other site 435998000430 NAD binding pocket [chemical binding]; other site 435998000431 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 435998000432 Ligand Binding Site [chemical binding]; other site 435998000433 Protein of unknown function (DUF962); Region: DUF962; cl01879 435998000434 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 435998000435 active site 435998000436 NTP binding site [chemical binding]; other site 435998000437 metal binding triad [ion binding]; metal-binding site 435998000438 antibiotic binding site [chemical binding]; other site 435998000439 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 435998000440 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 435998000441 FMN binding site [chemical binding]; other site 435998000442 active site 435998000443 substrate binding site [chemical binding]; other site 435998000444 catalytic residue [active] 435998000445 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 435998000446 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435998000447 putative substrate translocation pore; other site 435998000448 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 435998000449 extended (e) SDRs; Region: SDR_e; cd08946 435998000450 NAD(P) binding site [chemical binding]; other site 435998000451 active site 435998000452 substrate binding site [chemical binding]; other site 435998000453 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 435998000454 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 435998000455 active site turn [active] 435998000456 phosphorylation site [posttranslational modification] 435998000457 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 435998000458 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 435998000459 HPr interaction site; other site 435998000460 glycerol kinase (GK) interaction site [polypeptide binding]; other site 435998000461 active site 435998000462 phosphorylation site [posttranslational modification] 435998000463 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 435998000464 beta-galactosidase; Region: BGL; TIGR03356 435998000465 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 435998000466 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 435998000467 HD domain; Region: HD_4; pfam13328 435998000468 Transcriptional regulators [Transcription]; Region: MarR; COG1846 435998000469 MarR family; Region: MarR; pfam01047 435998000470 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 435998000471 phosphoethanolamine transferase; Provisional; Region: PRK11560 435998000472 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 435998000473 Sulfatase; Region: Sulfatase; pfam00884 435998000474 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 435998000475 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998000476 active site 435998000477 phosphorylation site [posttranslational modification] 435998000478 intermolecular recognition site; other site 435998000479 dimerization interface [polypeptide binding]; other site 435998000480 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 435998000481 DNA binding residues [nucleotide binding] 435998000482 dimerization interface [polypeptide binding]; other site 435998000483 sensory histidine kinase UhpB; Provisional; Region: PRK11644 435998000484 MASE1; Region: MASE1; cl17823 435998000485 MASE1; Region: MASE1; pfam05231 435998000486 Histidine kinase; Region: HisKA_3; pfam07730 435998000487 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998000488 ATP binding site [chemical binding]; other site 435998000489 Mg2+ binding site [ion binding]; other site 435998000490 G-X-G motif; other site 435998000491 regulatory protein UhpC; Provisional; Region: PRK11663 435998000492 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 435998000493 putative substrate translocation pore; other site 435998000494 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 435998000495 Predicted transcriptional regulator [Transcription]; Region: COG4190 435998000496 N-terminal Early set domain associated with the catalytic domain of chitinase; Region: E_set_Chitinase_N; cd02848 435998000497 Glyco_18 domain; Region: Glyco_18; smart00636 435998000498 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 435998000499 active site 435998000500 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 435998000501 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 435998000502 peptide binding site [polypeptide binding]; other site 435998000503 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 435998000504 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 435998000505 dimer interface [polypeptide binding]; other site 435998000506 conserved gate region; other site 435998000507 putative PBP binding loops; other site 435998000508 ABC-ATPase subunit interface; other site 435998000509 dipeptide transporter; Provisional; Region: PRK10913 435998000510 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 435998000511 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 435998000512 dimer interface [polypeptide binding]; other site 435998000513 conserved gate region; other site 435998000514 putative PBP binding loops; other site 435998000515 ABC-ATPase subunit interface; other site 435998000516 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 435998000517 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 435998000518 Walker A/P-loop; other site 435998000519 ATP binding site [chemical binding]; other site 435998000520 Q-loop/lid; other site 435998000521 ABC transporter signature motif; other site 435998000522 Walker B; other site 435998000523 D-loop; other site 435998000524 H-loop/switch region; other site 435998000525 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 435998000526 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 435998000527 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 435998000528 Walker A/P-loop; other site 435998000529 ATP binding site [chemical binding]; other site 435998000530 Q-loop/lid; other site 435998000531 ABC transporter signature motif; other site 435998000532 Walker B; other site 435998000533 D-loop; other site 435998000534 H-loop/switch region; other site 435998000535 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 435998000536 Protein of unknown function (DUF3260); Region: DUF3260; pfam11658 435998000537 Protein of unknown function (DUF2636); Region: DUF2636; pfam11120 435998000538 cellulose biosynthesis protein BcsE; Provisional; Region: PRK15045 435998000539 Protein of unknown function (DUF2819); Region: DUF2819; pfam10995 435998000540 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 435998000541 YhjQ protein; Region: YhjQ; pfam06564 435998000542 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 435998000543 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 435998000544 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 435998000545 DXD motif; other site 435998000546 PilZ domain; Region: PilZ; pfam07238 435998000547 cellulose synthase regulator protein; Provisional; Region: PRK11114 435998000548 endo-1,4-D-glucanase; Provisional; Region: PRK11097 435998000549 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 435998000550 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 435998000551 TPR motif; other site 435998000552 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 435998000553 binding surface 435998000554 TPR motif; other site 435998000555 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 435998000556 binding surface 435998000557 TPR motif; other site 435998000558 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 435998000559 putative diguanylate cyclase; Provisional; Region: PRK13561 435998000560 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 435998000561 I-site; other site 435998000562 active site 435998000563 metal binding site [ion binding]; metal-binding site 435998000564 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 435998000565 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 435998000566 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 435998000567 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 435998000568 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 435998000569 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 435998000570 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 435998000571 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 435998000572 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 435998000573 Part of AAA domain; Region: AAA_19; pfam13245 435998000574 Family description; Region: UvrD_C_2; pfam13538 435998000575 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 435998000576 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 435998000577 nucleotide binding site [chemical binding]; other site 435998000578 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 435998000579 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 435998000580 ATP binding site [chemical binding]; other site 435998000581 Mg++ binding site [ion binding]; other site 435998000582 motif III; other site 435998000583 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 435998000584 nucleotide binding region [chemical binding]; other site 435998000585 ATP-binding site [chemical binding]; other site 435998000586 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 435998000587 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 435998000588 catalytic residues [active] 435998000589 transcription termination factor Rho; Provisional; Region: rho; PRK09376 435998000590 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 435998000591 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 435998000592 RNA binding site [nucleotide binding]; other site 435998000593 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 435998000594 multimer interface [polypeptide binding]; other site 435998000595 Walker A motif; other site 435998000596 ATP binding site [chemical binding]; other site 435998000597 Walker B motif; other site 435998000598 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase; Provisional; Region: PRK15119 435998000599 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 435998000600 Mg++ binding site [ion binding]; other site 435998000601 putative catalytic motif [active] 435998000602 substrate binding site [chemical binding]; other site 435998000603 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 435998000604 Chain length determinant protein; Region: Wzz; cl15801 435998000605 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 435998000606 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 435998000607 active site 435998000608 homodimer interface [polypeptide binding]; other site 435998000609 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 435998000610 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 435998000611 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 435998000612 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 435998000613 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 435998000614 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 435998000615 NAD binding site [chemical binding]; other site 435998000616 substrate binding site [chemical binding]; other site 435998000617 homodimer interface [polypeptide binding]; other site 435998000618 active site 435998000619 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 435998000620 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 435998000621 substrate binding site; other site 435998000622 tetramer interface; other site 435998000623 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 435998000624 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998000625 Coenzyme A binding pocket [chemical binding]; other site 435998000626 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 435998000627 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 435998000628 inhibitor-cofactor binding pocket; inhibition site 435998000629 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998000630 catalytic residue [active] 435998000631 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 435998000632 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 435998000633 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 435998000634 putative common antigen polymerase; Provisional; Region: PRK02975 435998000635 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 435998000636 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 435998000637 putative transport protein YifK; Provisional; Region: PRK10746 435998000638 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 435998000639 HemY protein N-terminus; Region: HemY_N; pfam07219 435998000640 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 435998000641 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 435998000642 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 435998000643 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 435998000644 active site 435998000645 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 435998000646 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 435998000647 domain interfaces; other site 435998000648 active site 435998000649 adenylate cyclase; Provisional; Region: cyaA; PRK09450 435998000650 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 435998000651 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 435998000652 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 435998000653 putative iron binding site [ion binding]; other site 435998000654 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 435998000655 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 435998000656 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 435998000657 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 435998000658 hypothetical protein; Provisional; Region: PRK10963 435998000659 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 435998000660 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 435998000661 active site 435998000662 DNA binding site [nucleotide binding] 435998000663 Int/Topo IB signature motif; other site 435998000664 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 435998000665 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 435998000666 motif II; other site 435998000667 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 435998000668 Part of AAA domain; Region: AAA_19; pfam13245 435998000669 Family description; Region: UvrD_C_2; pfam13538 435998000670 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 435998000671 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 435998000672 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 435998000673 oligomer interface [polypeptide binding]; other site 435998000674 Cl binding site [ion binding]; other site 435998000675 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 435998000676 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 435998000677 CoenzymeA binding site [chemical binding]; other site 435998000678 subunit interaction site [polypeptide binding]; other site 435998000679 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 435998000680 dimerization interface [polypeptide binding]; other site 435998000681 substrate binding site [chemical binding]; other site 435998000682 active site 435998000683 calcium binding site [ion binding]; other site 435998000684 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 435998000685 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 435998000686 ATP binding site [chemical binding]; other site 435998000687 putative Mg++ binding site [ion binding]; other site 435998000688 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 435998000689 nucleotide binding region [chemical binding]; other site 435998000690 ATP-binding site [chemical binding]; other site 435998000691 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 435998000692 HRDC domain; Region: HRDC; pfam00570 435998000693 threonine efflux system; Provisional; Region: PRK10229 435998000694 homoserine/homoserine lactone efflux protein; Provisional; Region: rhtB; PRK10520 435998000695 lysophospholipase L2; Provisional; Region: PRK10749 435998000696 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 435998000697 putative hydrolase; Provisional; Region: PRK10976 435998000698 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 435998000699 active site 435998000700 motif I; other site 435998000701 motif II; other site 435998000702 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 435998000703 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 435998000704 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 435998000705 active site 435998000706 catalytic site [active] 435998000707 metal binding site [ion binding]; metal-binding site 435998000708 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 435998000709 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 435998000710 putative substrate translocation pore; other site 435998000711 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 435998000712 hydroxyglutarate oxidase; Provisional; Region: PRK11728 435998000713 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 435998000714 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 435998000715 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 435998000716 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 435998000717 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 435998000718 Cysteine-rich domain; Region: CCG; pfam02754 435998000719 Cysteine-rich domain; Region: CCG; pfam02754 435998000720 hypothetical protein; Provisional; Region: PRK11615 435998000721 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998000722 Coenzyme A binding pocket [chemical binding]; other site 435998000723 hypothetical protein; Provisional; Region: PRK11212 435998000724 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 435998000725 CPxP motif; other site 435998000726 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 435998000727 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 435998000728 metal-binding site [ion binding] 435998000729 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 435998000730 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 435998000731 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 435998000732 active site 435998000733 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 435998000734 Protease inhibitor Inh; Region: Inh; pfam02974 435998000735 Predicted membrane protein [Function unknown]; Region: COG3714 435998000736 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 435998000737 hypothetical protein; Provisional; Region: PRK10910 435998000738 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 435998000739 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 435998000740 S-adenosylmethionine binding site [chemical binding]; other site 435998000741 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 435998000742 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 435998000743 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 435998000744 P loop; other site 435998000745 GTP binding site [chemical binding]; other site 435998000746 cell division protein FtsE; Provisional; Region: PRK10908 435998000747 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998000748 Walker A/P-loop; other site 435998000749 ATP binding site [chemical binding]; other site 435998000750 Q-loop/lid; other site 435998000751 ABC transporter signature motif; other site 435998000752 Walker B; other site 435998000753 D-loop; other site 435998000754 H-loop/switch region; other site 435998000755 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 435998000756 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 435998000757 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 435998000758 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435998000759 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 435998000760 DNA binding residues [nucleotide binding] 435998000761 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 435998000762 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 435998000763 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 435998000764 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 435998000765 dimerization interface [polypeptide binding]; other site 435998000766 ligand binding site [chemical binding]; other site 435998000767 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 435998000768 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 435998000769 TM-ABC transporter signature motif; other site 435998000770 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 435998000771 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 435998000772 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 435998000773 TM-ABC transporter signature motif; other site 435998000774 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 435998000775 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 435998000776 Walker A/P-loop; other site 435998000777 ATP binding site [chemical binding]; other site 435998000778 Q-loop/lid; other site 435998000779 ABC transporter signature motif; other site 435998000780 Walker B; other site 435998000781 D-loop; other site 435998000782 H-loop/switch region; other site 435998000783 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 435998000784 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 435998000785 Walker A/P-loop; other site 435998000786 ATP binding site [chemical binding]; other site 435998000787 Q-loop/lid; other site 435998000788 ABC transporter signature motif; other site 435998000789 Walker B; other site 435998000790 D-loop; other site 435998000791 H-loop/switch region; other site 435998000792 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 435998000793 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 435998000794 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998000795 homodimer interface [polypeptide binding]; other site 435998000796 catalytic residue [active] 435998000797 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 435998000798 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 435998000799 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 435998000800 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 435998000801 dimer interface [polypeptide binding]; other site 435998000802 conserved gate region; other site 435998000803 putative PBP binding loops; other site 435998000804 ABC-ATPase subunit interface; other site 435998000805 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 435998000806 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 435998000807 dimer interface [polypeptide binding]; other site 435998000808 conserved gate region; other site 435998000809 putative PBP binding loops; other site 435998000810 ABC-ATPase subunit interface; other site 435998000811 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 435998000812 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 435998000813 Walker A/P-loop; other site 435998000814 ATP binding site [chemical binding]; other site 435998000815 Q-loop/lid; other site 435998000816 ABC transporter signature motif; other site 435998000817 Walker B; other site 435998000818 D-loop; other site 435998000819 H-loop/switch region; other site 435998000820 TOBE domain; Region: TOBE_2; pfam08402 435998000821 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 435998000822 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 435998000823 putative active site [active] 435998000824 catalytic site [active] 435998000825 putative metal binding site [ion binding]; other site 435998000826 Predicted permeases [General function prediction only]; Region: COG0679 435998000827 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 435998000828 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 435998000829 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998000830 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 435998000831 putative dimerization interface [polypeptide binding]; other site 435998000832 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 435998000833 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 435998000834 THF binding site; other site 435998000835 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 435998000836 substrate binding site [chemical binding]; other site 435998000837 THF binding site; other site 435998000838 zinc-binding site [ion binding]; other site 435998000839 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 435998000840 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435998000841 uridine phosphorylase; Provisional; Region: PRK11178 435998000842 uridine phosphorylase; Region: Uridine-psphlse; TIGR01718 435998000843 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 435998000844 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 435998000845 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 435998000846 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 435998000847 DNA recombination protein RmuC; Provisional; Region: PRK10361 435998000848 RmuC family; Region: RmuC; pfam02646 435998000849 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 435998000850 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 435998000851 S-adenosylmethionine binding site [chemical binding]; other site 435998000852 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 435998000853 SCP-2 sterol transfer family; Region: SCP2; pfam02036 435998000854 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 435998000855 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 435998000856 twin arginine translocase protein A; Provisional; Region: tatA; PRK04598 435998000857 sec-independent translocase; Provisional; Region: PRK01770 435998000858 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 435998000859 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 435998000860 active site 435998000861 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 435998000862 dimer interface [polypeptide binding]; other site 435998000863 allosteric magnesium binding site [ion binding]; other site 435998000864 active site 435998000865 aspartate-rich active site metal binding site; other site 435998000866 Schiff base residues; other site 435998000867 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 435998000868 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 435998000869 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 435998000870 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 435998000871 active site pocket [active] 435998000872 oxyanion hole [active] 435998000873 catalytic triad [active] 435998000874 active site nucleophile [active] 435998000875 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 435998000876 FMN reductase; Validated; Region: fre; PRK08051 435998000877 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 435998000878 FAD binding pocket [chemical binding]; other site 435998000879 FAD binding motif [chemical binding]; other site 435998000880 phosphate binding motif [ion binding]; other site 435998000881 beta-alpha-beta structure motif; other site 435998000882 NAD binding pocket [chemical binding]; other site 435998000883 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 435998000884 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 435998000885 dimer interface [polypeptide binding]; other site 435998000886 active site 435998000887 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 435998000888 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 435998000889 substrate binding site [chemical binding]; other site 435998000890 oxyanion hole (OAH) forming residues; other site 435998000891 trimer interface [polypeptide binding]; other site 435998000892 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 435998000893 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 435998000894 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 435998000895 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 435998000896 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435998000897 putative substrate translocation pore; other site 435998000898 proline dipeptidase; Provisional; Region: PRK13607 435998000899 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 435998000900 active site 435998000901 hypothetical protein; Provisional; Region: PRK11568 435998000902 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 435998000903 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 435998000904 potassium transporter; Provisional; Region: PRK10750 435998000905 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 435998000906 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 435998000907 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 435998000908 FAD binding domain; Region: FAD_binding_4; pfam01565 435998000909 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 435998000910 Biotin operon repressor [Transcription]; Region: BirA; COG1654 435998000911 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 435998000912 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 435998000913 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 435998000914 pantothenate kinase; Provisional; Region: PRK05439 435998000915 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 435998000916 ATP-binding site [chemical binding]; other site 435998000917 CoA-binding site [chemical binding]; other site 435998000918 Mg2+-binding site [ion binding]; other site 435998000919 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 435998000920 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998000921 Coenzyme A binding pocket [chemical binding]; other site 435998000922 elongation factor Tu; Reviewed; Region: PRK00049 435998000923 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 435998000924 G1 box; other site 435998000925 GEF interaction site [polypeptide binding]; other site 435998000926 GTP/Mg2+ binding site [chemical binding]; other site 435998000927 Switch I region; other site 435998000928 G2 box; other site 435998000929 G3 box; other site 435998000930 Switch II region; other site 435998000931 G4 box; other site 435998000932 G5 box; other site 435998000933 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 435998000934 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 435998000935 Antibiotic Binding Site [chemical binding]; other site 435998000936 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 435998000937 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 435998000938 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 435998000939 putative homodimer interface [polypeptide binding]; other site 435998000940 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 435998000941 heterodimer interface [polypeptide binding]; other site 435998000942 homodimer interface [polypeptide binding]; other site 435998000943 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 435998000944 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 435998000945 23S rRNA interface [nucleotide binding]; other site 435998000946 L7/L12 interface [polypeptide binding]; other site 435998000947 putative thiostrepton binding site; other site 435998000948 L25 interface [polypeptide binding]; other site 435998000949 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 435998000950 mRNA/rRNA interface [nucleotide binding]; other site 435998000951 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 435998000952 23S rRNA interface [nucleotide binding]; other site 435998000953 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 435998000954 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 435998000955 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 435998000956 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 435998000957 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 435998000958 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 435998000959 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 435998000960 RPB3 interaction site [polypeptide binding]; other site 435998000961 RPB1 interaction site [polypeptide binding]; other site 435998000962 RPB11 interaction site [polypeptide binding]; other site 435998000963 RPB10 interaction site [polypeptide binding]; other site 435998000964 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 435998000965 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 435998000966 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 435998000967 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 435998000968 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 435998000969 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 435998000970 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 435998000971 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 435998000972 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 435998000973 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 435998000974 DNA binding site [nucleotide binding] 435998000975 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 435998000976 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 435998000977 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998000978 Coenzyme A binding pocket [chemical binding]; other site 435998000979 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 435998000980 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435998000981 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998000982 ATP binding site [chemical binding]; other site 435998000983 Mg2+ binding site [ion binding]; other site 435998000984 G-X-G motif; other site 435998000985 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 435998000986 active site 435998000987 phosphorylation site [posttranslational modification] 435998000988 intermolecular recognition site; other site 435998000989 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 435998000990 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 435998000991 FeS/SAM binding site; other site 435998000992 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 435998000993 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 435998000994 ThiS interaction site; other site 435998000995 putative active site [active] 435998000996 tetramer interface [polypeptide binding]; other site 435998000997 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 435998000998 thiS-thiF/thiG interaction site; other site 435998000999 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 435998001000 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 435998001001 ATP binding site [chemical binding]; other site 435998001002 substrate interface [chemical binding]; other site 435998001003 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 435998001004 thiamine phosphate binding site [chemical binding]; other site 435998001005 active site 435998001006 pyrophosphate binding site [ion binding]; other site 435998001007 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 435998001008 ThiC-associated domain; Region: ThiC-associated; pfam13667 435998001009 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 435998001010 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 435998001011 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 435998001012 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 435998001013 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 435998001014 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 435998001015 putative NADH binding site [chemical binding]; other site 435998001016 putative active site [active] 435998001017 nudix motif; other site 435998001018 putative metal binding site [ion binding]; other site 435998001019 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 435998001020 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 435998001021 substrate binding site [chemical binding]; other site 435998001022 active site 435998001023 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 435998001024 Active_site [active] 435998001025 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 435998001026 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 435998001027 IHF dimer interface [polypeptide binding]; other site 435998001028 IHF - DNA interface [nucleotide binding]; other site 435998001029 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 435998001030 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 435998001031 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 435998001032 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 435998001033 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 435998001034 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 435998001035 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 435998001036 purine monophosphate binding site [chemical binding]; other site 435998001037 dimer interface [polypeptide binding]; other site 435998001038 putative catalytic residues [active] 435998001039 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 435998001040 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 435998001041 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 435998001042 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 435998001043 Na binding site [ion binding]; other site 435998001044 Predicted membrane protein [Function unknown]; Region: COG3162 435998001045 acetyl-CoA synthetase; Provisional; Region: PRK00174 435998001046 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 435998001047 active site 435998001048 CoA binding site [chemical binding]; other site 435998001049 acyl-activating enzyme (AAE) consensus motif; other site 435998001050 AMP binding site [chemical binding]; other site 435998001051 acetate binding site [chemical binding]; other site 435998001052 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 435998001053 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 435998001054 Condensation domain; Region: Condensation; pfam00668 435998001055 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 435998001056 Condensation domain; Region: Condensation; pfam00668 435998001057 Nonribosomal peptide synthase; Region: NRPS; pfam08415 435998001058 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 435998001059 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 435998001060 acyl-activating enzyme (AAE) consensus motif; other site 435998001061 AMP binding site [chemical binding]; other site 435998001062 Condensation domain; Region: Condensation; pfam00668 435998001063 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 435998001064 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 435998001065 heme-binding site [chemical binding]; other site 435998001066 Nonribosomal peptide synthase; Region: NRPS; pfam08415 435998001067 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 435998001068 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 435998001069 N-terminal plug; other site 435998001070 ligand-binding site [chemical binding]; other site 435998001071 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 435998001072 Condensation domain; Region: Condensation; pfam00668 435998001073 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 435998001074 Uncharacterized conserved protein [Function unknown]; Region: COG3391 435998001075 Uncharacterized conserved protein [Function unknown]; Region: COG3391 435998001076 outer membrane receptor FepA; Provisional; Region: PRK13524 435998001077 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 435998001078 N-terminal plug; other site 435998001079 ligand-binding site [chemical binding]; other site 435998001080 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 435998001081 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 435998001082 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 435998001083 MbtH-like protein; Region: MbtH; pfam03621 435998001084 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 435998001085 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 435998001086 acyl-activating enzyme (AAE) consensus motif; other site 435998001087 AMP binding site [chemical binding]; other site 435998001088 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 435998001089 H+ Antiporter protein; Region: 2A0121; TIGR00900 435998001090 isochorismate synthase EntC; Provisional; Region: PRK15016 435998001091 chorismate binding enzyme; Region: Chorismate_bind; cl10555 435998001092 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 435998001093 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 435998001094 acyl-activating enzyme (AAE) consensus motif; other site 435998001095 active site 435998001096 AMP binding site [chemical binding]; other site 435998001097 substrate binding site [chemical binding]; other site 435998001098 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 435998001099 hydrophobic substrate binding pocket; other site 435998001100 Isochorismatase family; Region: Isochorismatase; pfam00857 435998001101 active site 435998001102 conserved cis-peptide bond; other site 435998001103 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 435998001104 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 435998001105 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 435998001106 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 435998001107 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; cl17355 435998001108 DNA binding site [nucleotide binding] 435998001109 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; cl17355 435998001110 DNA binding site [nucleotide binding] 435998001111 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998001112 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998001113 putative fimbrial outer membrane usher protein StfC; Provisional; Region: PRK15284 435998001114 PapC N-terminal domain; Region: PapC_N; pfam13954 435998001115 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 435998001116 PapC C-terminal domain; Region: PapC_C; pfam13953 435998001117 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 435998001118 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 435998001119 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998001120 Fimbrial protein; Region: Fimbrial; pfam00419 435998001121 Fimbrial protein; Region: Fimbrial; pfam00419 435998001122 PapG chaperone-binding domain; Region: PapG_C; pfam03628 435998001123 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998001124 fimbriae regulatory protein FimW; Provisional; Region: PRK15201 435998001125 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 435998001126 DNA binding residues [nucleotide binding] 435998001127 Fimbrial protein; Region: Fimbrial; cl01416 435998001128 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 435998001129 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998001130 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 435998001131 dimerizarion interface [polypeptide binding]; other site 435998001132 CrgA pocket; other site 435998001133 substrate binding pocket [chemical binding]; other site 435998001134 benzoate transport; Region: 2A0115; TIGR00895 435998001135 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 435998001136 putative substrate translocation pore; other site 435998001137 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 435998001138 YheO-like PAS domain; Region: PAS_6; pfam08348 435998001139 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 435998001140 DNA-binding interface [nucleotide binding]; DNA binding site 435998001141 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 435998001142 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 435998001143 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 435998001144 homotrimer interaction site [polypeptide binding]; other site 435998001145 putative active site [active] 435998001146 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 435998001147 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 435998001148 tetramer interface [polypeptide binding]; other site 435998001149 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998001150 catalytic residue [active] 435998001151 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 435998001152 putative deacylase active site [active] 435998001153 putative transcriptional regulator; Provisional; Region: PRK11640 435998001154 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 435998001155 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 435998001156 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 435998001157 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 435998001158 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 435998001159 DsbD alpha interface [polypeptide binding]; other site 435998001160 catalytic residues [active] 435998001161 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 435998001162 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 435998001163 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 435998001164 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 435998001165 Aspartase; Region: Aspartase; cd01357 435998001166 active sites [active] 435998001167 tetramer interface [polypeptide binding]; other site 435998001168 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 435998001169 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 435998001170 oligomerisation interface [polypeptide binding]; other site 435998001171 mobile loop; other site 435998001172 roof hairpin; other site 435998001173 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 435998001174 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 435998001175 ring oligomerisation interface [polypeptide binding]; other site 435998001176 ATP/Mg binding site [chemical binding]; other site 435998001177 stacking interactions; other site 435998001178 hinge regions; other site 435998001179 methyl-accepting protein IV; Provisional; Region: PRK09793 435998001180 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 435998001181 dimer interface [polypeptide binding]; other site 435998001182 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 435998001183 dimerization interface [polypeptide binding]; other site 435998001184 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 435998001185 dimer interface [polypeptide binding]; other site 435998001186 putative CheW interface [polypeptide binding]; other site 435998001187 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 435998001188 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 435998001189 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 435998001190 FeS/SAM binding site; other site 435998001191 elongation factor P; Validated; Region: PRK00529 435998001192 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 435998001193 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 435998001194 RNA binding site [nucleotide binding]; other site 435998001195 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 435998001196 RNA binding site [nucleotide binding]; other site 435998001197 Predicted small secreted protein [Function unknown]; Region: COG5510 435998001198 multidrug efflux system protein; Provisional; Region: PRK11431 435998001199 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 435998001200 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 435998001201 Iron-sulfur protein interface; other site 435998001202 proximal quinone binding site [chemical binding]; other site 435998001203 C-subunit interface; other site 435998001204 distal quinone binding site; other site 435998001205 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 435998001206 D-subunit interface [polypeptide binding]; other site 435998001207 Iron-sulfur protein interface; other site 435998001208 proximal quinone binding site [chemical binding]; other site 435998001209 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 435998001210 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 435998001211 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 435998001212 L-aspartate oxidase; Provisional; Region: PRK06175 435998001213 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 435998001214 poxB regulator PoxA; Provisional; Region: PRK09350 435998001215 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 435998001216 motif 1; other site 435998001217 dimer interface [polypeptide binding]; other site 435998001218 active site 435998001219 motif 2; other site 435998001220 motif 3; other site 435998001221 putative mechanosensitive channel protein; Provisional; Region: PRK10929 435998001222 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 435998001223 Mechanosensitive ion channel; Region: MS_channel; pfam00924 435998001224 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 435998001225 GTPase RsgA; Reviewed; Region: PRK12288 435998001226 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 435998001227 RNA binding site [nucleotide binding]; other site 435998001228 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 435998001229 GTPase/Zn-binding domain interface [polypeptide binding]; other site 435998001230 GTP/Mg2+ binding site [chemical binding]; other site 435998001231 G4 box; other site 435998001232 G5 box; other site 435998001233 G1 box; other site 435998001234 Switch I region; other site 435998001235 G2 box; other site 435998001236 G3 box; other site 435998001237 Switch II region; other site 435998001238 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 435998001239 catalytic site [active] 435998001240 putative active site [active] 435998001241 putative substrate binding site [chemical binding]; other site 435998001242 dimer interface [polypeptide binding]; other site 435998001243 epoxyqueuosine reductase; Region: TIGR00276 435998001244 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 435998001245 putative carbohydrate kinase; Provisional; Region: PRK10565 435998001246 Uncharacterized conserved protein [Function unknown]; Region: COG0062 435998001247 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 435998001248 putative substrate binding site [chemical binding]; other site 435998001249 putative ATP binding site [chemical binding]; other site 435998001250 ADP-binding protein; Provisional; Region: PRK10646 435998001251 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 435998001252 AMIN domain; Region: AMIN; pfam11741 435998001253 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 435998001254 active site 435998001255 metal binding site [ion binding]; metal-binding site 435998001256 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 435998001257 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 435998001258 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 435998001259 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998001260 ATP binding site [chemical binding]; other site 435998001261 Mg2+ binding site [ion binding]; other site 435998001262 G-X-G motif; other site 435998001263 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 435998001264 ATP binding site [chemical binding]; other site 435998001265 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 435998001266 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 435998001267 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 435998001268 bacterial Hfq-like; Region: Hfq; cd01716 435998001269 hexamer interface [polypeptide binding]; other site 435998001270 Sm1 motif; other site 435998001271 RNA binding site [nucleotide binding]; other site 435998001272 Sm2 motif; other site 435998001273 GTPase HflX; Provisional; Region: PRK11058 435998001274 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 435998001275 HflX GTPase family; Region: HflX; cd01878 435998001276 G1 box; other site 435998001277 GTP/Mg2+ binding site [chemical binding]; other site 435998001278 Switch I region; other site 435998001279 G2 box; other site 435998001280 G3 box; other site 435998001281 Switch II region; other site 435998001282 G4 box; other site 435998001283 G5 box; other site 435998001284 FtsH protease regulator HflK; Provisional; Region: PRK10930 435998001285 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 435998001286 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 435998001287 FtsH protease regulator HflC; Provisional; Region: PRK11029 435998001288 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 435998001289 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 435998001290 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 435998001291 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 435998001292 GDP-binding site [chemical binding]; other site 435998001293 ACT binding site; other site 435998001294 IMP binding site; other site 435998001295 transcriptional repressor NsrR; Provisional; Region: PRK11014 435998001296 Rrf2 family protein; Region: rrf2_super; TIGR00738 435998001297 exoribonuclease R; Provisional; Region: PRK11642 435998001298 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 435998001299 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 435998001300 RNB domain; Region: RNB; pfam00773 435998001301 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 435998001302 RNA binding site [nucleotide binding]; other site 435998001303 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 435998001304 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 435998001305 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 435998001306 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 435998001307 Proteins involved in DNA damage response, similar to the AidB gene product; Region: AidB; cd01154 435998001308 FAD binding site [chemical binding]; other site 435998001309 substrate binding site [chemical binding]; other site 435998001310 catalytic residues [active] 435998001311 Predicted membrane protein [Function unknown]; Region: COG3766 435998001312 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 435998001313 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 435998001314 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 435998001315 esterase; Provisional; Region: PRK10566 435998001316 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435998001317 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 435998001318 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 435998001319 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 435998001320 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 435998001321 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 435998001322 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 435998001323 Protein of unknown function, DUF488; Region: DUF488; cl01246 435998001324 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 435998001325 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 435998001326 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 435998001327 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 435998001328 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 435998001329 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 435998001330 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 435998001331 active site 435998001332 metal binding site [ion binding]; metal-binding site 435998001333 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 435998001334 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 435998001335 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 435998001336 active site 435998001337 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; cl17398 435998001338 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 435998001339 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 435998001340 Domain of unknown function DUF21; Region: DUF21; pfam01595 435998001341 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 435998001342 Transporter associated domain; Region: CorC_HlyC; smart01091 435998001343 methionine sulfoxide reductase A; Provisional; Region: PRK00058 435998001344 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 435998001345 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 435998001346 Surface antigen; Region: Bac_surface_Ag; pfam01103 435998001347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 435998001348 Family of unknown function (DUF490); Region: DUF490; pfam04357 435998001349 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 435998001350 putative active site pocket [active] 435998001351 dimerization interface [polypeptide binding]; other site 435998001352 putative catalytic residue [active] 435998001353 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 435998001354 dimer interface [polypeptide binding]; other site 435998001355 substrate binding site [chemical binding]; other site 435998001356 metal binding sites [ion binding]; metal-binding site 435998001357 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 435998001358 dimer interface [polypeptide binding]; other site 435998001359 ligand binding site [chemical binding]; other site 435998001360 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 435998001361 dimerization interface [polypeptide binding]; other site 435998001362 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 435998001363 dimer interface [polypeptide binding]; other site 435998001364 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 435998001365 putative CheW interface [polypeptide binding]; other site 435998001366 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 435998001367 AMP binding site [chemical binding]; other site 435998001368 metal binding site [ion binding]; metal-binding site 435998001369 active site 435998001370 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 435998001371 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 435998001372 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 435998001373 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 435998001374 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 435998001375 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 435998001376 arginine repressor; Provisional; Region: PRK05066 435998001377 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 435998001378 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 435998001379 malate dehydrogenase; Provisional; Region: PRK05086 435998001380 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 435998001381 NAD binding site [chemical binding]; other site 435998001382 dimerization interface [polypeptide binding]; other site 435998001383 Substrate binding site [chemical binding]; other site 435998001384 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 435998001385 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 435998001386 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 435998001387 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 435998001388 substrate binding pocket [chemical binding]; other site 435998001389 chain length determination region; other site 435998001390 substrate-Mg2+ binding site; other site 435998001391 catalytic residues [active] 435998001392 aspartate-rich region 1; other site 435998001393 active site lid residues [active] 435998001394 aspartate-rich region 2; other site 435998001395 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 435998001396 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 435998001397 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 435998001398 EamA-like transporter family; Region: EamA; pfam00892 435998001399 EamA-like transporter family; Region: EamA; pfam00892 435998001400 GTPase CgtA; Reviewed; Region: obgE; PRK12298 435998001401 GTP1/OBG; Region: GTP1_OBG; pfam01018 435998001402 Obg GTPase; Region: Obg; cd01898 435998001403 G1 box; other site 435998001404 GTP/Mg2+ binding site [chemical binding]; other site 435998001405 Switch I region; other site 435998001406 G2 box; other site 435998001407 G3 box; other site 435998001408 Switch II region; other site 435998001409 G4 box; other site 435998001410 G5 box; other site 435998001411 sensor protein BasS/PmrB; Provisional; Region: PRK10755 435998001412 HAMP domain; Region: HAMP; pfam00672 435998001413 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 435998001414 dimer interface [polypeptide binding]; other site 435998001415 phosphorylation site [posttranslational modification] 435998001416 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998001417 ATP binding site [chemical binding]; other site 435998001418 Mg2+ binding site [ion binding]; other site 435998001419 G-X-G motif; other site 435998001420 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 435998001421 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998001422 active site 435998001423 phosphorylation site [posttranslational modification] 435998001424 intermolecular recognition site; other site 435998001425 dimerization interface [polypeptide binding]; other site 435998001426 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 435998001427 DNA binding site [nucleotide binding] 435998001428 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 435998001429 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 435998001430 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 435998001431 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 435998001432 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 435998001433 RNA-binding protein YhbY; Provisional; Region: PRK10343 435998001434 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 435998001435 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 435998001436 S-adenosylmethionine binding site [chemical binding]; other site 435998001437 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 435998001438 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998001439 Walker A motif; other site 435998001440 ATP binding site [chemical binding]; other site 435998001441 Walker B motif; other site 435998001442 arginine finger; other site 435998001443 Peptidase family M41; Region: Peptidase_M41; pfam01434 435998001444 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 435998001445 dihydropteroate synthase; Region: DHPS; TIGR01496 435998001446 substrate binding pocket [chemical binding]; other site 435998001447 dimer interface [polypeptide binding]; other site 435998001448 inhibitor binding site; inhibition site 435998001449 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 435998001450 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 435998001451 active site 435998001452 substrate binding site [chemical binding]; other site 435998001453 metal binding site [ion binding]; metal-binding site 435998001454 Preprotein translocase SecG subunit; Region: SecG; pfam03840 435998001455 ribosome maturation protein RimP; Reviewed; Region: PRK00092 435998001456 hypothetical protein; Provisional; Region: PRK14641 435998001457 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 435998001458 putative oligomer interface [polypeptide binding]; other site 435998001459 putative RNA binding site [nucleotide binding]; other site 435998001460 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 435998001461 NusA N-terminal domain; Region: NusA_N; pfam08529 435998001462 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 435998001463 RNA binding site [nucleotide binding]; other site 435998001464 homodimer interface [polypeptide binding]; other site 435998001465 NusA-like KH domain; Region: KH_5; pfam13184 435998001466 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 435998001467 G-X-X-G motif; other site 435998001468 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 435998001469 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 435998001470 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 435998001471 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 435998001472 translation initiation factor IF-2; Region: IF-2; TIGR00487 435998001473 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 435998001474 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 435998001475 G1 box; other site 435998001476 putative GEF interaction site [polypeptide binding]; other site 435998001477 GTP/Mg2+ binding site [chemical binding]; other site 435998001478 Switch I region; other site 435998001479 G2 box; other site 435998001480 G3 box; other site 435998001481 Switch II region; other site 435998001482 G4 box; other site 435998001483 G5 box; other site 435998001484 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 435998001485 Translation-initiation factor 2; Region: IF-2; pfam11987 435998001486 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 435998001487 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 435998001488 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 435998001489 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 435998001490 RNA binding site [nucleotide binding]; other site 435998001491 active site 435998001492 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 435998001493 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 435998001494 16S/18S rRNA binding site [nucleotide binding]; other site 435998001495 S13e-L30e interaction site [polypeptide binding]; other site 435998001496 25S rRNA binding site [nucleotide binding]; other site 435998001497 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 435998001498 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 435998001499 RNase E interface [polypeptide binding]; other site 435998001500 trimer interface [polypeptide binding]; other site 435998001501 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 435998001502 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 435998001503 RNase E interface [polypeptide binding]; other site 435998001504 trimer interface [polypeptide binding]; other site 435998001505 active site 435998001506 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 435998001507 putative nucleic acid binding region [nucleotide binding]; other site 435998001508 G-X-X-G motif; other site 435998001509 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 435998001510 RNA binding site [nucleotide binding]; other site 435998001511 domain interface; other site 435998001512 lipoprotein NlpI; Provisional; Region: PRK11189 435998001513 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 435998001514 binding surface 435998001515 TPR motif; other site 435998001516 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 435998001517 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 435998001518 ATP binding site [chemical binding]; other site 435998001519 Mg++ binding site [ion binding]; other site 435998001520 motif III; other site 435998001521 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 435998001522 nucleotide binding region [chemical binding]; other site 435998001523 ATP-binding site [chemical binding]; other site 435998001524 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 435998001525 putative RNA binding site [nucleotide binding]; other site 435998001526 putative inner membrane protein; Provisional; Region: PRK11099 435998001527 YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system...; Region: YedF; cd03422 435998001528 CPxP motif; other site 435998001529 hypothetical protein; Provisional; Region: PRK10508 435998001530 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 435998001531 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 435998001532 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435998001533 HlyD family secretion protein; Region: HlyD_3; pfam13437 435998001534 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 435998001535 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 435998001536 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 435998001537 ABC-2 type transporter; Region: ABC2_membrane; cl17235 435998001538 putative protease; Provisional; Region: PRK15447 435998001539 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 435998001540 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 435998001541 Peptidase family U32; Region: Peptidase_U32; pfam01136 435998001542 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 435998001543 Predicted acetyltransferase [General function prediction only]; Region: COG3153 435998001544 Coenzyme A binding pocket [chemical binding]; other site 435998001545 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 435998001546 GIY-YIG motif/motif A; other site 435998001547 putative active site [active] 435998001548 putative metal binding site [ion binding]; other site 435998001549 SnoaL-like domain; Region: SnoaL_2; pfam12680 435998001550 putrescine transporter; Provisional; Region: potE; PRK10655 435998001551 ornithine decarboxylase; Provisional; Region: PRK13578 435998001552 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 435998001553 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 435998001554 homodimer interface [polypeptide binding]; other site 435998001555 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998001556 catalytic residue [active] 435998001557 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 435998001558 hypothetical protein; Provisional; Region: PRK03467 435998001559 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 435998001560 NADH(P)-binding; Region: NAD_binding_10; pfam13460 435998001561 NAD binding site [chemical binding]; other site 435998001562 active site 435998001563 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 435998001564 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 435998001565 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 435998001566 trimer interface [polypeptide binding]; other site 435998001567 active site 435998001568 substrate binding site [chemical binding]; other site 435998001569 CoA binding site [chemical binding]; other site 435998001570 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 435998001571 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 435998001572 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 435998001573 active site 435998001574 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 435998001575 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998001576 Walker A/P-loop; other site 435998001577 ATP binding site [chemical binding]; other site 435998001578 Q-loop/lid; other site 435998001579 ABC transporter signature motif; other site 435998001580 Walker B; other site 435998001581 D-loop; other site 435998001582 H-loop/switch region; other site 435998001583 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 435998001584 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 435998001585 Walker A/P-loop; other site 435998001586 ATP binding site [chemical binding]; other site 435998001587 Q-loop/lid; other site 435998001588 ABC transporter signature motif; other site 435998001589 Walker B; other site 435998001590 D-loop; other site 435998001591 H-loop/switch region; other site 435998001592 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 435998001593 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 435998001594 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 435998001595 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 435998001596 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 435998001597 phosphonate metabolism transcriptional regulator PhnF; Provisional; Region: PRK10079 435998001598 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998001599 DNA-binding site [nucleotide binding]; DNA binding site 435998001600 UTRA domain; Region: UTRA; pfam07702 435998001601 Predicted permease; Region: DUF318; cl17795 435998001602 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 435998001603 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 435998001604 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 435998001605 FeS/SAM binding site; other site 435998001606 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 435998001607 ATP cone domain; Region: ATP-cone; pfam03477 435998001608 Class III ribonucleotide reductase; Region: RNR_III; cd01675 435998001609 effector binding site; other site 435998001610 active site 435998001611 Zn binding site [ion binding]; other site 435998001612 glycine loop; other site 435998001613 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998001614 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998001615 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 435998001616 putative effector binding pocket; other site 435998001617 dimerization interface [polypeptide binding]; other site 435998001618 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 435998001619 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 435998001620 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 435998001621 Ca binding site [ion binding]; other site 435998001622 active site 435998001623 catalytic site [active] 435998001624 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 435998001625 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 435998001626 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 435998001627 active site turn [active] 435998001628 phosphorylation site [posttranslational modification] 435998001629 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 435998001630 trehalose repressor; Provisional; Region: treR; PRK09492 435998001631 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998001632 DNA binding site [nucleotide binding] 435998001633 domain linker motif; other site 435998001634 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 435998001635 dimerization interface [polypeptide binding]; other site 435998001636 ligand binding site [chemical binding]; other site 435998001637 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 435998001638 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 435998001639 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 435998001640 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 435998001641 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 435998001642 motif II; other site 435998001643 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 435998001644 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 435998001645 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 435998001646 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 435998001647 active site 435998001648 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 435998001649 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 435998001650 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 435998001651 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 435998001652 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 435998001653 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 435998001654 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 435998001655 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 435998001656 Uncharacterized conserved protein [Function unknown]; Region: COG2308 435998001657 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 435998001658 homotrimer interaction site [polypeptide binding]; other site 435998001659 putative active site [active] 435998001660 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 435998001661 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 435998001662 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 435998001663 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 435998001664 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 435998001665 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 435998001666 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_7; cd08512 435998001667 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 435998001668 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 435998001669 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 435998001670 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 435998001671 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3076 435998001672 RNase E inhibitor protein; Provisional; Region: PRK11191 435998001673 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 435998001674 active site 435998001675 dinuclear metal binding site [ion binding]; other site 435998001676 dimerization interface [polypeptide binding]; other site 435998001677 choline dehydrogenase; Validated; Region: PRK02106 435998001678 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 435998001679 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 435998001680 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 435998001681 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998001682 Coenzyme A binding pocket [chemical binding]; other site 435998001683 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 435998001684 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 435998001685 HIGH motif; other site 435998001686 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 435998001687 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 435998001688 active site 435998001689 KMSKS motif; other site 435998001690 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 435998001691 tRNA binding surface [nucleotide binding]; other site 435998001692 anticodon binding site; other site 435998001693 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 435998001694 DNA polymerase III subunit chi; Validated; Region: PRK05728 435998001695 multifunctional aminopeptidase A; Provisional; Region: PRK00913 435998001696 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 435998001697 interface (dimer of trimers) [polypeptide binding]; other site 435998001698 Substrate-binding/catalytic site; other site 435998001699 Zn-binding sites [ion binding]; other site 435998001700 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 435998001701 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 435998001702 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 435998001703 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 435998001704 Autoinducer binding domain; Region: Autoind_bind; pfam03472 435998001705 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 435998001706 DNA binding residues [nucleotide binding] 435998001707 dimerization interface [polypeptide binding]; other site 435998001708 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 435998001709 HNH endonuclease; Region: HNH_2; pfam13391 435998001710 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 435998001711 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 435998001712 ATP binding site [chemical binding]; other site 435998001713 putative Mg++ binding site [ion binding]; other site 435998001714 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 435998001715 nucleotide binding region [chemical binding]; other site 435998001716 ATP-binding site [chemical binding]; other site 435998001717 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 435998001718 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 435998001719 HsdM N-terminal domain; Region: HsdM_N; pfam12161 435998001720 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 435998001721 Methyltransferase domain; Region: Methyltransf_26; pfam13659 435998001722 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 435998001723 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 435998001724 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 435998001725 ATP binding site [chemical binding]; other site 435998001726 putative Mg++ binding site [ion binding]; other site 435998001727 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 435998001728 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 435998001729 Mrr N-terminal domain; Region: Mrr_N; pfam14338 435998001730 Restriction endonuclease; Region: Mrr_cat; pfam04471 435998001731 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 435998001732 active site 435998001733 cryptic 6-phospho-beta-glucosidase; Provisional; Region: PRK09852 435998001734 beta-galactosidase; Region: BGL; TIGR03356 435998001735 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 435998001736 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 435998001737 active site turn [active] 435998001738 phosphorylation site [posttranslational modification] 435998001739 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl17885 435998001740 Transcriptional regulators [Transcription]; Region: PurR; COG1609 435998001741 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998001742 DNA binding site [nucleotide binding] 435998001743 domain linker motif; other site 435998001744 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 435998001745 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 435998001746 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 435998001747 NAD binding site [chemical binding]; other site 435998001748 substrate binding site [chemical binding]; other site 435998001749 homodimer interface [polypeptide binding]; other site 435998001750 active site 435998001751 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 435998001752 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 435998001753 substrate binding site; other site 435998001754 tetramer interface; other site 435998001755 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; cl07929 435998001756 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 435998001757 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 435998001758 inhibitor-cofactor binding pocket; inhibition site 435998001759 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998001760 catalytic residue [active] 435998001761 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 435998001762 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 435998001763 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 435998001764 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 435998001765 P-loop, Walker A motif; other site 435998001766 Base recognition motif; other site 435998001767 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 435998001768 Uncharacterized small protein [Function unknown]; Region: COG2879 435998001769 carbon starvation protein A; Provisional; Region: PRK15015 435998001770 Carbon starvation protein CstA; Region: CstA; pfam02554 435998001771 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 435998001772 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 435998001773 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 435998001774 active site 435998001775 dimer interface [polypeptide binding]; other site 435998001776 non-prolyl cis peptide bond; other site 435998001777 insertion regions; other site 435998001778 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 435998001779 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 435998001780 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 435998001781 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998001782 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998001783 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 435998001784 putative dimerization interface [polypeptide binding]; other site 435998001785 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 435998001786 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 435998001787 putative acyltransferase; Provisional; Region: PRK05790 435998001788 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 435998001789 dimer interface [polypeptide binding]; other site 435998001790 active site 435998001791 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 435998001792 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 435998001793 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 435998001794 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 435998001795 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 435998001796 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 435998001797 NAD binding site [chemical binding]; other site 435998001798 homotetramer interface [polypeptide binding]; other site 435998001799 homodimer interface [polypeptide binding]; other site 435998001800 substrate binding site [chemical binding]; other site 435998001801 active site 435998001802 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 435998001803 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 435998001804 trimer interface [polypeptide binding]; other site 435998001805 eyelet of channel; other site 435998001806 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 435998001807 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998001808 Helix-turn-helix domain; Region: HTH_18; pfam12833 435998001809 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998001810 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 435998001811 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998001812 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 435998001813 L,D-transpeptidase; Provisional; Region: PRK10260 435998001814 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 435998001815 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 435998001816 Transcriptional regulators [Transcription]; Region: MarR; COG1846 435998001817 MarR family; Region: MarR_2; cl17246 435998001818 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 435998001819 Flavoprotein; Region: Flavoprotein; pfam02441 435998001820 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 435998001821 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 435998001822 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 435998001823 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 435998001824 active site 435998001825 metal binding site [ion binding]; metal-binding site 435998001826 nudix motif; other site 435998001827 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 435998001828 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 435998001829 Gram-negative bacterial tonB protein; Region: TonB; cl10048 435998001830 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 435998001831 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 435998001832 N-terminal plug; other site 435998001833 ligand-binding site [chemical binding]; other site 435998001834 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 435998001835 Putative catalytic domain, repeat 1, of vertebrate phospholipases, PLD3, PLD4 and PLD5, viral envelope proteins K4 and p37, and similar proteins; Region: PLDc_vPLD3_4_5_like_1; cd09106 435998001836 PLD-like domain; Region: PLDc_2; pfam13091 435998001837 putative active site [active] 435998001838 putative catalytic site [active] 435998001839 Putative catalytic domain, repeat 2, of vertebrate phospholipases, PLD3, PLD4 and PLD5, viral envelope proteins K4 and p37, and similar proteins; Region: PLDc_vPLD3_4_5_like_2; cd09107 435998001840 PLD-like domain; Region: PLDc_2; pfam13091 435998001841 putative active site [active] 435998001842 putative catalytic site [active] 435998001843 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 435998001844 homodimer interface [polypeptide binding]; other site 435998001845 homotetramer interface [polypeptide binding]; other site 435998001846 active site pocket [active] 435998001847 cleavage site 435998001848 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 435998001849 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 435998001850 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 435998001851 tetrameric interface [polypeptide binding]; other site 435998001852 NAD binding site [chemical binding]; other site 435998001853 catalytic residues [active] 435998001854 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 435998001855 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 435998001856 inhibitor-cofactor binding pocket; inhibition site 435998001857 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998001858 catalytic residue [active] 435998001859 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998001860 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998001861 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 435998001862 dimerization interface [polypeptide binding]; other site 435998001863 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 435998001864 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 435998001865 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 435998001866 active site 435998001867 NAD binding site [chemical binding]; other site 435998001868 metal binding site [ion binding]; metal-binding site 435998001869 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 435998001870 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 435998001871 DNA binding residues [nucleotide binding] 435998001872 dimerization interface [polypeptide binding]; other site 435998001873 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 435998001874 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 435998001875 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 435998001876 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 435998001877 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 435998001878 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435998001879 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 435998001880 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 435998001881 active site 435998001882 Zn binding site [ion binding]; other site 435998001883 benzoate transport; Region: 2A0115; TIGR00895 435998001884 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 435998001885 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 435998001886 DNA binding residues [nucleotide binding] 435998001887 dimerization interface [polypeptide binding]; other site 435998001888 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 435998001889 Sulfatase; Region: Sulfatase; pfam00884 435998001890 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 435998001891 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 435998001892 FeS/SAM binding site; other site 435998001893 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 435998001894 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 435998001895 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 435998001896 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 435998001897 classical (c) SDRs; Region: SDR_c; cd05233 435998001898 NAD(P) binding site [chemical binding]; other site 435998001899 active site 435998001900 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 435998001901 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 435998001902 classical (c) SDRs; Region: SDR_c; cd05233 435998001903 NAD(P) binding site [chemical binding]; other site 435998001904 active site 435998001905 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 435998001906 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 435998001907 DNA binding site [nucleotide binding] 435998001908 putative fimbrial protein TcfA; Provisional; Region: PRK15308 435998001909 CS1 type fimbrial major subunit; Region: Fimbrial_CS1; pfam04449 435998001910 fimbrial outer membrane usher protein TcfC; Provisional; Region: PRK15310 435998001911 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 435998001912 CblD like pilus biogenesis initiator; Region: CblD; cl06460 435998001913 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 435998001914 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 435998001915 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 435998001916 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 435998001917 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 435998001918 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 435998001919 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 435998001920 NAD binding site [chemical binding]; other site 435998001921 catalytic residues [active] 435998001922 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 435998001923 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 435998001924 putative active site [active] 435998001925 putative metal binding site [ion binding]; other site 435998001926 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 435998001927 putative substrate binding pocket [chemical binding]; other site 435998001928 trimer interface [polypeptide binding]; other site 435998001929 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 435998001930 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 435998001931 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 435998001932 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 435998001933 putative substrate translocation pore; other site 435998001934 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 435998001935 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 435998001936 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998001937 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 435998001938 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 435998001939 Flavin Reductases; Region: FlaRed; cl00801 435998001940 beta-lactam binding protein AmpH; Provisional; Region: PRK10662 435998001941 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 435998001942 Transcriptional regulators [Transcription]; Region: FadR; COG2186 435998001943 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998001944 DNA-binding site [nucleotide binding]; DNA binding site 435998001945 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 435998001946 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 435998001947 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 435998001948 NAD binding site [chemical binding]; other site 435998001949 homotetramer interface [polypeptide binding]; other site 435998001950 homodimer interface [polypeptide binding]; other site 435998001951 active site 435998001952 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 435998001953 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 435998001954 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 435998001955 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 435998001956 putative active site pocket [active] 435998001957 metal binding site [ion binding]; metal-binding site 435998001958 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 435998001959 Amidohydrolase; Region: Amidohydro_2; pfam04909 435998001960 short chain dehydrogenase; Provisional; Region: PRK08628 435998001961 classical (c) SDRs; Region: SDR_c; cd05233 435998001962 NAD(P) binding site [chemical binding]; other site 435998001963 active site 435998001964 Domain of unknown function (DUF718); Region: DUF718; pfam05336 435998001965 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 435998001966 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 435998001967 putative substrate translocation pore; other site 435998001968 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 435998001969 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998001970 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998001971 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 435998001972 putative effector binding pocket; other site 435998001973 dimerization interface [polypeptide binding]; other site 435998001974 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 435998001975 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 435998001976 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 435998001977 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 435998001978 metal binding site [ion binding]; metal-binding site 435998001979 active site 435998001980 I-site; other site 435998001981 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 435998001982 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998001983 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998001984 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 435998001985 putative effector binding pocket; other site 435998001986 putative dimerization interface [polypeptide binding]; other site 435998001987 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 435998001988 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 435998001989 catalytic tetrad [active] 435998001990 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 435998001991 DNA binding site [nucleotide binding] 435998001992 Int/Topo IB signature motif; other site 435998001993 active site 435998001994 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 435998001995 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 435998001996 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 435998001997 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 435998001998 active site 435998001999 metal binding site [ion binding]; metal-binding site 435998002000 interdomain interaction site; other site 435998002001 D5 N terminal like; Region: D5_N; smart00885 435998002002 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 435998002003 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 435998002004 FimB and FimE and related proteins, DNA breaking-rejoining enzymes, integrase/recombinases, catalytic domain. This CD includes those proteins similar to E.coli FimE and FimB regulatory proteins and Proteus mirabilis MrpI; Region: INT_FimBE_C; cd01197 435998002005 Int/Topo IB signature motif; other site 435998002006 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998002007 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998002008 putative fimbrial outer membrane usher protein StfC; Provisional; Region: PRK15284 435998002009 PapC N-terminal domain; Region: PapC_N; pfam13954 435998002010 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 435998002011 PapC C-terminal domain; Region: PapC_C; pfam13953 435998002012 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 435998002013 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 435998002014 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 435998002015 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998002016 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 435998002017 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 435998002018 Fimbrial protein; Region: Fimbrial; pfam00419 435998002019 Protein of unknown function (DUF1401); Region: DUF1401; pfam07180 435998002020 Acetyl-CoA carboxylase, central region; Region: ACC_central; pfam08326 435998002021 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 435998002022 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 435998002023 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 435998002024 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 435998002025 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 435998002026 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 435998002027 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 435998002028 active site 435998002029 DNA binding site [nucleotide binding] 435998002030 Int/Topo IB signature motif; other site 435998002031 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 435998002032 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 435998002033 active site 435998002034 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 435998002035 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 435998002036 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 435998002037 S-adenosylmethionine binding site [chemical binding]; other site 435998002038 DNA polymerase III subunit psi; Validated; Region: PRK06856 435998002039 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 435998002040 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998002041 Coenzyme A binding pocket [chemical binding]; other site 435998002042 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 435998002043 non-specific DNA binding site [nucleotide binding]; other site 435998002044 salt bridge; other site 435998002045 sequence-specific DNA binding site [nucleotide binding]; other site 435998002046 HipA N-terminal domain; Region: Couple_hipA; pfam13657 435998002047 HipA-like N-terminal domain; Region: HipA_N; pfam07805 435998002048 HipA-like C-terminal domain; Region: HipA_C; pfam07804 435998002049 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 435998002050 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 435998002051 G1 box; other site 435998002052 putative GEF interaction site [polypeptide binding]; other site 435998002053 GTP/Mg2+ binding site [chemical binding]; other site 435998002054 Switch I region; other site 435998002055 G2 box; other site 435998002056 G3 box; other site 435998002057 Switch II region; other site 435998002058 G4 box; other site 435998002059 G5 box; other site 435998002060 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 435998002061 periplasmic protein; Provisional; Region: PRK10568 435998002062 BON domain; Region: BON; pfam04972 435998002063 CsbD-like; Region: CsbD; cl17424 435998002064 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 435998002065 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 435998002066 active site 435998002067 nucleophile elbow; other site 435998002068 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 435998002069 active site 435998002070 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 435998002071 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 435998002072 Nucleoside recognition; Region: Gate; pfam07670 435998002073 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 435998002074 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 435998002075 intersubunit interface [polypeptide binding]; other site 435998002076 active site 435998002077 catalytic residue [active] 435998002078 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 435998002079 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 435998002080 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 435998002081 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 435998002082 phosphopentomutase; Provisional; Region: PRK05362 435998002083 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 435998002084 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 435998002085 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 435998002086 hypothetical protein; Provisional; Region: PRK11246 435998002087 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 435998002088 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 435998002089 motif I; other site 435998002090 motif II; other site 435998002091 DNA repair protein RadA; Region: sms; TIGR00416 435998002092 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 435998002093 Walker A motif/ATP binding site; other site 435998002094 ATP binding site [chemical binding]; other site 435998002095 Walker B motif; other site 435998002096 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 435998002097 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 435998002098 non-specific DNA binding site [nucleotide binding]; other site 435998002099 salt bridge; other site 435998002100 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 435998002101 sequence-specific DNA binding site [nucleotide binding]; other site 435998002102 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 435998002103 active site 435998002104 nucleotide binding site [chemical binding]; other site 435998002105 HIGH motif; other site 435998002106 KMSKS motif; other site 435998002107 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 435998002108 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 435998002109 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 435998002110 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 435998002111 putative NAD(P) binding site [chemical binding]; other site 435998002112 dimer interface [polypeptide binding]; other site 435998002113 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998002114 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998002115 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 435998002116 putative effector binding pocket; other site 435998002117 dimerization interface [polypeptide binding]; other site 435998002118 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 435998002119 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435998002120 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435998002121 ABC transporter; Region: ABC_tran_2; pfam12848 435998002122 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435998002123 putative outer membrane lipoprotein; Provisional; Region: PRK09967 435998002124 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 435998002125 ligand binding site [chemical binding]; other site 435998002126 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 435998002127 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 435998002128 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 435998002129 metal binding site [ion binding]; metal-binding site 435998002130 active site 435998002131 I-site; other site 435998002132 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 435998002133 lytic murein transglycosylase; Provisional; Region: PRK11619 435998002134 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 435998002135 N-acetyl-D-glucosamine binding site [chemical binding]; other site 435998002136 catalytic residue [active] 435998002137 Trp operon repressor; Provisional; Region: PRK01381 435998002138 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 435998002139 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 435998002140 catalytic core [active] 435998002141 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 435998002142 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998002143 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 435998002144 hypothetical protein; Provisional; Region: PRK10756 435998002145 CreA protein; Region: CreA; pfam05981 435998002146 two-component response regulator; Provisional; Region: PRK11173 435998002147 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998002148 active site 435998002149 phosphorylation site [posttranslational modification] 435998002150 intermolecular recognition site; other site 435998002151 dimerization interface [polypeptide binding]; other site 435998002152 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 435998002153 DNA binding site [nucleotide binding] 435998002154 putative RNA methyltransferase; Provisional; Region: PRK10433 435998002155 RNA methyltransferase, TrmH family, group 1; Region: rRNA_methyl_1; TIGR00050 435998002156 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 435998002157 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 435998002158 putative catalytic residues [active] 435998002159 putative nucleotide binding site [chemical binding]; other site 435998002160 putative aspartate binding site [chemical binding]; other site 435998002161 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 435998002162 dimer interface [polypeptide binding]; other site 435998002163 putative threonine allosteric regulatory site; other site 435998002164 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 435998002165 putative threonine allosteric regulatory site; other site 435998002166 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 435998002167 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 435998002168 homoserine kinase; Provisional; Region: PRK01212 435998002169 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 435998002170 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 435998002171 threonine synthase; Validated; Region: PRK09225 435998002172 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 435998002173 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 435998002174 catalytic residue [active] 435998002175 hypothetical protein; Validated; Region: PRK02101 435998002176 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 435998002177 amino acid carrier protein; Region: agcS; TIGR00835 435998002178 transaldolase-like protein; Provisional; Region: PTZ00411 435998002179 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 435998002180 active site 435998002181 dimer interface [polypeptide binding]; other site 435998002182 catalytic residue [active] 435998002183 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 435998002184 MPT binding site; other site 435998002185 trimer interface [polypeptide binding]; other site 435998002186 metabolite-proton symporter; Region: 2A0106; TIGR00883 435998002187 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 435998002188 putative substrate translocation pore; other site 435998002189 hypothetical protein; Provisional; Region: PRK10659 435998002190 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 435998002191 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 435998002192 nucleotide binding site [chemical binding]; other site 435998002193 chaperone protein DnaJ; Provisional; Region: PRK10767 435998002194 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 435998002195 HSP70 interaction site [polypeptide binding]; other site 435998002196 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 435998002197 substrate binding site [polypeptide binding]; other site 435998002198 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 435998002199 Zn binding sites [ion binding]; other site 435998002200 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 435998002201 dimer interface [polypeptide binding]; other site 435998002202 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 435998002203 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 435998002204 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998002205 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 435998002206 putative dimerization interface [polypeptide binding]; other site 435998002207 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 435998002208 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 435998002209 active site 435998002210 Riboflavin kinase; Region: Flavokinase; smart00904 435998002211 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 435998002212 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 435998002213 active site 435998002214 HIGH motif; other site 435998002215 nucleotide binding site [chemical binding]; other site 435998002216 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 435998002217 active site 435998002218 KMSKS motif; other site 435998002219 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 435998002220 tRNA binding surface [nucleotide binding]; other site 435998002221 anticodon binding site; other site 435998002222 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 435998002223 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 435998002224 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 435998002225 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 435998002226 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 435998002227 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 435998002228 transcriptional regulator; Provisional; Region: PRK10632 435998002229 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998002230 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 435998002231 putative effector binding pocket; other site 435998002232 dimerization interface [polypeptide binding]; other site 435998002233 Pyoverdine/dityrosine biosynthesis protein [Secondary metabolites biosynthesis, transport, and catabolism]; Region: DIT1; COG3207 435998002234 Pyoverdine/dityrosine biosynthesis protein; Region: DIT1_PvcA; pfam05141 435998002235 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 435998002236 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 435998002237 substrate binding pocket [chemical binding]; other site 435998002238 active site 435998002239 iron coordination sites [ion binding]; other site 435998002240 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 435998002241 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 435998002242 active site 435998002243 TDP-binding site; other site 435998002244 acceptor substrate-binding pocket; other site 435998002245 dihydrodipicolinate reductase; Provisional; Region: PRK00048 435998002246 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 435998002247 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 435998002248 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 435998002249 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 435998002250 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 435998002251 catalytic site [active] 435998002252 subunit interface [polypeptide binding]; other site 435998002253 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 435998002254 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 435998002255 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 435998002256 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 435998002257 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 435998002258 ATP-grasp domain; Region: ATP-grasp_4; cl17255 435998002259 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 435998002260 IMP binding site; other site 435998002261 dimer interface [polypeptide binding]; other site 435998002262 interdomain contacts; other site 435998002263 partial ornithine binding site; other site 435998002264 glutathione-regulated potassium-efflux system ancillary protein KefF; Provisional; Region: PRK00871 435998002265 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 435998002266 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 435998002267 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 435998002268 TrkA-N domain; Region: TrkA_N; pfam02254 435998002269 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 435998002270 Uncharacterized conserved protein [Function unknown]; Region: COG2966 435998002271 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 435998002272 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 435998002273 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 435998002274 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 435998002275 folate binding site [chemical binding]; other site 435998002276 NADP+ binding site [chemical binding]; other site 435998002277 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 435998002278 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 435998002279 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 435998002280 active site 435998002281 metal binding site [ion binding]; metal-binding site 435998002282 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 435998002283 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 435998002284 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 435998002285 S-adenosylmethionine binding site [chemical binding]; other site 435998002286 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 435998002287 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 435998002288 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 435998002289 SurA N-terminal domain; Region: SurA_N; pfam09312 435998002290 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 435998002291 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 435998002292 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 435998002293 OstA-like protein; Region: OstA; pfam03968 435998002294 Organic solvent tolerance protein; Region: OstA_C; pfam04453 435998002295 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 435998002296 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 435998002297 putative metal binding site [ion binding]; other site 435998002298 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 435998002299 HSP70 interaction site [polypeptide binding]; other site 435998002300 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 435998002301 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 435998002302 active site 435998002303 ATP-dependent helicase HepA; Validated; Region: PRK04914 435998002304 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 435998002305 ATP binding site [chemical binding]; other site 435998002306 putative Mg++ binding site [ion binding]; other site 435998002307 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 435998002308 nucleotide binding region [chemical binding]; other site 435998002309 ATP-binding site [chemical binding]; other site 435998002310 DNA polymerase II; Reviewed; Region: PRK05762 435998002311 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 435998002312 active site 435998002313 catalytic site [active] 435998002314 substrate binding site [chemical binding]; other site 435998002315 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 435998002316 active site 435998002317 metal-binding site 435998002318 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 435998002319 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 435998002320 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 435998002321 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 435998002322 putative valine binding site [chemical binding]; other site 435998002323 dimer interface [polypeptide binding]; other site 435998002324 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 435998002325 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 435998002326 PYR/PP interface [polypeptide binding]; other site 435998002327 dimer interface [polypeptide binding]; other site 435998002328 TPP binding site [chemical binding]; other site 435998002329 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 435998002330 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 435998002331 TPP-binding site [chemical binding]; other site 435998002332 dimer interface [polypeptide binding]; other site 435998002333 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 435998002334 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998002335 Walker A/P-loop; other site 435998002336 ATP binding site [chemical binding]; other site 435998002337 Q-loop/lid; other site 435998002338 ABC transporter signature motif; other site 435998002339 Walker B; other site 435998002340 D-loop; other site 435998002341 H-loop/switch region; other site 435998002342 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 435998002343 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 435998002344 dimer interface [polypeptide binding]; other site 435998002345 conserved gate region; other site 435998002346 putative PBP binding loops; other site 435998002347 ABC-ATPase subunit interface; other site 435998002348 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 435998002349 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 435998002350 transcriptional regulator SgrR; Provisional; Region: PRK13626 435998002351 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 435998002352 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 435998002353 sugar efflux transporter; Region: 2A0120; TIGR00899 435998002354 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 435998002355 putative substrate translocation pore; other site 435998002356 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 435998002357 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 435998002358 transmembrane helices; other site 435998002359 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 435998002360 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 435998002361 substrate binding site [chemical binding]; other site 435998002362 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 435998002363 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 435998002364 substrate binding site [chemical binding]; other site 435998002365 ligand binding site [chemical binding]; other site 435998002366 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 435998002367 tartrate dehydrogenase; Region: TTC; TIGR02089 435998002368 2-isopropylmalate synthase; Validated; Region: PRK00915 435998002369 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 435998002370 active site 435998002371 catalytic residues [active] 435998002372 metal binding site [ion binding]; metal-binding site 435998002373 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 435998002374 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 435998002375 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998002376 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 435998002377 putative substrate binding pocket [chemical binding]; other site 435998002378 putative dimerization interface [polypeptide binding]; other site 435998002379 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 435998002380 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 435998002381 acyl-activating enzyme (AAE) consensus motif; other site 435998002382 putative AMP binding site [chemical binding]; other site 435998002383 putative active site [active] 435998002384 putative CoA binding site [chemical binding]; other site 435998002385 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 435998002386 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 435998002387 PYR/PP interface [polypeptide binding]; other site 435998002388 dimer interface [polypeptide binding]; other site 435998002389 TPP binding site [chemical binding]; other site 435998002390 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 435998002391 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 435998002392 TPP-binding site [chemical binding]; other site 435998002393 dimer interface [polypeptide binding]; other site 435998002394 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 435998002395 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 435998002396 putative valine binding site [chemical binding]; other site 435998002397 dimer interface [polypeptide binding]; other site 435998002398 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 435998002399 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 435998002400 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998002401 DNA binding site [nucleotide binding] 435998002402 domain linker motif; other site 435998002403 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 435998002404 dimerization interface [polypeptide binding]; other site 435998002405 ligand binding site [chemical binding]; other site 435998002406 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 435998002407 cell division protein MraZ; Reviewed; Region: PRK00326 435998002408 MraZ protein; Region: MraZ; pfam02381 435998002409 MraZ protein; Region: MraZ; pfam02381 435998002410 MraW methylase family; Region: Methyltransf_5; pfam01795 435998002411 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 435998002412 cell division protein FtsL; Provisional; Region: PRK10772 435998002413 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 435998002414 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 435998002415 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 435998002416 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 435998002417 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 435998002418 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 435998002419 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 435998002420 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 435998002421 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 435998002422 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 435998002423 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 435998002424 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435998002425 active site 435998002426 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 435998002427 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 435998002428 Mg++ binding site [ion binding]; other site 435998002429 putative catalytic motif [active] 435998002430 putative substrate binding site [chemical binding]; other site 435998002431 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 435998002432 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 435998002433 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 435998002434 cell division protein FtsW; Provisional; Region: PRK10774 435998002435 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 435998002436 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 435998002437 active site 435998002438 homodimer interface [polypeptide binding]; other site 435998002439 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 435998002440 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 435998002441 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 435998002442 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 435998002443 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 435998002444 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 435998002445 ATP-grasp domain; Region: ATP-grasp_4; cl17255 435998002446 cell division protein FtsQ; Provisional; Region: PRK10775 435998002447 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 435998002448 Cell division protein FtsQ; Region: FtsQ; pfam03799 435998002449 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 435998002450 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 435998002451 Cell division protein FtsA; Region: FtsA; pfam14450 435998002452 cell division protein FtsZ; Validated; Region: PRK09330 435998002453 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 435998002454 nucleotide binding site [chemical binding]; other site 435998002455 SulA interaction site; other site 435998002456 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 435998002457 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 435998002458 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4701 435998002459 SecA regulator SecM; Provisional; Region: PRK02943 435998002460 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 435998002461 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 435998002462 SEC-C motif; Region: SEC-C; pfam02810 435998002463 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 435998002464 active site 435998002465 8-oxo-dGMP binding site [chemical binding]; other site 435998002466 nudix motif; other site 435998002467 metal binding site [ion binding]; metal-binding site 435998002468 DNA gyrase inhibitor; Reviewed; Region: PRK00418 435998002469 hypothetical protein; Provisional; Region: PRK05287 435998002470 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 435998002471 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 435998002472 CoA-binding site [chemical binding]; other site 435998002473 ATP-binding [chemical binding]; other site 435998002474 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 435998002475 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 435998002476 active site 435998002477 type IV pilin biogenesis protein; Provisional; Region: PRK10573 435998002478 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 435998002479 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 435998002480 Type II/IV secretion system protein; Region: T2SE; pfam00437 435998002481 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 435998002482 Walker A motif; other site 435998002483 ATP binding site [chemical binding]; other site 435998002484 Walker B motif; other site 435998002485 putative major pilin subunit; Provisional; Region: PRK10574 435998002486 Pilin (bacterial filament); Region: Pilin; pfam00114 435998002487 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 435998002488 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 435998002489 dimerization interface [polypeptide binding]; other site 435998002490 active site 435998002491 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 435998002492 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 435998002493 amidase catalytic site [active] 435998002494 Zn binding residues [ion binding]; other site 435998002495 substrate binding site [chemical binding]; other site 435998002496 regulatory protein AmpE; Provisional; Region: PRK10987 435998002497 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 435998002498 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 435998002499 inhibitor-cofactor binding pocket; inhibition site 435998002500 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998002501 catalytic residue [active] 435998002502 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 435998002503 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 435998002504 Cl- selectivity filter; other site 435998002505 Cl- binding residues [ion binding]; other site 435998002506 pore gating glutamate residue; other site 435998002507 dimer interface [polypeptide binding]; other site 435998002508 H+/Cl- coupling transport residue; other site 435998002509 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 435998002510 hypothetical protein; Provisional; Region: PRK10578 435998002511 UPF0126 domain; Region: UPF0126; pfam03458 435998002512 UPF0126 domain; Region: UPF0126; pfam03458 435998002513 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 435998002514 cobalamin binding residues [chemical binding]; other site 435998002515 putative BtuC binding residues; other site 435998002516 dimer interface [polypeptide binding]; other site 435998002517 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 435998002518 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 435998002519 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 435998002520 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 435998002521 Zn2+ binding site [ion binding]; other site 435998002522 Mg2+ binding site [ion binding]; other site 435998002523 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 435998002524 serine endoprotease; Provisional; Region: PRK10942 435998002525 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 435998002526 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 435998002527 protein binding site [polypeptide binding]; other site 435998002528 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 435998002529 protein binding site [polypeptide binding]; other site 435998002530 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 435998002531 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 435998002532 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 435998002533 dimerization interface [polypeptide binding]; other site 435998002534 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 435998002535 dimer interface [polypeptide binding]; other site 435998002536 phosphorylation site [posttranslational modification] 435998002537 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998002538 ATP binding site [chemical binding]; other site 435998002539 Mg2+ binding site [ion binding]; other site 435998002540 G-X-G motif; other site 435998002541 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 435998002542 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998002543 active site 435998002544 phosphorylation site [posttranslational modification] 435998002545 intermolecular recognition site; other site 435998002546 dimerization interface [polypeptide binding]; other site 435998002547 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 435998002548 putative binding surface; other site 435998002549 active site 435998002550 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 435998002551 TRAM domain; Region: TRAM; pfam01938 435998002552 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 435998002553 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 435998002554 S-adenosylmethionine binding site [chemical binding]; other site 435998002555 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 435998002556 HD domain; Region: HD_4; pfam13328 435998002557 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 435998002558 synthetase active site [active] 435998002559 NTP binding site [chemical binding]; other site 435998002560 metal binding site [ion binding]; metal-binding site 435998002561 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 435998002562 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 435998002563 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 435998002564 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 435998002565 homodimer interface [polypeptide binding]; other site 435998002566 metal binding site [ion binding]; metal-binding site 435998002567 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 435998002568 homodimer interface [polypeptide binding]; other site 435998002569 active site 435998002570 putative chemical substrate binding site [chemical binding]; other site 435998002571 metal binding site [ion binding]; metal-binding site 435998002572 Aspartyl protease; Region: Asp_protease_2; pfam13650 435998002573 inhibitor binding site; inhibition site 435998002574 catalytic motif [active] 435998002575 Catalytic residue [active] 435998002576 Active site flap [active] 435998002577 CTP synthetase; Validated; Region: pyrG; PRK05380 435998002578 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 435998002579 Catalytic site [active] 435998002580 active site 435998002581 UTP binding site [chemical binding]; other site 435998002582 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 435998002583 active site 435998002584 putative oxyanion hole; other site 435998002585 catalytic triad [active] 435998002586 enolase; Provisional; Region: eno; PRK00077 435998002587 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 435998002588 dimer interface [polypeptide binding]; other site 435998002589 metal binding site [ion binding]; metal-binding site 435998002590 substrate binding pocket [chemical binding]; other site 435998002591 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 435998002592 methionine gamma-lyase; Provisional; Region: PRK07503 435998002593 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 435998002594 homodimer interface [polypeptide binding]; other site 435998002595 substrate-cofactor binding pocket; other site 435998002596 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998002597 catalytic residue [active] 435998002598 putative proline-specific permease; Provisional; Region: proY; PRK10580 435998002599 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 435998002600 active sites [active] 435998002601 tetramer interface [polypeptide binding]; other site 435998002602 urocanate hydratase; Provisional; Region: PRK05414 435998002603 benzoate transport; Region: 2A0115; TIGR00895 435998002604 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 435998002605 putative substrate translocation pore; other site 435998002606 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 435998002607 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 435998002608 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 435998002609 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 435998002610 active site 435998002611 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 435998002612 Flavodoxin; Region: Flavodoxin_1; pfam00258 435998002613 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; cd06199 435998002614 FAD binding pocket [chemical binding]; other site 435998002615 FAD binding motif [chemical binding]; other site 435998002616 catalytic residues [active] 435998002617 NAD binding pocket [chemical binding]; other site 435998002618 phosphate binding motif [ion binding]; other site 435998002619 beta-alpha-beta structure motif; other site 435998002620 sulfite reductase subunit beta; Provisional; Region: PRK13504 435998002621 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 435998002622 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 435998002623 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 435998002624 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 435998002625 Active Sites [active] 435998002626 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 435998002627 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 435998002628 metal binding site [ion binding]; metal-binding site 435998002629 siroheme synthase; Provisional; Region: cysG; PRK10637 435998002630 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 435998002631 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 435998002632 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 435998002633 active site 435998002634 SAM binding site [chemical binding]; other site 435998002635 homodimer interface [polypeptide binding]; other site 435998002636 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 435998002637 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 435998002638 Active Sites [active] 435998002639 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 435998002640 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 435998002641 CysD dimerization site [polypeptide binding]; other site 435998002642 G1 box; other site 435998002643 putative GEF interaction site [polypeptide binding]; other site 435998002644 GTP/Mg2+ binding site [chemical binding]; other site 435998002645 Switch I region; other site 435998002646 G2 box; other site 435998002647 G3 box; other site 435998002648 Switch II region; other site 435998002649 G4 box; other site 435998002650 G5 box; other site 435998002651 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 435998002652 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 435998002653 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 435998002654 ligand-binding site [chemical binding]; other site 435998002655 hypothetical protein; Provisional; Region: PRK10726 435998002656 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 435998002657 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 435998002658 Walker A/P-loop; other site 435998002659 ATP binding site [chemical binding]; other site 435998002660 Q-loop/lid; other site 435998002661 ABC transporter signature motif; other site 435998002662 Walker B; other site 435998002663 D-loop; other site 435998002664 H-loop/switch region; other site 435998002665 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 435998002666 dimer interface [polypeptide binding]; other site 435998002667 conserved gate region; other site 435998002668 putative PBP binding loops; other site 435998002669 ABC-ATPase subunit interface; other site 435998002670 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 435998002671 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 435998002672 substrate binding pocket [chemical binding]; other site 435998002673 membrane-bound complex binding site; other site 435998002674 hinge residues; other site 435998002675 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 435998002676 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 435998002677 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 435998002678 substrate binding site; other site 435998002679 dimer interface; other site 435998002680 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 435998002681 homotrimer interaction site [polypeptide binding]; other site 435998002682 zinc binding site [ion binding]; other site 435998002683 CDP-binding sites; other site 435998002684 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 435998002685 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 435998002686 Permutation of conserved domain; other site 435998002687 active site 435998002688 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 435998002689 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 435998002690 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 435998002691 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 435998002692 S-adenosylmethionine binding site [chemical binding]; other site 435998002693 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 435998002694 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 435998002695 Peptidase family M23; Region: Peptidase_M23; pfam01551 435998002696 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 435998002697 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 435998002698 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435998002699 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 435998002700 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 435998002701 DNA binding residues [nucleotide binding] 435998002702 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 435998002703 MutS domain I; Region: MutS_I; pfam01624 435998002704 MutS domain II; Region: MutS_II; pfam05188 435998002705 MutS domain III; Region: MutS_III; pfam05192 435998002706 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 435998002707 Walker A/P-loop; other site 435998002708 ATP binding site [chemical binding]; other site 435998002709 Q-loop/lid; other site 435998002710 ABC transporter signature motif; other site 435998002711 Walker B; other site 435998002712 D-loop; other site 435998002713 H-loop/switch region; other site 435998002714 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 435998002715 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 435998002716 active site 435998002717 catalytic tetrad [active] 435998002718 short chain dehydrogenase; Provisional; Region: PRK06172 435998002719 classical (c) SDRs; Region: SDR_c; cd05233 435998002720 NAD(P) binding site [chemical binding]; other site 435998002721 active site 435998002722 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998002723 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998002724 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 435998002725 putative effector binding pocket; other site 435998002726 putative dimerization interface [polypeptide binding]; other site 435998002727 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 435998002728 active site 435998002729 P-loop; other site 435998002730 phosphorylation site [posttranslational modification] 435998002731 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIC; Provisional; Region: PRK10297 435998002732 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 435998002733 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 435998002734 beta-galactosidase; Region: BGL; TIGR03356 435998002735 DNA-binding transcriptional regulator ChbR; Provisional; Region: PRK10296 435998002736 Cupin domain; Region: Cupin_2; pfam07883 435998002737 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998002738 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 435998002739 putative active site [active] 435998002740 YdjC motif; other site 435998002741 Mg binding site [ion binding]; other site 435998002742 putative homodimer interface [polypeptide binding]; other site 435998002743 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 435998002744 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435998002745 putative substrate translocation pore; other site 435998002746 hypothetical protein; Validated; Region: PRK03661 435998002747 recombinase A; Provisional; Region: recA; PRK09354 435998002748 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 435998002749 hexamer interface [polypeptide binding]; other site 435998002750 Walker A motif; other site 435998002751 ATP binding site [chemical binding]; other site 435998002752 Walker B motif; other site 435998002753 recombination regulator RecX; Reviewed; Region: recX; PRK00117 435998002754 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 435998002755 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 435998002756 motif 1; other site 435998002757 active site 435998002758 motif 2; other site 435998002759 motif 3; other site 435998002760 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 435998002761 DHHA1 domain; Region: DHHA1; pfam02272 435998002762 carbon storage regulator; Provisional; Region: PRK01712 435998002763 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 435998002764 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 435998002765 motif II; other site 435998002766 Predicted membrane protein [Function unknown]; Region: COG1238 435998002767 glutamate--cysteine ligase; Provisional; Region: PRK02107 435998002768 S-ribosylhomocysteinase; Provisional; Region: PRK02260 435998002769 hypothetical protein; Provisional; Region: PRK11573 435998002770 Domain of unknown function DUF21; Region: DUF21; pfam01595 435998002771 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 435998002772 Transporter associated domain; Region: CorC_HlyC; smart01091 435998002773 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 435998002774 signal recognition particle protein; Provisional; Region: PRK10867 435998002775 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 435998002776 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 435998002777 P loop; other site 435998002778 GTP binding site [chemical binding]; other site 435998002779 Signal peptide binding domain; Region: SRP_SPB; pfam02978 435998002780 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 435998002781 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 435998002782 RimM N-terminal domain; Region: RimM; pfam01782 435998002783 PRC-barrel domain; Region: PRC; pfam05239 435998002784 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 435998002785 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 435998002786 DNA-binding transcriptional regulator; Provisional; Region: PRK09678 435998002787 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 435998002788 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 435998002789 catalytic residues [active] 435998002790 Protein of unknown function, DUF481; Region: DUF481; cl01213 435998002791 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 435998002792 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 435998002793 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 435998002794 Chorismate mutase type II; Region: CM_2; cl00693 435998002795 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 435998002796 prephenate dehydrogenase; Validated; Region: PRK08507 435998002797 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 435998002798 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 435998002799 Prephenate dehydratase; Region: PDT; pfam00800 435998002800 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 435998002801 putative L-Phe binding site [chemical binding]; other site 435998002802 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 435998002803 30S subunit binding site; other site 435998002804 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 435998002805 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 435998002806 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 435998002807 RNA binding surface [nucleotide binding]; other site 435998002808 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 435998002809 active site 435998002810 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 435998002811 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 435998002812 protein disaggregation chaperone; Provisional; Region: PRK10865 435998002813 Clp amino terminal domain; Region: Clp_N; pfam02861 435998002814 Clp amino terminal domain; Region: Clp_N; pfam02861 435998002815 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998002816 Walker A motif; other site 435998002817 ATP binding site [chemical binding]; other site 435998002818 Walker B motif; other site 435998002819 arginine finger; other site 435998002820 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998002821 Walker A motif; other site 435998002822 ATP binding site [chemical binding]; other site 435998002823 Walker B motif; other site 435998002824 arginine finger; other site 435998002825 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 435998002826 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 435998002827 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 435998002828 active site 435998002829 catalytic tetrad [active] 435998002830 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998002831 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998002832 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 435998002833 dimerization interface [polypeptide binding]; other site 435998002834 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 435998002835 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 435998002836 putative substrate translocation pore; other site 435998002837 hypothetical protein; Provisional; Region: PRK05421 435998002838 putative catalytic site [active] 435998002839 putative phosphate binding site [ion binding]; other site 435998002840 putative metal binding site [ion binding]; other site 435998002841 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 435998002842 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 435998002843 N-acetyl-D-glucosamine binding site [chemical binding]; other site 435998002844 catalytic residue [active] 435998002845 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 435998002846 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 435998002847 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 435998002848 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 435998002849 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 435998002850 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 435998002851 RNA/DNA hybrid binding site [nucleotide binding]; other site 435998002852 active site 435998002853 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 435998002854 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 435998002855 active site 435998002856 catalytic site [active] 435998002857 substrate binding site [chemical binding]; other site 435998002858 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 435998002859 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 435998002860 N-terminal plug; other site 435998002861 ligand-binding site [chemical binding]; other site 435998002862 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 435998002863 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 435998002864 FAD binding pocket [chemical binding]; other site 435998002865 FAD binding motif [chemical binding]; other site 435998002866 phosphate binding motif [ion binding]; other site 435998002867 NAD binding pocket [chemical binding]; other site 435998002868 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 435998002869 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 435998002870 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 435998002871 putative active site [active] 435998002872 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 435998002873 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 435998002874 catalytic residue [active] 435998002875 allantoate amidohydrolase; Reviewed; Region: PRK09290 435998002876 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 435998002877 active site 435998002878 metal binding site [ion binding]; metal-binding site 435998002879 dimer interface [polypeptide binding]; other site 435998002880 C-N hydrolase family amidase; Provisional; Region: PRK10438 435998002881 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 435998002882 putative active site [active] 435998002883 catalytic triad [active] 435998002884 dimer interface [polypeptide binding]; other site 435998002885 multimer interface [polypeptide binding]; other site 435998002886 methionine aminotransferase; Validated; Region: PRK09082 435998002887 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 435998002888 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998002889 homodimer interface [polypeptide binding]; other site 435998002890 catalytic residue [active] 435998002891 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 435998002892 intersubunit interface [polypeptide binding]; other site 435998002893 active site 435998002894 Zn2+ binding site [ion binding]; other site 435998002895 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 435998002896 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 435998002897 motif I; other site 435998002898 motif II; other site 435998002899 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 435998002900 Cupin domain; Region: Cupin_2; cl17218 435998002901 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 435998002902 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 435998002903 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 435998002904 Hok/gef family; Region: HOK_GEF; pfam01848 435998002905 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 435998002906 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 435998002907 active site 435998002908 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 435998002909 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 435998002910 dimer interface [polypeptide binding]; other site 435998002911 active site 435998002912 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 435998002913 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 435998002914 putative active site [active] 435998002915 putative dimer interface [polypeptide binding]; other site 435998002916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 435998002917 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 435998002918 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 435998002919 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 435998002920 E3 interaction surface; other site 435998002921 lipoyl attachment site [posttranslational modification]; other site 435998002922 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 435998002923 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 435998002924 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 435998002925 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 435998002926 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 435998002927 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 435998002928 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 435998002929 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 435998002930 catalytic loop [active] 435998002931 iron binding site [ion binding]; other site 435998002932 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 435998002933 FAD binding pocket [chemical binding]; other site 435998002934 FAD binding motif [chemical binding]; other site 435998002935 phosphate binding motif [ion binding]; other site 435998002936 beta-alpha-beta structure motif; other site 435998002937 NAD binding pocket [chemical binding]; other site 435998002938 Photosystem II Pbs27; Region: PSII_Pbs27; cl11841 435998002939 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 435998002940 ApbE family; Region: ApbE; pfam02424 435998002941 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 435998002942 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 435998002943 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 435998002944 active site 435998002945 catalytic site [active] 435998002946 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 435998002947 active site 435998002948 DNA polymerase IV; Validated; Region: PRK02406 435998002949 DNA binding site [nucleotide binding] 435998002950 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 435998002951 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 435998002952 metal binding site [ion binding]; metal-binding site 435998002953 dimer interface [polypeptide binding]; other site 435998002954 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 435998002955 active site 435998002956 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 435998002957 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 435998002958 gamma-glutamyl kinase; Provisional; Region: PRK05429 435998002959 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 435998002960 nucleotide binding site [chemical binding]; other site 435998002961 homotetrameric interface [polypeptide binding]; other site 435998002962 putative phosphate binding site [ion binding]; other site 435998002963 putative allosteric binding site; other site 435998002964 PUA domain; Region: PUA; pfam01472 435998002965 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 435998002966 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 435998002967 putative catalytic cysteine [active] 435998002968 integrase; Provisional; Region: PRK09692 435998002969 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 435998002970 active site 435998002971 Int/Topo IB signature motif; other site 435998002972 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 435998002973 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 435998002974 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 435998002975 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 435998002976 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 435998002977 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 435998002978 active site 435998002979 metal binding site [ion binding]; metal-binding site 435998002980 interdomain interaction site; other site 435998002981 D5 N terminal like; Region: D5_N; smart00885 435998002982 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 435998002983 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 435998002984 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 435998002985 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998002986 active site 435998002987 phosphorylation site [posttranslational modification] 435998002988 intermolecular recognition site; other site 435998002989 dimerization interface [polypeptide binding]; other site 435998002990 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 435998002991 DNA binding site [nucleotide binding] 435998002992 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435998002993 HAMP domain; Region: HAMP; pfam00672 435998002994 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 435998002995 dimer interface [polypeptide binding]; other site 435998002996 phosphorylation site [posttranslational modification] 435998002997 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998002998 ATP binding site [chemical binding]; other site 435998002999 Mg2+ binding site [ion binding]; other site 435998003000 G-X-G motif; other site 435998003001 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435998003002 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435998003003 HlyD family secretion protein; Region: HlyD_3; pfam13437 435998003004 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 435998003005 inner membrane protein; Provisional; Region: PRK10995 435998003006 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 435998003007 Protein of unknown function (DUF330); Region: DUF330; pfam03886 435998003008 paraquat-inducible protein B; Provisional; Region: PRK10807 435998003009 mce related protein; Region: MCE; pfam02470 435998003010 mce related protein; Region: MCE; pfam02470 435998003011 mce related protein; Region: MCE; pfam02470 435998003012 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 435998003013 Paraquat-inducible protein A; Region: PqiA; pfam04403 435998003014 Paraquat-inducible protein A; Region: PqiA; pfam04403 435998003015 Protein of unknown function (DUF535); Region: DUF535; pfam04393 435998003016 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 435998003017 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 435998003018 LysR family transcriptional regulator; Provisional; Region: PRK14997 435998003019 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998003020 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 435998003021 dimerization interface [polypeptide binding]; other site 435998003022 Isochorismatase family; Region: Isochorismatase; pfam00857 435998003023 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 435998003024 catalytic triad [active] 435998003025 dimer interface [polypeptide binding]; other site 435998003026 conserved cis-peptide bond; other site 435998003027 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 435998003028 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998003029 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 435998003030 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998003031 Isochorismatase family; Region: Isochorismatase; pfam00857 435998003032 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 435998003033 catalytic triad [active] 435998003034 dimer interface [polypeptide binding]; other site 435998003035 conserved cis-peptide bond; other site 435998003036 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 435998003037 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 435998003038 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 435998003039 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 435998003040 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 435998003041 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 435998003042 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 435998003043 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 435998003044 FeS/SAM binding site; other site 435998003045 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 435998003046 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 435998003047 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 435998003048 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 435998003049 peptide binding site [polypeptide binding]; other site 435998003050 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 435998003051 Predicted transcriptional regulators [Transcription]; Region: COG1733 435998003052 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 435998003053 dimerization interface [polypeptide binding]; other site 435998003054 putative DNA binding site [nucleotide binding]; other site 435998003055 putative Zn2+ binding site [ion binding]; other site 435998003056 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 435998003057 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 435998003058 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 435998003059 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 435998003060 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 435998003061 catalytic residues [active] 435998003062 hinge region; other site 435998003063 alpha helical domain; other site 435998003064 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 435998003065 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998003066 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 435998003067 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 435998003068 NAD(P) binding site [chemical binding]; other site 435998003069 catalytic residues [active] 435998003070 leucine export protein LeuE; Provisional; Region: PRK10958 435998003071 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 435998003072 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 435998003073 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998003074 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 435998003075 DNA binding site [nucleotide binding] 435998003076 active site 435998003077 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 435998003078 tellurite resistance protein TehB; Provisional; Region: PRK12335 435998003079 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 435998003080 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 435998003081 S-adenosylmethionine binding site [chemical binding]; other site 435998003082 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 435998003083 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 435998003084 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 435998003085 dimer interface [polypeptide binding]; other site 435998003086 PYR/PP interface [polypeptide binding]; other site 435998003087 TPP binding site [chemical binding]; other site 435998003088 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 435998003089 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 435998003090 TPP-binding site [chemical binding]; other site 435998003091 dimer interface [polypeptide binding]; other site 435998003092 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 435998003093 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 435998003094 hypothetical protein; Provisional; Region: PRK11667 435998003095 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 435998003096 Domain of unknown function (DUF333); Region: DUF333; pfam03891 435998003097 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 435998003098 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 435998003099 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 435998003100 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 435998003101 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 435998003102 active site 435998003103 metal binding site [ion binding]; metal-binding site 435998003104 LysR family transcriptional regulator; Provisional; Region: PRK14997 435998003105 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998003106 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 435998003107 putative effector binding pocket; other site 435998003108 putative dimerization interface [polypeptide binding]; other site 435998003109 Pirin-related protein [General function prediction only]; Region: COG1741 435998003110 Pirin; Region: Pirin; pfam02678 435998003111 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 435998003112 Isochorismatase family; Region: Isochorismatase; pfam00857 435998003113 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 435998003114 catalytic triad [active] 435998003115 dimer interface [polypeptide binding]; other site 435998003116 conserved cis-peptide bond; other site 435998003117 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 435998003118 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 435998003119 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 435998003120 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 435998003121 Helix-turn-helix domain; Region: HTH_31; pfam13560 435998003122 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 435998003123 sequence-specific DNA binding site [nucleotide binding]; other site 435998003124 salt bridge; other site 435998003125 Methyltransferase domain; Region: Methyltransf_31; pfam13847 435998003126 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 435998003127 S-adenosylmethionine binding site [chemical binding]; other site 435998003128 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 435998003129 amphipathic channel; other site 435998003130 Asn-Pro-Ala signature motifs; other site 435998003131 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 435998003132 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 435998003133 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 435998003134 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 435998003135 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998003136 Coenzyme A binding pocket [chemical binding]; other site 435998003137 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 435998003138 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 435998003139 putative ligand binding residues [chemical binding]; other site 435998003140 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 435998003141 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 435998003142 N-terminal plug; other site 435998003143 ligand-binding site [chemical binding]; other site 435998003144 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 435998003145 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998003146 Coenzyme A binding pocket [chemical binding]; other site 435998003147 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 435998003148 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 435998003149 ADP binding site [chemical binding]; other site 435998003150 magnesium binding site [ion binding]; other site 435998003151 putative shikimate binding site; other site 435998003152 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 435998003153 Helix-turn-helix domain; Region: HTH_18; pfam12833 435998003154 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998003155 SnoaL-like domain; Region: SnoaL_2; pfam12680 435998003156 hypothetical protein; Provisional; Region: PRK10380 435998003157 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 435998003158 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435998003159 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 435998003160 DNA binding residues [nucleotide binding] 435998003161 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 435998003162 FecR protein; Region: FecR; pfam04773 435998003163 Secretin and TonB N terminus short domain; Region: STN; smart00965 435998003164 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 435998003165 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 435998003166 N-terminal plug; other site 435998003167 ligand-binding site [chemical binding]; other site 435998003168 Heme-binding protein A (HasA); Region: HasA; pfam06438 435998003169 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 435998003170 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 435998003171 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 435998003172 Walker A/P-loop; other site 435998003173 ATP binding site [chemical binding]; other site 435998003174 Q-loop/lid; other site 435998003175 ABC transporter signature motif; other site 435998003176 Walker B; other site 435998003177 D-loop; other site 435998003178 H-loop/switch region; other site 435998003179 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 435998003180 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435998003181 HlyD family secretion protein; Region: HlyD_3; pfam13437 435998003182 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 435998003183 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 435998003184 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 435998003185 Transcriptional regulator [Transcription]; Region: IclR; COG1414 435998003186 Bacterial transcriptional regulator; Region: IclR; pfam01614 435998003187 OPT oligopeptide transporter protein; Region: OPT; cl14607 435998003188 Protein of unknown function (DUF1177); Region: DUF1177; pfam06675 435998003189 hypothetical protein; Provisional; Region: PRK10481 435998003190 hypothetical protein; Provisional; Region: PRK10579 435998003191 recombination associated protein; Reviewed; Region: rdgC; PRK00321 435998003192 fructokinase; Reviewed; Region: PRK09557 435998003193 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 435998003194 nucleotide binding site [chemical binding]; other site 435998003195 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 435998003196 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 435998003197 putative active site [active] 435998003198 transcriptional antiterminator BglG; Provisional; Region: PRK09772 435998003199 CAT RNA binding domain; Region: CAT_RBD; smart01061 435998003200 PRD domain; Region: PRD; pfam00874 435998003201 PRD domain; Region: PRD; pfam00874 435998003202 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998003203 AAA domain; Region: AAA_23; pfam13476 435998003204 Walker A/P-loop; other site 435998003205 ATP binding site [chemical binding]; other site 435998003206 Q-loop/lid; other site 435998003207 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998003208 ABC transporter signature motif; other site 435998003209 Walker B; other site 435998003210 D-loop; other site 435998003211 H-loop/switch region; other site 435998003212 exonuclease subunit SbcD; Provisional; Region: PRK10966 435998003213 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 435998003214 active site 435998003215 metal binding site [ion binding]; metal-binding site 435998003216 DNA binding site [nucleotide binding] 435998003217 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 435998003218 transcriptional regulator PhoB; Provisional; Region: PRK10161 435998003219 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998003220 active site 435998003221 phosphorylation site [posttranslational modification] 435998003222 intermolecular recognition site; other site 435998003223 dimerization interface [polypeptide binding]; other site 435998003224 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 435998003225 DNA binding site [nucleotide binding] 435998003226 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 435998003227 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 435998003228 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 435998003229 putative active site [active] 435998003230 heme pocket [chemical binding]; other site 435998003231 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 435998003232 dimer interface [polypeptide binding]; other site 435998003233 phosphorylation site [posttranslational modification] 435998003234 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998003235 ATP binding site [chemical binding]; other site 435998003236 Mg2+ binding site [ion binding]; other site 435998003237 G-X-G motif; other site 435998003238 PBP superfamily domain; Region: PBP_like_2; cl17296 435998003239 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 435998003240 putative proline-specific permease; Provisional; Region: proY; PRK10580 435998003241 Spore germination protein; Region: Spore_permease; cl17796 435998003242 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 435998003243 Mechanosensitive ion channel; Region: MS_channel; pfam00924 435998003244 maltodextrin glucosidase; Provisional; Region: PRK10785 435998003245 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 435998003246 homodimer interface [polypeptide binding]; other site 435998003247 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 435998003248 active site 435998003249 homodimer interface [polypeptide binding]; other site 435998003250 catalytic site [active] 435998003251 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 435998003252 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 435998003253 peroxidase; Provisional; Region: PRK15000 435998003254 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 435998003255 dimer interface [polypeptide binding]; other site 435998003256 decamer (pentamer of dimers) interface [polypeptide binding]; other site 435998003257 catalytic triad [active] 435998003258 peroxidatic and resolving cysteines [active] 435998003259 Protein of unknown function, DUF479; Region: DUF479; cl01203 435998003260 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 435998003261 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 435998003262 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 435998003263 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 435998003264 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 435998003265 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 435998003266 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 435998003267 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 435998003268 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 435998003269 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 435998003270 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 435998003271 Protein export membrane protein; Region: SecD_SecF; pfam02355 435998003272 hypothetical protein; Provisional; Region: PRK11530 435998003273 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 435998003274 ATP cone domain; Region: ATP-cone; pfam03477 435998003275 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 435998003276 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 435998003277 catalytic motif [active] 435998003278 Zn binding site [ion binding]; other site 435998003279 RibD C-terminal domain; Region: RibD_C; cl17279 435998003280 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 435998003281 homopentamer interface [polypeptide binding]; other site 435998003282 active site 435998003283 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 435998003284 putative RNA binding site [nucleotide binding]; other site 435998003285 thiamine monophosphate kinase; Provisional; Region: PRK05731 435998003286 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 435998003287 ATP binding site [chemical binding]; other site 435998003288 dimerization interface [polypeptide binding]; other site 435998003289 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 435998003290 tetramer interfaces [polypeptide binding]; other site 435998003291 binuclear metal-binding site [ion binding]; other site 435998003292 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 435998003293 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 435998003294 active site 435998003295 catalytic tetrad [active] 435998003296 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 435998003297 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 435998003298 TPP-binding site; other site 435998003299 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 435998003300 PYR/PP interface [polypeptide binding]; other site 435998003301 dimer interface [polypeptide binding]; other site 435998003302 TPP binding site [chemical binding]; other site 435998003303 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 435998003304 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 435998003305 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 435998003306 substrate binding pocket [chemical binding]; other site 435998003307 chain length determination region; other site 435998003308 substrate-Mg2+ binding site; other site 435998003309 catalytic residues [active] 435998003310 aspartate-rich region 1; other site 435998003311 active site lid residues [active] 435998003312 aspartate-rich region 2; other site 435998003313 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 435998003314 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 435998003315 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 435998003316 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 435998003317 Ligand Binding Site [chemical binding]; other site 435998003318 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 435998003319 active site residue [active] 435998003320 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 435998003321 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 435998003322 conserved cys residue [active] 435998003323 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 435998003324 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 435998003325 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 435998003326 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 435998003327 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 435998003328 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 435998003329 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435998003330 putative substrate translocation pore; other site 435998003331 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 435998003332 UbiA prenyltransferase family; Region: UbiA; pfam01040 435998003333 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 435998003334 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 435998003335 Subunit I/III interface [polypeptide binding]; other site 435998003336 Subunit III/IV interface [polypeptide binding]; other site 435998003337 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 435998003338 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 435998003339 D-pathway; other site 435998003340 Putative ubiquinol binding site [chemical binding]; other site 435998003341 Low-spin heme (heme b) binding site [chemical binding]; other site 435998003342 Putative water exit pathway; other site 435998003343 Binuclear center (heme o3/CuB) [ion binding]; other site 435998003344 K-pathway; other site 435998003345 Putative proton exit pathway; other site 435998003346 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 435998003347 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 435998003348 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 435998003349 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 435998003350 muropeptide transporter; Reviewed; Region: ampG; PRK11902 435998003351 putative substrate translocation pore; other site 435998003352 hypothetical protein; Provisional; Region: PRK11627 435998003353 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 435998003354 transcriptional regulator BolA; Provisional; Region: PRK11628 435998003355 trigger factor; Provisional; Region: tig; PRK01490 435998003356 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 435998003357 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 435998003358 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 435998003359 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 435998003360 oligomer interface [polypeptide binding]; other site 435998003361 active site residues [active] 435998003362 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 435998003363 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 435998003364 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998003365 Walker A motif; other site 435998003366 ATP binding site [chemical binding]; other site 435998003367 Walker B motif; other site 435998003368 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 435998003369 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 435998003370 Found in ATP-dependent protease La (LON); Region: LON; smart00464 435998003371 Found in ATP-dependent protease La (LON); Region: LON; smart00464 435998003372 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998003373 Walker A motif; other site 435998003374 ATP binding site [chemical binding]; other site 435998003375 Walker B motif; other site 435998003376 arginine finger; other site 435998003377 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 435998003378 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 435998003379 IHF dimer interface [polypeptide binding]; other site 435998003380 IHF - DNA interface [nucleotide binding]; other site 435998003381 periplasmic folding chaperone; Provisional; Region: PRK10788 435998003382 SurA N-terminal domain; Region: SurA_N_3; cl07813 435998003383 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 435998003384 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 435998003385 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 435998003386 active site 435998003387 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 435998003388 Ligand Binding Site [chemical binding]; other site 435998003389 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 435998003390 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 435998003391 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 435998003392 thiamin pyrimidine pyrophosphate hydrolase; Provisional; Region: PRK15126 435998003393 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 435998003394 active site 435998003395 motif I; other site 435998003396 motif II; other site 435998003397 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 435998003398 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 435998003399 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 435998003400 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 435998003401 catalytic residue [active] 435998003402 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 435998003403 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 435998003404 putative DNA binding site [nucleotide binding]; other site 435998003405 putative Zn2+ binding site [ion binding]; other site 435998003406 AsnC family; Region: AsnC_trans_reg; pfam01037 435998003407 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 435998003408 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 435998003409 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998003410 Walker A/P-loop; other site 435998003411 ATP binding site [chemical binding]; other site 435998003412 Q-loop/lid; other site 435998003413 ABC transporter signature motif; other site 435998003414 Walker B; other site 435998003415 D-loop; other site 435998003416 H-loop/switch region; other site 435998003417 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 435998003418 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 435998003419 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 435998003420 Walker A/P-loop; other site 435998003421 ATP binding site [chemical binding]; other site 435998003422 Q-loop/lid; other site 435998003423 ABC transporter signature motif; other site 435998003424 Walker B; other site 435998003425 D-loop; other site 435998003426 H-loop/switch region; other site 435998003427 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 435998003428 Nitrogen regulatory protein P-II; Region: P-II; smart00938 435998003429 ammonium transporter; Provisional; Region: PRK10666 435998003430 acyl-CoA thioesterase II; Provisional; Region: PRK10526 435998003431 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 435998003432 active site 435998003433 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 435998003434 catalytic triad [active] 435998003435 dimer interface [polypeptide binding]; other site 435998003436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 435998003437 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 435998003438 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 435998003439 DNA binding site [nucleotide binding] 435998003440 active site 435998003441 gene expression modulator; Provisional; Region: PRK10945 435998003442 Hha toxicity attenuator; Provisional; Region: PRK10667 435998003443 heme ABC exporter, ATP-binding protein CcmA; Region: ccmA; TIGR01189 435998003444 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 435998003445 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 435998003446 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 435998003447 ABC-ATPase subunit interface; other site 435998003448 dimer interface [polypeptide binding]; other site 435998003449 putative PBP binding regions; other site 435998003450 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 435998003451 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 435998003452 metal binding site [ion binding]; metal-binding site 435998003453 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 435998003454 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 435998003455 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 435998003456 Protein export membrane protein; Region: SecD_SecF; cl14618 435998003457 Protein export membrane protein; Region: SecD_SecF; cl14618 435998003458 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 435998003459 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435998003460 HlyD family secretion protein; Region: HlyD_3; pfam13437 435998003461 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 435998003462 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 435998003463 hypothetical protein; Provisional; Region: PRK11281 435998003464 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 435998003465 Mechanosensitive ion channel; Region: MS_channel; pfam00924 435998003466 hypothetical protein; Provisional; Region: PRK11038 435998003467 Primosomal replication protein priB and priC; Region: priB_priC; pfam07445 435998003468 hypothetical protein; Provisional; Region: PRK10527 435998003469 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 435998003470 active site 435998003471 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 435998003472 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998003473 Walker A motif; other site 435998003474 ATP binding site [chemical binding]; other site 435998003475 Walker B motif; other site 435998003476 arginine finger; other site 435998003477 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 435998003478 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 435998003479 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 435998003480 hypothetical protein; Validated; Region: PRK00153 435998003481 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 435998003482 RecR protein; Region: RecR; pfam02132 435998003483 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 435998003484 putative active site [active] 435998003485 putative metal-binding site [ion binding]; other site 435998003486 tetramer interface [polypeptide binding]; other site 435998003487 heat shock protein 90; Provisional; Region: PRK05218 435998003488 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998003489 ATP binding site [chemical binding]; other site 435998003490 Mg2+ binding site [ion binding]; other site 435998003491 G-X-G motif; other site 435998003492 adenylate kinase; Reviewed; Region: adk; PRK00279 435998003493 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 435998003494 AMP-binding site [chemical binding]; other site 435998003495 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 435998003496 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 435998003497 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 435998003498 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 435998003499 fructuronate transporter; Provisional; Region: PRK10034; cl15264 435998003500 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 435998003501 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 435998003502 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 435998003503 ferrochelatase; Reviewed; Region: hemH; PRK00035 435998003504 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 435998003505 C-terminal domain interface [polypeptide binding]; other site 435998003506 active site 435998003507 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 435998003508 active site 435998003509 N-terminal domain interface [polypeptide binding]; other site 435998003510 inosine/guanosine kinase; Provisional; Region: PRK15074 435998003511 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 435998003512 substrate binding site [chemical binding]; other site 435998003513 ATP binding site [chemical binding]; other site 435998003514 putative cation:proton antiport protein; Provisional; Region: PRK10669 435998003515 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 435998003516 TrkA-N domain; Region: TrkA_N; pfam02254 435998003517 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 435998003518 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435998003519 putative substrate translocation pore; other site 435998003520 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 435998003521 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 435998003522 active site 435998003523 metal binding site [ion binding]; metal-binding site 435998003524 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 435998003525 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 435998003526 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 435998003527 putative deacylase active site [active] 435998003528 TraB family; Region: TraB; cl12050 435998003529 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 435998003530 metal-binding site [ion binding] 435998003531 copper exporting ATPase; Provisional; Region: copA; PRK10671 435998003532 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 435998003533 metal-binding site [ion binding] 435998003534 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 435998003535 metal-binding site [ion binding] 435998003536 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 435998003537 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 435998003538 motif II; other site 435998003539 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 435998003540 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 435998003541 dimer interface [polypeptide binding]; other site 435998003542 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 435998003543 REDY-like protein HapK; Region: HapK; pfam11639 435998003544 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 435998003545 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 435998003546 active site 435998003547 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 435998003548 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 435998003549 acyl-activating enzyme (AAE) consensus motif; other site 435998003550 AMP binding site [chemical binding]; other site 435998003551 Phosphopantetheine attachment site; Region: PP-binding; cl09936 435998003552 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 435998003553 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 435998003554 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 435998003555 catalytic residue [active] 435998003556 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 435998003557 S-adenosylmethionine binding site [chemical binding]; other site 435998003558 Predicted dehydrogenase [General function prediction only]; Region: COG5322 435998003559 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 435998003560 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 435998003561 inhibitor-cofactor binding pocket; inhibition site 435998003562 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998003563 catalytic residue [active] 435998003564 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 435998003565 phosphoenolpyruvate synthase; Validated; Region: PRK06241 435998003566 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 435998003567 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 435998003568 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 435998003569 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 435998003570 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 435998003571 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 435998003572 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 435998003573 active site 435998003574 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 435998003575 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 435998003576 DNA binding residues [nucleotide binding] 435998003577 dimer interface [polypeptide binding]; other site 435998003578 copper binding site [ion binding]; other site 435998003579 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 435998003580 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 435998003581 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 435998003582 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 435998003583 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998003584 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 435998003585 dimerization interface [polypeptide binding]; other site 435998003586 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 435998003587 ureidoglycolate hydrolase; Provisional; Region: PRK03606 435998003588 DNA-binding transcriptional repressor AllR; Provisional; Region: PRK10163 435998003589 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 435998003590 Bacterial transcriptional regulator; Region: IclR; pfam01614 435998003591 glyoxylate carboligase; Provisional; Region: PRK11269 435998003592 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 435998003593 PYR/PP interface [polypeptide binding]; other site 435998003594 dimer interface [polypeptide binding]; other site 435998003595 TPP binding site [chemical binding]; other site 435998003596 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 435998003597 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 435998003598 TPP-binding site [chemical binding]; other site 435998003599 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 435998003600 tartronate semialdehyde reductase; Provisional; Region: PRK15059 435998003601 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 435998003602 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 435998003603 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 435998003604 putative substrate translocation pore; other site 435998003605 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 435998003606 hypothetical protein; Provisional; Region: PRK11171 435998003607 Cupin domain; Region: Cupin_2; cl17218 435998003608 Cupin domain; Region: Cupin_2; cl17218 435998003609 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 435998003610 D-galactonate transporter; Region: 2A0114; TIGR00893 435998003611 putative substrate translocation pore; other site 435998003612 allantoate amidohydrolase; Region: AllC; TIGR03176 435998003613 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 435998003614 active site 435998003615 metal binding site [ion binding]; metal-binding site 435998003616 dimer interface [polypeptide binding]; other site 435998003617 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 435998003618 membrane protein FdrA; Validated; Region: PRK06091 435998003619 CoA binding domain; Region: CoA_binding; pfam02629 435998003620 CoA-ligase; Region: Ligase_CoA; pfam00549 435998003621 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 435998003622 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 435998003623 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 435998003624 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 435998003625 putative substrate binding site [chemical binding]; other site 435998003626 nucleotide binding site [chemical binding]; other site 435998003627 nucleotide binding site [chemical binding]; other site 435998003628 homodimer interface [polypeptide binding]; other site 435998003629 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 435998003630 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 435998003631 S-adenosylmethionine binding site [chemical binding]; other site 435998003632 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 435998003633 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 435998003634 oxidoreductase; Provisional; Region: PRK08017 435998003635 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 435998003636 NADP binding site [chemical binding]; other site 435998003637 active site 435998003638 steroid binding site; other site 435998003639 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 435998003640 active site 435998003641 catalytic triad [active] 435998003642 oxyanion hole [active] 435998003643 switch loop; other site 435998003644 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 435998003645 ABC transporter; Region: ABC_tran; pfam00005 435998003646 Q-loop/lid; other site 435998003647 ABC transporter signature motif; other site 435998003648 Walker B; other site 435998003649 D-loop; other site 435998003650 H-loop/switch region; other site 435998003651 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 435998003652 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435998003653 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 435998003654 ATP-grasp domain; Region: ATP-grasp; pfam02222 435998003655 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 435998003656 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 435998003657 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 435998003658 putative active site [active] 435998003659 putative metal binding site [ion binding]; other site 435998003660 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 435998003661 substrate binding site [chemical binding]; other site 435998003662 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 435998003663 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 435998003664 active site 435998003665 HIGH motif; other site 435998003666 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 435998003667 KMSKS motif; other site 435998003668 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 435998003669 tRNA binding surface [nucleotide binding]; other site 435998003670 anticodon binding site; other site 435998003671 ribosome-associated protein; Provisional; Region: PRK11507 435998003672 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 435998003673 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 435998003674 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 435998003675 homodimer interface [polypeptide binding]; other site 435998003676 NADP binding site [chemical binding]; other site 435998003677 substrate binding site [chemical binding]; other site 435998003678 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 435998003679 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 435998003680 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 435998003681 active site 435998003682 catalytic tetrad [active] 435998003683 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998003684 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998003685 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 435998003686 putative effector binding pocket; other site 435998003687 putative dimerization interface [polypeptide binding]; other site 435998003688 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 435998003689 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 435998003690 MASE1; Region: MASE1; cl17823 435998003691 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 435998003692 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 435998003693 metal binding site [ion binding]; metal-binding site 435998003694 active site 435998003695 I-site; other site 435998003696 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 435998003697 DNA-binding site [nucleotide binding]; DNA binding site 435998003698 RNA-binding motif; other site 435998003699 Electron transfer DM13; Region: DM13; cl02735 435998003700 The single-domain 2,3-dihydroxybiphenyl 1,2-dioxygenases (BphC, EC 1.13.11.39) from Rhodococcus globerulus P6, BphC2-RGP6 and BphC3-RGP6, and similar proteins; Region: BphC2-C3-RGP6_C_like; cd08348 435998003701 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 435998003702 putative active site [active] 435998003703 putative metal binding site [ion binding]; other site 435998003704 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 435998003705 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998003706 Walker A/P-loop; other site 435998003707 ATP binding site [chemical binding]; other site 435998003708 Q-loop/lid; other site 435998003709 ABC transporter signature motif; other site 435998003710 Walker B; other site 435998003711 D-loop; other site 435998003712 H-loop/switch region; other site 435998003713 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 435998003714 dimer interface [polypeptide binding]; other site 435998003715 conserved gate region; other site 435998003716 putative PBP binding loops; other site 435998003717 ABC-ATPase subunit interface; other site 435998003718 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998003719 Coenzyme A binding pocket [chemical binding]; other site 435998003720 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 435998003721 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 435998003722 substrate binding pocket [chemical binding]; other site 435998003723 membrane-bound complex binding site; other site 435998003724 hinge residues; other site 435998003725 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 435998003726 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 435998003727 active site 435998003728 non-prolyl cis peptide bond; other site 435998003729 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 435998003730 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 435998003731 metal binding site [ion binding]; metal-binding site 435998003732 dimer interface [polypeptide binding]; other site 435998003733 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 435998003734 DNA-binding site [nucleotide binding]; DNA binding site 435998003735 RNA-binding motif; other site 435998003736 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 435998003737 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 435998003738 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 435998003739 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 435998003740 chromosome condensation membrane protein; Provisional; Region: PRK14196 435998003741 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 435998003742 MASE2 domain; Region: MASE2; pfam05230 435998003743 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 435998003744 metal binding site [ion binding]; metal-binding site 435998003745 active site 435998003746 I-site; other site 435998003747 twin arginine translocase protein A; Validated; Region: tatE; PRK01614 435998003748 lipoyl synthase; Provisional; Region: PRK05481 435998003749 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 435998003750 FeS/SAM binding site; other site 435998003751 lipoate-protein ligase B; Provisional; Region: PRK14342 435998003752 hypothetical protein; Provisional; Region: PRK04998 435998003753 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 435998003754 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 435998003755 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 435998003756 rare lipoprotein A; Provisional; Region: PRK10672 435998003757 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 435998003758 cell wall shape-determining protein; Provisional; Region: PRK10794 435998003759 penicillin-binding protein 2; Provisional; Region: PRK10795 435998003760 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 435998003761 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 435998003762 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 435998003763 ribosome-associated protein; Provisional; Region: PRK11538 435998003764 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 435998003765 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 435998003766 active site 435998003767 (T/H)XGH motif; other site 435998003768 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 435998003769 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 435998003770 Lipopolysaccharide-assembly; Region: LptE; cl01125 435998003771 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 435998003772 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 435998003773 HIGH motif; other site 435998003774 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 435998003775 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 435998003776 active site 435998003777 KMSKS motif; other site 435998003778 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 435998003779 tRNA binding surface [nucleotide binding]; other site 435998003780 hypothetical protein; Provisional; Region: PRK11032 435998003781 azoreductase; Reviewed; Region: PRK00170 435998003782 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 435998003783 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 435998003784 active site 435998003785 tetramer interface [polypeptide binding]; other site 435998003786 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 435998003787 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 435998003788 Walker A/P-loop; other site 435998003789 ATP binding site [chemical binding]; other site 435998003790 Q-loop/lid; other site 435998003791 ABC transporter signature motif; other site 435998003792 Walker B; other site 435998003793 D-loop; other site 435998003794 H-loop/switch region; other site 435998003795 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 435998003796 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 435998003797 dimer interface [polypeptide binding]; other site 435998003798 conserved gate region; other site 435998003799 putative PBP binding loops; other site 435998003800 ABC-ATPase subunit interface; other site 435998003801 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 435998003802 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 435998003803 dimer interface [polypeptide binding]; other site 435998003804 conserved gate region; other site 435998003805 putative PBP binding loops; other site 435998003806 ABC-ATPase subunit interface; other site 435998003807 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 435998003808 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 435998003809 substrate binding pocket [chemical binding]; other site 435998003810 membrane-bound complex binding site; other site 435998003811 hinge residues; other site 435998003812 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 435998003813 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 435998003814 putative active site [active] 435998003815 catalytic triad [active] 435998003816 putative dimer interface [polypeptide binding]; other site 435998003817 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 435998003818 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 435998003819 Transporter associated domain; Region: CorC_HlyC; smart01091 435998003820 metal-binding heat shock protein; Provisional; Region: PRK00016 435998003821 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 435998003822 PhoH-like protein; Region: PhoH; pfam02562 435998003823 hypothetical protein; Provisional; Region: PRK10220 435998003824 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 435998003825 PhnA protein; Region: PhnA; pfam03831 435998003826 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 435998003827 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 435998003828 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 435998003829 FeS/SAM binding site; other site 435998003830 TRAM domain; Region: TRAM; pfam01938 435998003831 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 435998003832 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 435998003833 asparagine synthetase B; Provisional; Region: asnB; PRK09431 435998003834 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 435998003835 active site 435998003836 dimer interface [polypeptide binding]; other site 435998003837 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 435998003838 Ligand Binding Site [chemical binding]; other site 435998003839 Molecular Tunnel; other site 435998003840 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 435998003841 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 435998003842 putative active site [active] 435998003843 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 435998003844 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 435998003845 Interdomain contacts; other site 435998003846 Cytokine receptor motif; other site 435998003847 chitin-binding domain of Chi A1-like proteins; Region: ChiA1_BD; cd12214 435998003848 UMP phosphatase; Provisional; Region: PRK10444 435998003849 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 435998003850 active site 435998003851 motif I; other site 435998003852 motif II; other site 435998003853 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 435998003854 MarR family; Region: MarR; pfam01047 435998003855 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 435998003856 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 435998003857 nucleotide binding site [chemical binding]; other site 435998003858 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 435998003859 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 435998003860 active site 435998003861 dimer interface [polypeptide binding]; other site 435998003862 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 435998003863 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 435998003864 active site 435998003865 trimer interface [polypeptide binding]; other site 435998003866 allosteric site; other site 435998003867 active site lid [active] 435998003868 hexamer (dimer of trimers) interface [polypeptide binding]; other site 435998003869 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 435998003870 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 435998003871 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 435998003872 active site turn [active] 435998003873 phosphorylation site [posttranslational modification] 435998003874 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 435998003875 HPr interaction site; other site 435998003876 glycerol kinase (GK) interaction site [polypeptide binding]; other site 435998003877 active site 435998003878 phosphorylation site [posttranslational modification] 435998003879 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 435998003880 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 435998003881 active site 435998003882 HIGH motif; other site 435998003883 nucleotide binding site [chemical binding]; other site 435998003884 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 435998003885 KMSKS motif; other site 435998003886 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 435998003887 outer membrane porin, OprD family; Region: OprD; pfam03573 435998003888 YbfN-like lipoprotein; Region: YbfN; pfam13982 435998003889 Putative carbohydrate binding domain; Region: CHB_HEX; pfam03173 435998003890 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 435998003891 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 435998003892 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i) a...; Region: GH20_Sm-chitobiase-like; cd06569 435998003893 active site 435998003894 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 435998003895 ferric uptake regulator; Provisional; Region: fur; PRK09462 435998003896 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 435998003897 metal binding site 2 [ion binding]; metal-binding site 435998003898 putative DNA binding helix; other site 435998003899 metal binding site 1 [ion binding]; metal-binding site 435998003900 dimer interface [polypeptide binding]; other site 435998003901 structural Zn2+ binding site [ion binding]; other site 435998003902 flavodoxin FldA; Validated; Region: PRK09267 435998003903 LexA regulated protein; Provisional; Region: PRK11675 435998003904 acyl-CoA esterase; Provisional; Region: PRK10673 435998003905 PGAP1-like protein; Region: PGAP1; pfam07819 435998003906 replication initiation regulator SeqA; Provisional; Region: PRK11187 435998003907 phosphoglucomutase; Validated; Region: PRK07564 435998003908 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 435998003909 active site 435998003910 substrate binding site [chemical binding]; other site 435998003911 metal binding site [ion binding]; metal-binding site 435998003912 Predicted transcriptional regulators [Transcription]; Region: COG1695 435998003913 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 435998003914 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 435998003915 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 435998003916 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998003917 active site 435998003918 phosphorylation site [posttranslational modification] 435998003919 intermolecular recognition site; other site 435998003920 dimerization interface [polypeptide binding]; other site 435998003921 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 435998003922 DNA binding site [nucleotide binding] 435998003923 sensor protein KdpD; Provisional; Region: PRK10490 435998003924 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 435998003925 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 435998003926 Ligand Binding Site [chemical binding]; other site 435998003927 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 435998003928 GAF domain; Region: GAF_3; pfam13492 435998003929 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 435998003930 dimer interface [polypeptide binding]; other site 435998003931 phosphorylation site [posttranslational modification] 435998003932 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998003933 ATP binding site [chemical binding]; other site 435998003934 Mg2+ binding site [ion binding]; other site 435998003935 G-X-G motif; other site 435998003936 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 435998003937 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 435998003938 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 435998003939 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 435998003940 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 435998003941 Protein of unknown function (DUF523); Region: DUF523; pfam04463 435998003942 Uncharacterized conserved protein [Function unknown]; Region: COG3272 435998003943 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 435998003944 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 435998003945 DNA photolyase; Region: DNA_photolyase; pfam00875 435998003946 cAMP phosphodiesterases class-II; Region: PDEase_II; cl17776 435998003947 Uncharacterized conserved protein [Function unknown]; Region: COG0327 435998003948 metal-binding protein; Provisional; Region: PRK10799 435998003949 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 435998003950 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 435998003951 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 435998003952 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 435998003953 putative active site [active] 435998003954 Protein of unknown function (DUF969); Region: DUF969; pfam06149 435998003955 Predicted membrane protein [Function unknown]; Region: COG3817 435998003956 Protein of unknown function (DUF979); Region: DUF979; pfam06166 435998003957 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 435998003958 putative substrate binding pocket [chemical binding]; other site 435998003959 AC domain interface; other site 435998003960 catalytic triad [active] 435998003961 AB domain interface; other site 435998003962 endonuclease VIII; Provisional; Region: PRK10445 435998003963 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 435998003964 DNA binding site [nucleotide binding] 435998003965 catalytic residue [active] 435998003966 H2TH interface [polypeptide binding]; other site 435998003967 putative catalytic residues [active] 435998003968 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 435998003969 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 435998003970 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 435998003971 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 435998003972 dimer interface [polypeptide binding]; other site 435998003973 active site 435998003974 citrylCoA binding site [chemical binding]; other site 435998003975 NADH binding [chemical binding]; other site 435998003976 cationic pore residues; other site 435998003977 oxalacetate/citrate binding site [chemical binding]; other site 435998003978 coenzyme A binding site [chemical binding]; other site 435998003979 catalytic triad [active] 435998003980 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 435998003981 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 435998003982 SdhC subunit interface [polypeptide binding]; other site 435998003983 proximal heme binding site [chemical binding]; other site 435998003984 cardiolipin binding site; other site 435998003985 Iron-sulfur protein interface; other site 435998003986 proximal quinone binding site [chemical binding]; other site 435998003987 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 435998003988 L-aspartate oxidase; Provisional; Region: PRK06175 435998003989 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 435998003990 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 435998003991 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 435998003992 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 435998003993 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 435998003994 TPP-binding site [chemical binding]; other site 435998003995 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 435998003996 dimer interface [polypeptide binding]; other site 435998003997 PYR/PP interface [polypeptide binding]; other site 435998003998 TPP binding site [chemical binding]; other site 435998003999 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 435998004000 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 435998004001 E3 interaction surface; other site 435998004002 lipoyl attachment site [posttranslational modification]; other site 435998004003 e3 binding domain; Region: E3_binding; pfam02817 435998004004 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 435998004005 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 435998004006 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 435998004007 CoA-ligase; Region: Ligase_CoA; pfam00549 435998004008 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 435998004009 CoA binding domain; Region: CoA_binding; smart00881 435998004010 CoA-ligase; Region: Ligase_CoA; pfam00549 435998004011 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 435998004012 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 435998004013 active site 435998004014 metal binding site [ion binding]; metal-binding site 435998004015 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 435998004016 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 435998004017 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 435998004018 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 435998004019 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 435998004020 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 435998004021 hypothetical protein; Provisional; Region: PRK10588 435998004022 colicin uptake protein TolQ; Provisional; Region: PRK10801 435998004023 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 435998004024 colicin uptake protein TolR; Provisional; Region: PRK11024 435998004025 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 435998004026 TolA C-terminal; Region: TolA; pfam06519 435998004027 translocation protein TolB; Provisional; Region: tolB; PRK03629 435998004028 TolB amino-terminal domain; Region: TolB_N; pfam04052 435998004029 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435998004030 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435998004031 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 435998004032 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 435998004033 Serglycin; Region: Serglycin; pfam04360 435998004034 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 435998004035 ligand binding site [chemical binding]; other site 435998004036 tol-pal system protein YbgF; Provisional; Region: PRK10803 435998004037 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 435998004038 binding surface 435998004039 TPR motif; other site 435998004040 quinolinate synthetase; Provisional; Region: PRK09375 435998004041 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 435998004042 Cation efflux family; Region: Cation_efflux; cl00316 435998004043 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 435998004044 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 435998004045 substrate binding pocket [chemical binding]; other site 435998004046 membrane-bound complex binding site; other site 435998004047 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 435998004048 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 435998004049 substrate binding pocket [chemical binding]; other site 435998004050 membrane-bound complex binding site; other site 435998004051 hinge residues; other site 435998004052 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435998004053 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 435998004054 dimer interface [polypeptide binding]; other site 435998004055 phosphorylation site [posttranslational modification] 435998004056 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998004057 ATP binding site [chemical binding]; other site 435998004058 Mg2+ binding site [ion binding]; other site 435998004059 G-X-G motif; other site 435998004060 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998004061 Response regulator receiver domain; Region: Response_reg; pfam00072 435998004062 active site 435998004063 phosphorylation site [posttranslational modification] 435998004064 intermolecular recognition site; other site 435998004065 dimerization interface [polypeptide binding]; other site 435998004066 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 435998004067 putative binding surface; other site 435998004068 active site 435998004069 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998004070 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 435998004071 active site 435998004072 phosphorylation site [posttranslational modification] 435998004073 intermolecular recognition site; other site 435998004074 dimerization interface [polypeptide binding]; other site 435998004075 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 435998004076 DNA binding residues [nucleotide binding] 435998004077 dimerization interface [polypeptide binding]; other site 435998004078 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 435998004079 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 435998004080 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 435998004081 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 435998004082 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 435998004083 catalytic core [active] 435998004084 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 435998004085 hypothetical protein; Provisional; Region: PRK11505 435998004086 psiF repeat; Region: PsiF_repeat; pfam07769 435998004087 psiF repeat; Region: PsiF_repeat; pfam07769 435998004088 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 435998004089 active site 435998004090 catalytic residues [active] 435998004091 galactokinase; Provisional; Region: PRK05101 435998004092 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 435998004093 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 435998004094 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 435998004095 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 435998004096 dimer interface [polypeptide binding]; other site 435998004097 active site 435998004098 CAAX protease self-immunity; Region: Abi; pfam02517 435998004099 Isochorismatase family; Region: Isochorismatase; pfam00857 435998004100 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 435998004101 catalytic triad [active] 435998004102 conserved cis-peptide bond; other site 435998004103 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 435998004104 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 435998004105 Walker A/P-loop; other site 435998004106 ATP binding site [chemical binding]; other site 435998004107 Q-loop/lid; other site 435998004108 ABC transporter signature motif; other site 435998004109 Walker B; other site 435998004110 D-loop; other site 435998004111 H-loop/switch region; other site 435998004112 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998004113 Walker A/P-loop; other site 435998004114 ATP binding site [chemical binding]; other site 435998004115 Q-loop/lid; other site 435998004116 ABC transporter signature motif; other site 435998004117 Walker B; other site 435998004118 D-loop; other site 435998004119 H-loop/switch region; other site 435998004120 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 435998004121 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 435998004122 molybdenum-pterin binding domain; Region: Mop; TIGR00638 435998004123 TOBE domain; Region: TOBE; cl01440 435998004124 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 435998004125 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 435998004126 N-terminal plug; other site 435998004127 ligand-binding site [chemical binding]; other site 435998004128 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 435998004129 intersubunit interface [polypeptide binding]; other site 435998004130 Methyltransferase domain; Region: Methyltransf_31; pfam13847 435998004131 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 435998004132 S-adenosylmethionine binding site [chemical binding]; other site 435998004133 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 435998004134 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 435998004135 dimer interface [polypeptide binding]; other site 435998004136 putative PBP binding regions; other site 435998004137 ABC-ATPase subunit interface; other site 435998004138 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 435998004139 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 435998004140 Walker A/P-loop; other site 435998004141 ATP binding site [chemical binding]; other site 435998004142 Q-loop/lid; other site 435998004143 ABC transporter signature motif; other site 435998004144 Walker B; other site 435998004145 D-loop; other site 435998004146 H-loop/switch region; other site 435998004147 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 435998004148 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 435998004149 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 435998004150 substrate binding pocket [chemical binding]; other site 435998004151 membrane-bound complex binding site; other site 435998004152 hinge residues; other site 435998004153 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 435998004154 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 435998004155 dimer interface [polypeptide binding]; other site 435998004156 conserved gate region; other site 435998004157 putative PBP binding loops; other site 435998004158 ABC-ATPase subunit interface; other site 435998004159 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 435998004160 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998004161 Walker A/P-loop; other site 435998004162 ATP binding site [chemical binding]; other site 435998004163 Q-loop/lid; other site 435998004164 ABC transporter signature motif; other site 435998004165 Walker B; other site 435998004166 D-loop; other site 435998004167 H-loop/switch region; other site 435998004168 molybdenum-pterin binding domain; Region: Mop; TIGR00638 435998004169 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 435998004170 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 435998004171 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 435998004172 6-phosphogluconolactonase; Provisional; Region: PRK11028 435998004173 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 435998004174 substrate binding site [chemical binding]; other site 435998004175 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 435998004176 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 435998004177 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 435998004178 putative metal binding site [ion binding]; other site 435998004179 putative homodimer interface [polypeptide binding]; other site 435998004180 putative homotetramer interface [polypeptide binding]; other site 435998004181 putative homodimer-homodimer interface [polypeptide binding]; other site 435998004182 putative allosteric switch controlling residues; other site 435998004183 Uncharacterized conserved protein [Function unknown]; Region: COG3339 435998004184 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 435998004185 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 435998004186 inhibitor-cofactor binding pocket; inhibition site 435998004187 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998004188 catalytic residue [active] 435998004189 biotin synthase; Provisional; Region: PRK15108 435998004190 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 435998004191 FeS/SAM binding site; other site 435998004192 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 435998004193 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 435998004194 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 435998004195 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 435998004196 catalytic residue [active] 435998004197 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 435998004198 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 435998004199 S-adenosylmethionine binding site [chemical binding]; other site 435998004200 AAA domain; Region: AAA_26; pfam13500 435998004201 Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and...; Region: DTBS; cd03109 435998004202 ADP binding site [chemical binding]; other site 435998004203 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 435998004204 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 435998004205 Walker A/P-loop; other site 435998004206 ATP binding site [chemical binding]; other site 435998004207 Q-loop/lid; other site 435998004208 ABC transporter signature motif; other site 435998004209 Walker B; other site 435998004210 D-loop; other site 435998004211 H-loop/switch region; other site 435998004212 excinuclease ABC subunit B; Provisional; Region: PRK05298 435998004213 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 435998004214 ATP binding site [chemical binding]; other site 435998004215 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 435998004216 nucleotide binding region [chemical binding]; other site 435998004217 ATP-binding site [chemical binding]; other site 435998004218 Ultra-violet resistance protein B; Region: UvrB; pfam12344 435998004219 UvrB/uvrC motif; Region: UVR; pfam02151 435998004220 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 435998004221 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 435998004222 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 435998004223 phosphate binding site [ion binding]; other site 435998004224 putative substrate binding pocket [chemical binding]; other site 435998004225 dimer interface [polypeptide binding]; other site 435998004226 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 435998004227 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 435998004228 FeS/SAM binding site; other site 435998004229 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 435998004230 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 435998004231 MPT binding site; other site 435998004232 trimer interface [polypeptide binding]; other site 435998004233 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 435998004234 trimer interface [polypeptide binding]; other site 435998004235 dimer interface [polypeptide binding]; other site 435998004236 putative active site [active] 435998004237 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 435998004238 MoaE interaction surface [polypeptide binding]; other site 435998004239 MoeB interaction surface [polypeptide binding]; other site 435998004240 thiocarboxylated glycine; other site 435998004241 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 435998004242 MoaE homodimer interface [polypeptide binding]; other site 435998004243 MoaD interaction [polypeptide binding]; other site 435998004244 active site residues [active] 435998004245 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 435998004246 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 435998004247 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 435998004248 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 435998004249 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 435998004250 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 435998004251 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 435998004252 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 435998004253 Walker A/P-loop; other site 435998004254 ATP binding site [chemical binding]; other site 435998004255 Q-loop/lid; other site 435998004256 ABC transporter signature motif; other site 435998004257 Walker B; other site 435998004258 D-loop; other site 435998004259 H-loop/switch region; other site 435998004260 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 435998004261 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 435998004262 Walker A/P-loop; other site 435998004263 ATP binding site [chemical binding]; other site 435998004264 Q-loop/lid; other site 435998004265 ABC transporter signature motif; other site 435998004266 Walker B; other site 435998004267 D-loop; other site 435998004268 H-loop/switch region; other site 435998004269 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 435998004270 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435998004271 HlyD family secretion protein; Region: HlyD_3; pfam13437 435998004272 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 435998004273 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 435998004274 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 435998004275 helicase 45; Provisional; Region: PTZ00424 435998004276 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 435998004277 ATP binding site [chemical binding]; other site 435998004278 Mg++ binding site [ion binding]; other site 435998004279 motif III; other site 435998004280 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 435998004281 nucleotide binding region [chemical binding]; other site 435998004282 ATP-binding site [chemical binding]; other site 435998004283 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 435998004284 dimerization interface [polypeptide binding]; other site 435998004285 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 435998004286 NAD binding site [chemical binding]; other site 435998004287 ligand binding site [chemical binding]; other site 435998004288 catalytic site [active] 435998004289 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 435998004290 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 435998004291 FMN binding site [chemical binding]; other site 435998004292 active site 435998004293 catalytic residues [active] 435998004294 substrate binding site [chemical binding]; other site 435998004295 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 435998004296 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 435998004297 Walker A/P-loop; other site 435998004298 ATP binding site [chemical binding]; other site 435998004299 Q-loop/lid; other site 435998004300 ABC transporter signature motif; other site 435998004301 Walker B; other site 435998004302 D-loop; other site 435998004303 H-loop/switch region; other site 435998004304 TOBE domain; Region: TOBE_2; pfam08402 435998004305 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 435998004306 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 435998004307 dimer interface [polypeptide binding]; other site 435998004308 conserved gate region; other site 435998004309 putative PBP binding loops; other site 435998004310 ABC-ATPase subunit interface; other site 435998004311 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 435998004312 dimer interface [polypeptide binding]; other site 435998004313 conserved gate region; other site 435998004314 putative PBP binding loops; other site 435998004315 ABC-ATPase subunit interface; other site 435998004316 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 435998004317 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 435998004318 regulatory protein UhpC; Provisional; Region: PRK11663 435998004319 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 435998004320 putative substrate translocation pore; other site 435998004321 Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]; Region: UhpB; COG3851 435998004322 MASE1; Region: MASE1; pfam05231 435998004323 Histidine kinase; Region: HisKA_3; pfam07730 435998004324 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998004325 ATP binding site [chemical binding]; other site 435998004326 Mg2+ binding site [ion binding]; other site 435998004327 G-X-G motif; other site 435998004328 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 435998004329 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998004330 active site 435998004331 phosphorylation site [posttranslational modification] 435998004332 intermolecular recognition site; other site 435998004333 dimerization interface [polypeptide binding]; other site 435998004334 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 435998004335 DNA binding residues [nucleotide binding] 435998004336 dimerization interface [polypeptide binding]; other site 435998004337 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 435998004338 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 435998004339 HD domain; Region: HD_4; pfam13328 435998004340 Predicted permeases [General function prediction only]; Region: COG0679 435998004341 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 435998004342 pyruvate kinase; Provisional; Region: PRK05826 435998004343 domain interfaces; other site 435998004344 active site 435998004345 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 435998004346 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435998004347 NAD(P) binding site [chemical binding]; other site 435998004348 active site 435998004349 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 435998004350 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998004351 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 435998004352 dimerization interface [polypeptide binding]; other site 435998004353 substrate binding pocket [chemical binding]; other site 435998004354 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 435998004355 L-asparagine permease; Provisional; Region: PRK15049 435998004356 Predicted membrane protein [Function unknown]; Region: COG4125 435998004357 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 435998004358 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 435998004359 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998004360 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998004361 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 435998004362 dimerization interface [polypeptide binding]; other site 435998004363 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 435998004364 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 435998004365 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 435998004366 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 435998004367 conserved cys residue [active] 435998004368 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 435998004369 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 435998004370 conserved cys residue [active] 435998004371 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998004372 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998004373 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 435998004374 NAD binding site [chemical binding]; other site 435998004375 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 435998004376 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 435998004377 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998004378 Coenzyme A binding pocket [chemical binding]; other site 435998004379 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 435998004380 dimer interface [polypeptide binding]; other site 435998004381 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 435998004382 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 435998004383 Protein of unknown function (DUF808); Region: DUF808; pfam05661 435998004384 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 435998004385 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998004386 Coenzyme A binding pocket [chemical binding]; other site 435998004387 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 435998004388 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 435998004389 DNA binding residues [nucleotide binding] 435998004390 putative dimer interface [polypeptide binding]; other site 435998004391 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 435998004392 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 435998004393 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3692 435998004394 cytoplasmic membrane lipoprotein-28; Provisional; Region: PRK09861 435998004395 lipoprotein, YaeC family; Region: TIGR00363 435998004396 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 435998004397 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998004398 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 435998004399 Coenzyme A binding pocket [chemical binding]; other site 435998004400 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 435998004401 putative trimer interface [polypeptide binding]; other site 435998004402 putative active site [active] 435998004403 putative substrate binding site [chemical binding]; other site 435998004404 putative CoA binding site [chemical binding]; other site 435998004405 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 435998004406 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 435998004407 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 435998004408 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 435998004409 Walker A/P-loop; other site 435998004410 ATP binding site [chemical binding]; other site 435998004411 Q-loop/lid; other site 435998004412 ABC transporter signature motif; other site 435998004413 Walker B; other site 435998004414 D-loop; other site 435998004415 H-loop/switch region; other site 435998004416 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 435998004417 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 435998004418 putative ligand binding residues [chemical binding]; other site 435998004419 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 435998004420 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 435998004421 ABC-ATPase subunit interface; other site 435998004422 dimer interface [polypeptide binding]; other site 435998004423 putative PBP binding regions; other site 435998004424 D-lactate dehydrogenase; Provisional; Region: PRK11183 435998004425 FAD binding domain; Region: FAD_binding_4; pfam01565 435998004426 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 435998004427 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 435998004428 active site 435998004429 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 435998004430 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 435998004431 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 435998004432 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 435998004433 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 435998004434 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 435998004435 substrate binding pocket [chemical binding]; other site 435998004436 membrane-bound complex binding site; other site 435998004437 hinge residues; other site 435998004438 putative aminotransferase; Provisional; Region: PRK12414 435998004439 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 435998004440 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998004441 homodimer interface [polypeptide binding]; other site 435998004442 catalytic residue [active] 435998004443 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 435998004444 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998004445 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 435998004446 dimerization interface [polypeptide binding]; other site 435998004447 substrate binding pocket [chemical binding]; other site 435998004448 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 435998004449 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 435998004450 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 435998004451 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 435998004452 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 435998004453 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 435998004454 S-adenosylmethionine binding site [chemical binding]; other site 435998004455 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 435998004456 CDP-diacylglycerol pyrophosphatase; Provisional; Region: PRK05471 435998004457 ParA-like protein; Provisional; Region: PHA02518 435998004458 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 435998004459 P-loop; other site 435998004460 Magnesium ion binding site [ion binding]; other site 435998004461 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 435998004462 active site 435998004463 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 435998004464 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998004465 Coenzyme A binding pocket [chemical binding]; other site 435998004466 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998004467 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998004468 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 435998004469 putative effector binding pocket; other site 435998004470 putative dimerization interface [polypeptide binding]; other site 435998004471 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 435998004472 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 435998004473 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 435998004474 putative N- and C-terminal domain interface [polypeptide binding]; other site 435998004475 putative active site [active] 435998004476 putative MgATP binding site [chemical binding]; other site 435998004477 catalytic site [active] 435998004478 metal binding site [ion binding]; metal-binding site 435998004479 putative carbohydrate binding site [chemical binding]; other site 435998004480 autoinducer-2 (AI-2) modifying protein LsrG; Provisional; Region: PRK10486 435998004481 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 435998004482 EamA-like transporter family; Region: EamA; pfam00892 435998004483 EamA-like transporter family; Region: EamA; pfam00892 435998004484 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 435998004485 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 435998004486 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998004487 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 435998004488 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998004489 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 435998004490 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 435998004491 ATP binding site [chemical binding]; other site 435998004492 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 435998004493 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 435998004494 active site 435998004495 Na/Ca binding site [ion binding]; other site 435998004496 catalytic site [active] 435998004497 Domain of unknown function (DUF1966); Region: DUF1966; pfam09260 435998004498 Transcriptional regulators [Transcription]; Region: MarR; COG1846 435998004499 MarR family; Region: MarR_2; cl17246 435998004500 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998004501 Coenzyme A binding pocket [chemical binding]; other site 435998004502 transmembrane helices; other site 435998004503 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 435998004504 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 435998004505 diaminopimelate epimerase; Provisional; Region: PRK13577 435998004506 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 435998004507 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 435998004508 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 435998004509 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 435998004510 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 435998004511 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 435998004512 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 435998004513 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 435998004514 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 435998004515 dimer interface [polypeptide binding]; other site 435998004516 conserved gate region; other site 435998004517 putative PBP binding loops; other site 435998004518 ABC-ATPase subunit interface; other site 435998004519 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 435998004520 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 435998004521 Walker A/P-loop; other site 435998004522 ATP binding site [chemical binding]; other site 435998004523 Q-loop/lid; other site 435998004524 ABC transporter signature motif; other site 435998004525 Walker B; other site 435998004526 D-loop; other site 435998004527 H-loop/switch region; other site 435998004528 NIL domain; Region: NIL; pfam09383 435998004529 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 435998004530 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998004531 Coenzyme A binding pocket [chemical binding]; other site 435998004532 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 435998004533 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 435998004534 Isochorismatase family; Region: Isochorismatase; pfam00857 435998004535 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 435998004536 catalytic triad [active] 435998004537 conserved cis-peptide bond; other site 435998004538 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 435998004539 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 435998004540 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 435998004541 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 435998004542 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 435998004543 active site 435998004544 HIGH motif; other site 435998004545 dimer interface [polypeptide binding]; other site 435998004546 KMSKS motif; other site 435998004547 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 435998004548 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 435998004549 Walker A/P-loop; other site 435998004550 ATP binding site [chemical binding]; other site 435998004551 Q-loop/lid; other site 435998004552 ABC transporter signature motif; other site 435998004553 Walker B; other site 435998004554 D-loop; other site 435998004555 H-loop/switch region; other site 435998004556 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 435998004557 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 435998004558 substrate binding pocket [chemical binding]; other site 435998004559 membrane-bound complex binding site; other site 435998004560 hinge residues; other site 435998004561 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 435998004562 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 435998004563 dimer interface [polypeptide binding]; other site 435998004564 conserved gate region; other site 435998004565 putative PBP binding loops; other site 435998004566 ABC-ATPase subunit interface; other site 435998004567 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 435998004568 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 435998004569 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 435998004570 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 435998004571 Viral enhancin protein; Region: Enhancin; pfam03272 435998004572 Peptidase M60-like family; Region: M60-like; pfam13402 435998004573 allophanate hydrolase; Provisional; Region: PRK08186 435998004574 Amidase; Region: Amidase; cl11426 435998004575 urea carboxylase; Region: urea_carbox; TIGR02712 435998004576 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 435998004577 ATP-grasp domain; Region: ATP-grasp_4; cl17255 435998004578 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 435998004579 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 435998004580 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 435998004581 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 435998004582 carboxyltransferase (CT) interaction site; other site 435998004583 biotinylation site [posttranslational modification]; other site 435998004584 Transcriptional regulators [Transcription]; Region: GntR; COG1802 435998004585 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998004586 DNA-binding site [nucleotide binding]; DNA binding site 435998004587 FCD domain; Region: FCD; pfam07729 435998004588 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 435998004589 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 435998004590 putative ligand binding site [chemical binding]; other site 435998004591 HEAT repeats; Region: HEAT_2; pfam13646 435998004592 HEAT repeats; Region: HEAT_2; pfam13646 435998004593 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 435998004594 TM-ABC transporter signature motif; other site 435998004595 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 435998004596 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 435998004597 TM-ABC transporter signature motif; other site 435998004598 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 435998004599 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 435998004600 Walker A/P-loop; other site 435998004601 ATP binding site [chemical binding]; other site 435998004602 Q-loop/lid; other site 435998004603 ABC transporter signature motif; other site 435998004604 Walker B; other site 435998004605 D-loop; other site 435998004606 H-loop/switch region; other site 435998004607 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 435998004608 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 435998004609 Walker A/P-loop; other site 435998004610 ATP binding site [chemical binding]; other site 435998004611 Q-loop/lid; other site 435998004612 ABC transporter signature motif; other site 435998004613 Walker B; other site 435998004614 D-loop; other site 435998004615 H-loop/switch region; other site 435998004616 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 435998004617 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 435998004618 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998004619 Coenzyme A binding pocket [chemical binding]; other site 435998004620 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 435998004621 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 435998004622 hypothetical protein; Provisional; Region: PRK06185 435998004623 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 435998004624 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 435998004625 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998004626 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 435998004627 dimerization interface [polypeptide binding]; other site 435998004628 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 435998004629 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 435998004630 active site residue [active] 435998004631 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 435998004632 active site residue [active] 435998004633 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_23; cd04682 435998004634 nudix motif; other site 435998004635 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 435998004636 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435998004637 NAD(P) binding site [chemical binding]; other site 435998004638 active site 435998004639 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 435998004640 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 435998004641 short chain dehydrogenase; Provisional; Region: PRK08263 435998004642 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435998004643 NAD(P) binding site [chemical binding]; other site 435998004644 active site 435998004645 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 435998004646 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998004647 DNA-binding site [nucleotide binding]; DNA binding site 435998004648 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 435998004649 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998004650 homodimer interface [polypeptide binding]; other site 435998004651 catalytic residue [active] 435998004652 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 435998004653 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 435998004654 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 435998004655 putative C-terminal domain interface [polypeptide binding]; other site 435998004656 putative GSH binding site (G-site) [chemical binding]; other site 435998004657 putative dimer interface [polypeptide binding]; other site 435998004658 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 435998004659 N-terminal domain interface [polypeptide binding]; other site 435998004660 dimer interface [polypeptide binding]; other site 435998004661 substrate binding pocket (H-site) [chemical binding]; other site 435998004662 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435998004663 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435998004664 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 435998004665 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 435998004666 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 435998004667 active site 435998004668 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 435998004669 Isochorismatase family; Region: Isochorismatase; pfam00857 435998004670 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 435998004671 catalytic triad [active] 435998004672 dimer interface [polypeptide binding]; other site 435998004673 conserved cis-peptide bond; other site 435998004674 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998004675 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998004676 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 435998004677 dimerization interface [polypeptide binding]; other site 435998004678 TolA protein; Region: tolA_full; TIGR02794 435998004679 TolA C-terminal; Region: TolA; pfam06519 435998004680 Fatty acid desaturase protein family subgroup, a delta-12 acyl-lipid desaturase-like, DesA-like, yet uncharacterized subgroup of membrane fatty acid desaturase proteins found in alpha-, beta-, and gamma-proteobacteria. Sequences of this domain family...; Region: DesA_FADS-like; cd03509 435998004681 Fatty acid desaturase; Region: FA_desaturase; pfam00487 435998004682 putative di-iron ligands [ion binding]; other site 435998004683 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 435998004684 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 435998004685 dimer interface [polypeptide binding]; other site 435998004686 conserved gate region; other site 435998004687 ABC-ATPase subunit interface; other site 435998004688 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 435998004689 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 435998004690 Walker A/P-loop; other site 435998004691 ATP binding site [chemical binding]; other site 435998004692 Q-loop/lid; other site 435998004693 ABC transporter signature motif; other site 435998004694 Walker B; other site 435998004695 D-loop; other site 435998004696 H-loop/switch region; other site 435998004697 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 435998004698 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 435998004699 putative PBP binding loops; other site 435998004700 dimer interface [polypeptide binding]; other site 435998004701 ABC-ATPase subunit interface; other site 435998004702 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 435998004703 short chain dehydrogenase; Provisional; Region: PRK07041 435998004704 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435998004705 NAD(P) binding site [chemical binding]; other site 435998004706 active site 435998004707 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998004708 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998004709 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 435998004710 putative effector binding pocket; other site 435998004711 dimerization interface [polypeptide binding]; other site 435998004712 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 435998004713 EamA-like transporter family; Region: EamA; pfam00892 435998004714 EamA-like transporter family; Region: EamA; pfam00892 435998004715 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 435998004716 Predicted transcriptional regulator [Transcription]; Region: COG2345 435998004717 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 435998004718 putative substrate translocation pore; other site 435998004719 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 435998004720 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 435998004721 sequence-specific DNA binding site [nucleotide binding]; other site 435998004722 salt bridge; other site 435998004723 Cupin domain; Region: Cupin_2; pfam07883 435998004724 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998004725 Coenzyme A binding pocket [chemical binding]; other site 435998004726 Predicted secreted acid phosphatase [General function prediction only]; Region: COG2503 435998004727 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998004728 Coenzyme A binding pocket [chemical binding]; other site 435998004729 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 435998004730 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998004731 Coenzyme A binding pocket [chemical binding]; other site 435998004732 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 435998004733 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 435998004734 trimer interface [polypeptide binding]; other site 435998004735 eyelet of channel; other site 435998004736 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 435998004737 C-terminal domain interface [polypeptide binding]; other site 435998004738 GSH binding site (G-site) [chemical binding]; other site 435998004739 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 435998004740 dimer interface [polypeptide binding]; other site 435998004741 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 435998004742 N-terminal domain interface [polypeptide binding]; other site 435998004743 substrate binding pocket (H-site) [chemical binding]; other site 435998004744 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 435998004745 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 435998004746 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 435998004747 DEAD_2; Region: DEAD_2; pfam06733 435998004748 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 435998004749 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 435998004750 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 435998004751 putative DNA binding site [nucleotide binding]; other site 435998004752 putative Zn2+ binding site [ion binding]; other site 435998004753 AsnC family; Region: AsnC_trans_reg; pfam01037 435998004754 EamA-like transporter family; Region: EamA; pfam00892 435998004755 propionate catabolism operon regulatory protein PrpR; Provisional; Region: PRK15424 435998004756 Propionate catabolism activator; Region: PrpR_N; pfam06506 435998004757 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998004758 Walker A motif; other site 435998004759 ATP binding site [chemical binding]; other site 435998004760 Walker B motif; other site 435998004761 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 435998004762 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 435998004763 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 435998004764 tetramer interface [polypeptide binding]; other site 435998004765 active site 435998004766 Mg2+/Mn2+ binding site [ion binding]; other site 435998004767 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 435998004768 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 435998004769 dimer interface [polypeptide binding]; other site 435998004770 active site 435998004771 citrylCoA binding site [chemical binding]; other site 435998004772 oxalacetate/citrate binding site [chemical binding]; other site 435998004773 coenzyme A binding site [chemical binding]; other site 435998004774 catalytic triad [active] 435998004775 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 435998004776 2-methylcitrate dehydratase; Region: prpD; TIGR02330 435998004777 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 435998004778 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 435998004779 salt bridge; other site 435998004780 non-specific DNA binding site [nucleotide binding]; other site 435998004781 sequence-specific DNA binding site [nucleotide binding]; other site 435998004782 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 435998004783 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 435998004784 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 435998004785 glycosyl transferase family protein; Provisional; Region: PRK08136 435998004786 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 435998004787 Peptidase M3-like family, a zincin metallopeptidase, includes M3 and M32 families; Region: M3_like; cd06258 435998004788 active site 435998004789 Zn binding site [ion binding]; other site 435998004790 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 435998004791 active site clefts [active] 435998004792 zinc binding site [ion binding]; other site 435998004793 dimer interface [polypeptide binding]; other site 435998004794 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 435998004795 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 435998004796 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 435998004797 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 435998004798 S-adenosylmethionine binding site [chemical binding]; other site 435998004799 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 435998004800 PAS domain; Region: PAS_9; pfam13426 435998004801 putative active site [active] 435998004802 heme pocket [chemical binding]; other site 435998004803 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 435998004804 PAS domain; Region: PAS_9; pfam13426 435998004805 putative active site [active] 435998004806 heme pocket [chemical binding]; other site 435998004807 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 435998004808 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 435998004809 dimer interface [polypeptide binding]; other site 435998004810 putative CheW interface [polypeptide binding]; other site 435998004811 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 435998004812 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 435998004813 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998004814 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 435998004815 Coenzyme A binding pocket [chemical binding]; other site 435998004816 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 435998004817 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 435998004818 putative mechanosensitive channel protein; Provisional; Region: PRK11465 435998004819 Mechanosensitive ion channel; Region: MS_channel; pfam00924 435998004820 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 435998004821 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 435998004822 Walker A/P-loop; other site 435998004823 ATP binding site [chemical binding]; other site 435998004824 Q-loop/lid; other site 435998004825 ABC transporter signature motif; other site 435998004826 Walker B; other site 435998004827 D-loop; other site 435998004828 H-loop/switch region; other site 435998004829 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 435998004830 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 435998004831 dimer interface [polypeptide binding]; other site 435998004832 conserved gate region; other site 435998004833 putative PBP binding loops; other site 435998004834 ABC-ATPase subunit interface; other site 435998004835 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 435998004836 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 435998004837 substrate binding pocket [chemical binding]; other site 435998004838 membrane-bound complex binding site; other site 435998004839 hinge residues; other site 435998004840 hypothetical protein; Provisional; Region: PRK11019 435998004841 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 435998004842 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 435998004843 dimerization interface [polypeptide binding]; other site 435998004844 DPS ferroxidase diiron center [ion binding]; other site 435998004845 ion pore; other site 435998004846 AAA domain; Region: AAA_17; pfam13207 435998004847 Domain of unknown function (DUF386); Region: DUF386; cl01047 435998004848 threonine and homoserine efflux system; Provisional; Region: PRK10532 435998004849 EamA-like transporter family; Region: EamA; pfam00892 435998004850 outer membrane protein X; Provisional; Region: ompX; PRK09408 435998004851 Predicted amidohydrolase [General function prediction only]; Region: COG0388 435998004852 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_7; cd07585 435998004853 putative active site [active] 435998004854 catalytic triad [active] 435998004855 putative dimer interface [polypeptide binding]; other site 435998004856 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998004857 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998004858 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 435998004859 dimerization interface [polypeptide binding]; other site 435998004860 substrate binding pocket [chemical binding]; other site 435998004861 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 435998004862 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 435998004863 GntP family permease; Region: GntP_permease; pfam02447 435998004864 putative transporter; Provisional; Region: PRK09821 435998004865 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 435998004866 putative aldolase; Validated; Region: PRK08130 435998004867 intersubunit interface [polypeptide binding]; other site 435998004868 active site 435998004869 Zn2+ binding site [ion binding]; other site 435998004870 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 435998004871 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 435998004872 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 435998004873 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 435998004874 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 435998004875 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 435998004876 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 435998004877 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 435998004878 Moco binding site; other site 435998004879 metal coordination site [ion binding]; other site 435998004880 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 435998004881 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 435998004882 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998004883 active site 435998004884 phosphorylation site [posttranslational modification] 435998004885 intermolecular recognition site; other site 435998004886 dimerization interface [polypeptide binding]; other site 435998004887 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 435998004888 DNA binding site [nucleotide binding] 435998004889 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 435998004890 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 435998004891 dimerization interface [polypeptide binding]; other site 435998004892 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 435998004893 dimer interface [polypeptide binding]; other site 435998004894 phosphorylation site [posttranslational modification] 435998004895 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998004896 ATP binding site [chemical binding]; other site 435998004897 Mg2+ binding site [ion binding]; other site 435998004898 G-X-G motif; other site 435998004899 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 435998004900 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 435998004901 dimerization interface [polypeptide binding]; other site 435998004902 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 435998004903 dimer interface [polypeptide binding]; other site 435998004904 phosphorylation site [posttranslational modification] 435998004905 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998004906 ATP binding site [chemical binding]; other site 435998004907 Mg2+ binding site [ion binding]; other site 435998004908 G-X-G motif; other site 435998004909 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 435998004910 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998004911 active site 435998004912 phosphorylation site [posttranslational modification] 435998004913 intermolecular recognition site; other site 435998004914 dimerization interface [polypeptide binding]; other site 435998004915 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 435998004916 DNA binding site [nucleotide binding] 435998004917 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 435998004918 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 435998004919 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 435998004920 Moco binding site; other site 435998004921 metal coordination site [ion binding]; other site 435998004922 Protein of unknown function, DUF417; Region: DUF417; cl01162 435998004923 choline transport protein BetT; Provisional; Region: PRK09928 435998004924 transcriptional regulator BetI; Validated; Region: PRK00767 435998004925 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 435998004926 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 435998004927 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 435998004928 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 435998004929 tetrameric interface [polypeptide binding]; other site 435998004930 NAD binding site [chemical binding]; other site 435998004931 catalytic residues [active] 435998004932 choline dehydrogenase; Validated; Region: PRK02106 435998004933 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 435998004934 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 435998004935 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 435998004936 active site 435998004937 FMN binding site [chemical binding]; other site 435998004938 substrate binding site [chemical binding]; other site 435998004939 3Fe-4S cluster binding site [ion binding]; other site 435998004940 DNA-binding transcriptional activator BglJ; Provisional; Region: PRK11475 435998004941 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; cl17315 435998004942 DNA binding residues [nucleotide binding] 435998004943 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 435998004944 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998004945 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 435998004946 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 435998004947 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 435998004948 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 435998004949 PapC N-terminal domain; Region: PapC_N; pfam13954 435998004950 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 435998004951 PapC C-terminal domain; Region: PapC_C; pfam13953 435998004952 Fimbrial protein; Region: Fimbrial; pfam00419 435998004953 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 435998004954 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998004955 malate:quinone oxidoreductase; Validated; Region: PRK05257 435998004956 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 435998004957 alkaline phosphatase; Provisional; Region: PRK10518 435998004958 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 435998004959 dimer interface [polypeptide binding]; other site 435998004960 active site 435998004961 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 435998004962 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 435998004963 C-terminal domain interface [polypeptide binding]; other site 435998004964 GSH binding site (G-site) [chemical binding]; other site 435998004965 dimer interface [polypeptide binding]; other site 435998004966 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 435998004967 dimer interface [polypeptide binding]; other site 435998004968 N-terminal domain interface [polypeptide binding]; other site 435998004969 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 435998004970 putative DNA binding site [nucleotide binding]; other site 435998004971 dimerization interface [polypeptide binding]; other site 435998004972 putative Zn2+ binding site [ion binding]; other site 435998004973 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 435998004974 Isochorismatase family; Region: Isochorismatase; pfam00857 435998004975 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 435998004976 catalytic triad [active] 435998004977 dimer interface [polypeptide binding]; other site 435998004978 conserved cis-peptide bond; other site 435998004979 transcriptional regulator; Provisional; Region: PRK10632 435998004980 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998004981 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 435998004982 putative effector binding pocket; other site 435998004983 dimerization interface [polypeptide binding]; other site 435998004984 AAA domain; Region: AAA_33; pfam13671 435998004985 AAA domain; Region: AAA_17; pfam13207 435998004986 Predicted acetyltransferase [General function prediction only]; Region: COG3153 435998004987 Uncharacterized protein conserved in bacteria (DUF2084); Region: DUF2084; pfam09857 435998004988 cyanate hydratase; Validated; Region: PRK02866 435998004989 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 435998004990 oligomer interface [polypeptide binding]; other site 435998004991 active site 435998004992 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 435998004993 active site clefts [active] 435998004994 zinc binding site [ion binding]; other site 435998004995 dimer interface [polypeptide binding]; other site 435998004996 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 435998004997 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998004998 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 435998004999 dimerization interface [polypeptide binding]; other site 435998005000 Predicted transcriptional regulators [Transcription]; Region: COG1733 435998005001 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 435998005002 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 435998005003 active site 1 [active] 435998005004 dimer interface [polypeptide binding]; other site 435998005005 hexamer interface [polypeptide binding]; other site 435998005006 active site 2 [active] 435998005007 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 435998005008 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998005009 Walker A/P-loop; other site 435998005010 ATP binding site [chemical binding]; other site 435998005011 Q-loop/lid; other site 435998005012 ABC transporter signature motif; other site 435998005013 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435998005014 Walker B; other site 435998005015 D-loop; other site 435998005016 H-loop/switch region; other site 435998005017 ABC transporter; Region: ABC_tran_2; pfam12848 435998005018 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435998005019 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 435998005020 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 435998005021 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 435998005022 H+ Antiporter protein; Region: 2A0121; TIGR00900 435998005023 putative substrate translocation pore; other site 435998005024 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 435998005025 FAD dependent oxidoreductase; Region: DAO; pfam01266 435998005026 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 435998005027 tRNA synthetases class I (M); Region: tRNA-synt_1g; pfam09334 435998005028 active site 435998005029 nucleotide binding site [chemical binding]; other site 435998005030 HIGH motif; other site 435998005031 KMSKS motif; other site 435998005032 Cupin domain; Region: Cupin_2; pfam07883 435998005033 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 435998005034 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 435998005035 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 435998005036 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 435998005037 ATP binding site [chemical binding]; other site 435998005038 substrate interface [chemical binding]; other site 435998005039 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 435998005040 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 435998005041 dimer interface [polypeptide binding]; other site 435998005042 putative functional site; other site 435998005043 putative MPT binding site; other site 435998005044 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 435998005045 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 435998005046 catalytic nucleophile [active] 435998005047 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 435998005048 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 435998005049 Walker A/P-loop; other site 435998005050 ATP binding site [chemical binding]; other site 435998005051 Q-loop/lid; other site 435998005052 ABC transporter signature motif; other site 435998005053 Walker B; other site 435998005054 D-loop; other site 435998005055 H-loop/switch region; other site 435998005056 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 435998005057 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 435998005058 Walker A/P-loop; other site 435998005059 ATP binding site [chemical binding]; other site 435998005060 Q-loop/lid; other site 435998005061 ABC transporter signature motif; other site 435998005062 Walker B; other site 435998005063 D-loop; other site 435998005064 H-loop/switch region; other site 435998005065 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 435998005066 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 435998005067 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 435998005068 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 435998005069 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 435998005070 dimer interface [polypeptide binding]; other site 435998005071 conserved gate region; other site 435998005072 putative PBP binding loops; other site 435998005073 ABC-ATPase subunit interface; other site 435998005074 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 435998005075 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 435998005076 dimer interface [polypeptide binding]; other site 435998005077 conserved gate region; other site 435998005078 putative PBP binding loops; other site 435998005079 ABC-ATPase subunit interface; other site 435998005080 Post-segregation antitoxin CcdA; Region: CcdA; pfam07362 435998005081 CcdB protein; Region: CcdB; pfam01845 435998005082 S-formylglutathione hydrolase; Region: PLN02442 435998005083 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 435998005084 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 435998005085 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 435998005086 substrate binding site [chemical binding]; other site 435998005087 catalytic Zn binding site [ion binding]; other site 435998005088 NAD binding site [chemical binding]; other site 435998005089 structural Zn binding site [ion binding]; other site 435998005090 dimer interface [polypeptide binding]; other site 435998005091 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998005092 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998005093 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 435998005094 putative dimerization interface [polypeptide binding]; other site 435998005095 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 435998005096 putative substrate translocation pore; other site 435998005097 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 435998005098 active site 435998005099 Predicted membrane protein [Function unknown]; Region: COG2311 435998005100 hypothetical protein; Provisional; Region: PRK10835 435998005101 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 435998005102 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998005103 DNA binding site [nucleotide binding] 435998005104 domain linker motif; other site 435998005105 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 435998005106 dimerization interface (closed form) [polypeptide binding]; other site 435998005107 ligand binding site [chemical binding]; other site 435998005108 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 435998005109 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 435998005110 ligand binding site [chemical binding]; other site 435998005111 calcium binding site [ion binding]; other site 435998005112 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 435998005113 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 435998005114 Walker A/P-loop; other site 435998005115 ATP binding site [chemical binding]; other site 435998005116 Q-loop/lid; other site 435998005117 ABC transporter signature motif; other site 435998005118 Walker B; other site 435998005119 D-loop; other site 435998005120 H-loop/switch region; other site 435998005121 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 435998005122 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 435998005123 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 435998005124 TM-ABC transporter signature motif; other site 435998005125 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 435998005126 putative active site [active] 435998005127 malate dehydrogenase; Provisional; Region: PRK13529 435998005128 Malic enzyme, N-terminal domain; Region: malic; pfam00390 435998005129 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 435998005130 NAD(P) binding site [chemical binding]; other site 435998005131 cytidine deaminase; Provisional; Region: PRK09027 435998005132 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 435998005133 active site 435998005134 catalytic motif [active] 435998005135 Zn binding site [ion binding]; other site 435998005136 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 435998005137 active site 435998005138 catalytic motif [active] 435998005139 Zn binding site [ion binding]; other site 435998005140 hypothetical protein; Provisional; Region: PRK10711 435998005141 hypothetical protein; Provisional; Region: PRK01821 435998005142 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 435998005143 putative transporter; Provisional; Region: PRK10054 435998005144 putative substrate translocation pore; other site 435998005145 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 435998005146 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 435998005147 putative ligand binding site [chemical binding]; other site 435998005148 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 435998005149 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 435998005150 active site 435998005151 HIGH motif; other site 435998005152 KMSKS motif; other site 435998005153 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 435998005154 tRNA binding surface [nucleotide binding]; other site 435998005155 anticodon binding site; other site 435998005156 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 435998005157 dimer interface [polypeptide binding]; other site 435998005158 putative tRNA-binding site [nucleotide binding]; other site 435998005159 antiporter inner membrane protein; Provisional; Region: PRK11670 435998005160 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 435998005161 Walker A motif; other site 435998005162 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 435998005163 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 435998005164 active site 435998005165 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 435998005166 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 435998005167 ATP-binding site [chemical binding]; other site 435998005168 Sugar specificity; other site 435998005169 Pyrimidine base specificity; other site 435998005170 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 435998005171 trimer interface [polypeptide binding]; other site 435998005172 active site 435998005173 putative assembly protein; Provisional; Region: PRK10833 435998005174 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 435998005175 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 435998005176 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 435998005177 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 435998005178 FOG: CBS domain [General function prediction only]; Region: COG0517 435998005179 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 435998005180 Transporter associated domain; Region: CorC_HlyC; smart01091 435998005181 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 435998005182 active site 435998005183 tetramer interface; other site 435998005184 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 435998005185 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 435998005186 active site 435998005187 tetramer interface; other site 435998005188 polysaccharide export protein Wza; Provisional; Region: PRK15078 435998005189 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 435998005190 SLBB domain; Region: SLBB; pfam10531 435998005191 SLBB domain; Region: SLBB; pfam10531 435998005192 tyrosine kinase; Provisional; Region: PRK11519 435998005193 Chain length determinant protein; Region: Wzz; pfam02706 435998005194 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 435998005195 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 435998005196 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 435998005197 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435998005198 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435998005199 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 435998005200 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435998005201 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 435998005202 undecaprenyl-phosphate galactose phosphotransferase; Provisional; Region: PRK15204 435998005203 Bacterial sugar transferase; Region: Bac_transf; pfam02397 435998005204 Right handed beta helix region; Region: Beta_helix; pfam13229 435998005205 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 435998005206 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 435998005207 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 435998005208 Walker A/P-loop; other site 435998005209 ATP binding site [chemical binding]; other site 435998005210 Q-loop/lid; other site 435998005211 ABC transporter signature motif; other site 435998005212 Walker B; other site 435998005213 D-loop; other site 435998005214 H-loop/switch region; other site 435998005215 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 435998005216 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 435998005217 HlyD family secretion protein; Region: HlyD_3; pfam13437 435998005218 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 435998005219 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 435998005220 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 435998005221 Substrate binding site; other site 435998005222 Cupin domain; Region: Cupin_2; cl17218 435998005223 phosphomannomutase CpsG; Provisional; Region: PRK15414 435998005224 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 435998005225 active site 435998005226 substrate binding site [chemical binding]; other site 435998005227 metal binding site [ion binding]; metal-binding site 435998005228 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 435998005229 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 435998005230 NAD binding site [chemical binding]; other site 435998005231 homodimer interface [polypeptide binding]; other site 435998005232 active site 435998005233 substrate binding site [chemical binding]; other site 435998005234 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 435998005235 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 435998005236 Substrate binding site; other site 435998005237 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 435998005238 phosphomannomutase CpsG; Provisional; Region: PRK15414 435998005239 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 435998005240 active site 435998005241 substrate binding site [chemical binding]; other site 435998005242 metal binding site [ion binding]; metal-binding site 435998005243 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 435998005244 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 435998005245 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 435998005246 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 435998005247 Walker A/P-loop; other site 435998005248 ATP binding site [chemical binding]; other site 435998005249 Q-loop/lid; other site 435998005250 ABC transporter signature motif; other site 435998005251 Walker B; other site 435998005252 D-loop; other site 435998005253 H-loop/switch region; other site 435998005254 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 435998005255 putative carbohydrate binding site [chemical binding]; other site 435998005256 Methyltransferase domain; Region: Methyltransf_23; pfam13489 435998005257 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 435998005258 S-adenosylmethionine binding site [chemical binding]; other site 435998005259 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 435998005260 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435998005261 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 435998005262 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435998005263 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 435998005264 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435998005265 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435998005266 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 435998005267 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 435998005268 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435998005269 putative ADP-binding pocket [chemical binding]; other site 435998005270 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 435998005271 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 435998005272 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 435998005273 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 435998005274 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 435998005275 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 435998005276 metal binding site [ion binding]; metal-binding site 435998005277 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 435998005278 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 435998005279 substrate binding site [chemical binding]; other site 435998005280 glutamase interaction surface [polypeptide binding]; other site 435998005281 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 435998005282 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 435998005283 catalytic residues [active] 435998005284 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 435998005285 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 435998005286 putative active site [active] 435998005287 oxyanion strand; other site 435998005288 catalytic triad [active] 435998005289 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 435998005290 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 435998005291 active site 435998005292 motif I; other site 435998005293 motif II; other site 435998005294 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 435998005295 putative active site pocket [active] 435998005296 4-fold oligomerization interface [polypeptide binding]; other site 435998005297 metal binding residues [ion binding]; metal-binding site 435998005298 3-fold/trimer interface [polypeptide binding]; other site 435998005299 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 435998005300 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 435998005301 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998005302 homodimer interface [polypeptide binding]; other site 435998005303 catalytic residue [active] 435998005304 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 435998005305 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 435998005306 NAD binding site [chemical binding]; other site 435998005307 dimerization interface [polypeptide binding]; other site 435998005308 product binding site; other site 435998005309 substrate binding site [chemical binding]; other site 435998005310 zinc binding site [ion binding]; other site 435998005311 catalytic residues [active] 435998005312 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 435998005313 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 435998005314 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 435998005315 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 435998005316 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 435998005317 putative NAD(P) binding site [chemical binding]; other site 435998005318 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998005319 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998005320 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 435998005321 dimerization interface [polypeptide binding]; other site 435998005322 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 435998005323 agmatinase; Region: agmatinase; TIGR01230 435998005324 oligomer interface [polypeptide binding]; other site 435998005325 putative active site [active] 435998005326 Mn binding site [ion binding]; other site 435998005327 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 435998005328 Na binding site [ion binding]; other site 435998005329 Predicted amidohydrolase [General function prediction only]; Region: COG0388 435998005330 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_2; cd07580 435998005331 putative active site [active] 435998005332 catalytic triad [active] 435998005333 putative dimer interface [polypeptide binding]; other site 435998005334 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 435998005335 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 435998005336 oligomer interface [polypeptide binding]; other site 435998005337 metal binding site [ion binding]; metal-binding site 435998005338 metal binding site [ion binding]; metal-binding site 435998005339 putative Cl binding site [ion binding]; other site 435998005340 basic sphincter; other site 435998005341 hydrophobic gate; other site 435998005342 periplasmic entrance; other site 435998005343 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998005344 Coenzyme A binding pocket [chemical binding]; other site 435998005345 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 435998005346 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 435998005347 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 435998005348 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 435998005349 putative C-terminal domain interface [polypeptide binding]; other site 435998005350 putative GSH binding site (G-site) [chemical binding]; other site 435998005351 putative dimer interface [polypeptide binding]; other site 435998005352 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 435998005353 putative N-terminal domain interface [polypeptide binding]; other site 435998005354 putative dimer interface [polypeptide binding]; other site 435998005355 putative substrate binding pocket (H-site) [chemical binding]; other site 435998005356 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 435998005357 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 435998005358 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 435998005359 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 435998005360 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 435998005361 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 435998005362 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 435998005363 homodimer interface [polypeptide binding]; other site 435998005364 substrate-cofactor binding pocket; other site 435998005365 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998005366 catalytic residue [active] 435998005367 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 435998005368 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 435998005369 dimer interface [polypeptide binding]; other site 435998005370 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998005371 catalytic residue [active] 435998005372 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 435998005373 FOG: CBS domain [General function prediction only]; Region: COG0517 435998005374 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 435998005375 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 435998005376 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 435998005377 Fimbrial protein; Region: Fimbrial; pfam00419 435998005378 Mannose binding domain of FimH and related proteins; Region: FimH_man-bind; cl07688 435998005379 mannosyl binding site [chemical binding]; other site 435998005380 Fimbrial protein; Region: Fimbrial; pfam00419 435998005381 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998005382 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998005383 putative fimbrial outer membrane usher protein StfC; Provisional; Region: PRK15284 435998005384 PapC N-terminal domain; Region: PapC_N; pfam13954 435998005385 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 435998005386 PapC C-terminal domain; Region: PapC_C; pfam13953 435998005387 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 435998005388 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 435998005389 Fimbrial protein; Region: Fimbrial; cl01416 435998005390 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998005391 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 435998005392 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 435998005393 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 435998005394 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 435998005395 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 435998005396 DNA binding residues [nucleotide binding] 435998005397 dimerization interface [polypeptide binding]; other site 435998005398 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 435998005399 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 435998005400 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 435998005401 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 435998005402 serine transporter; Region: stp; TIGR00814 435998005403 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 435998005404 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 435998005405 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 435998005406 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 435998005407 intersubunit interface [polypeptide binding]; other site 435998005408 active site 435998005409 catalytic residue [active] 435998005410 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 435998005411 active site 435998005412 catalytic residues [active] 435998005413 undecaprenyl pyrophosphate phosphatase; Provisional; Region: PRK11837 435998005414 active site 435998005415 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 435998005416 active site 435998005417 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cd00242 435998005418 secondary substrate binding site; other site 435998005419 primary substrate binding site; other site 435998005420 inhibition loop; other site 435998005421 dimerization interface [polypeptide binding]; other site 435998005422 putative transporter; Provisional; Region: PRK04972 435998005423 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 435998005424 TrkA-C domain; Region: TrkA_C; pfam02080 435998005425 TrkA-C domain; Region: TrkA_C; pfam02080 435998005426 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 435998005427 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 435998005428 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 435998005429 GSH binding site [chemical binding]; other site 435998005430 catalytic residues [active] 435998005431 Protein of unknown function (DUF1418); Region: DUF1418; pfam07214 435998005432 RimK-like ATP-grasp domain; Region: RimK; pfam08443 435998005433 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 435998005434 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 435998005435 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 435998005436 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 435998005437 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 435998005438 Walker A/P-loop; other site 435998005439 ATP binding site [chemical binding]; other site 435998005440 Q-loop/lid; other site 435998005441 ABC transporter signature motif; other site 435998005442 Walker B; other site 435998005443 D-loop; other site 435998005444 H-loop/switch region; other site 435998005445 TOBE domain; Region: TOBE_2; pfam08402 435998005446 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 435998005447 dimer interface [polypeptide binding]; other site 435998005448 conserved gate region; other site 435998005449 putative PBP binding loops; other site 435998005450 ABC-ATPase subunit interface; other site 435998005451 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 435998005452 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 435998005453 dimer interface [polypeptide binding]; other site 435998005454 conserved gate region; other site 435998005455 putative PBP binding loops; other site 435998005456 ABC-ATPase subunit interface; other site 435998005457 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 435998005458 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 435998005459 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 435998005460 S-adenosylmethionine binding site [chemical binding]; other site 435998005461 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 435998005462 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 435998005463 RelB antitoxin; Region: RelB; cl01171 435998005464 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 435998005465 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 435998005466 substrate binding pocket [chemical binding]; other site 435998005467 membrane-bound complex binding site; other site 435998005468 hinge residues; other site 435998005469 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 435998005470 dimer interface [polypeptide binding]; other site 435998005471 conserved gate region; other site 435998005472 putative PBP binding loops; other site 435998005473 ABC-ATPase subunit interface; other site 435998005474 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 435998005475 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 435998005476 dimer interface [polypeptide binding]; other site 435998005477 conserved gate region; other site 435998005478 putative PBP binding loops; other site 435998005479 ABC-ATPase subunit interface; other site 435998005480 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 435998005481 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 435998005482 substrate binding pocket [chemical binding]; other site 435998005483 membrane-bound complex binding site; other site 435998005484 hinge residues; other site 435998005485 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 435998005486 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998005487 Walker A/P-loop; other site 435998005488 ATP binding site [chemical binding]; other site 435998005489 Q-loop/lid; other site 435998005490 ABC transporter signature motif; other site 435998005491 Walker B; other site 435998005492 D-loop; other site 435998005493 H-loop/switch region; other site 435998005494 putative lipoprotein; Provisional; Region: PRK10533 435998005495 hypothetical protein; Provisional; Region: PRK02877 435998005496 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 435998005497 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 435998005498 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 435998005499 amidase catalytic site [active] 435998005500 Zn binding residues [ion binding]; other site 435998005501 substrate binding site [chemical binding]; other site 435998005502 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 435998005503 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435998005504 NAD(P) binding site [chemical binding]; other site 435998005505 active site 435998005506 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 435998005507 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 435998005508 putative NAD(P) binding site [chemical binding]; other site 435998005509 putative active site [active] 435998005510 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 435998005511 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 435998005512 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 435998005513 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 435998005514 tetramer interface [polypeptide binding]; other site 435998005515 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998005516 catalytic residue [active] 435998005517 pyruvate dehydrogenase; Provisional; Region: PRK09124 435998005518 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 435998005519 PYR/PP interface [polypeptide binding]; other site 435998005520 dimer interface [polypeptide binding]; other site 435998005521 tetramer interface [polypeptide binding]; other site 435998005522 TPP binding site [chemical binding]; other site 435998005523 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 435998005524 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 435998005525 TPP-binding site [chemical binding]; other site 435998005526 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 435998005527 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 435998005528 FAD binding pocket [chemical binding]; other site 435998005529 FAD binding motif [chemical binding]; other site 435998005530 phosphate binding motif [ion binding]; other site 435998005531 beta-alpha-beta structure motif; other site 435998005532 NAD binding pocket [chemical binding]; other site 435998005533 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 435998005534 catalytic loop [active] 435998005535 iron binding site [ion binding]; other site 435998005536 hybrid cluster protein; Provisional; Region: PRK05290 435998005537 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 435998005538 ACS interaction site; other site 435998005539 CODH interaction site; other site 435998005540 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 435998005541 hybrid metal cluster; other site 435998005542 Predicted membrane protein [Function unknown]; Region: COG2431 435998005543 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 435998005544 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 435998005545 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 435998005546 putative active site [active] 435998005547 putative metal-binding site [ion binding]; other site 435998005548 Protein of unknown function (DUF535); Region: DUF535; pfam04393 435998005549 macrolide transporter subunit MacA; Provisional; Region: PRK11578 435998005550 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 435998005551 HlyD family secretion protein; Region: HlyD_3; pfam13437 435998005552 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 435998005553 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 435998005554 Walker A/P-loop; other site 435998005555 ATP binding site [chemical binding]; other site 435998005556 Q-loop/lid; other site 435998005557 ABC transporter signature motif; other site 435998005558 Walker B; other site 435998005559 D-loop; other site 435998005560 H-loop/switch region; other site 435998005561 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435998005562 FtsX-like permease family; Region: FtsX; pfam02687 435998005563 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 435998005564 DNA-binding site [nucleotide binding]; DNA binding site 435998005565 RNA-binding motif; other site 435998005566 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 435998005567 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 435998005568 Clp amino terminal domain; Region: Clp_N; pfam02861 435998005569 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998005570 Walker A motif; other site 435998005571 ATP binding site [chemical binding]; other site 435998005572 Walker B motif; other site 435998005573 arginine finger; other site 435998005574 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998005575 Walker A motif; other site 435998005576 ATP binding site [chemical binding]; other site 435998005577 Walker B motif; other site 435998005578 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 435998005579 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 435998005580 rRNA binding site [nucleotide binding]; other site 435998005581 predicted 30S ribosome binding site; other site 435998005582 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 435998005583 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 435998005584 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998005585 Walker A/P-loop; other site 435998005586 ATP binding site [chemical binding]; other site 435998005587 Q-loop/lid; other site 435998005588 ABC transporter signature motif; other site 435998005589 Walker B; other site 435998005590 D-loop; other site 435998005591 H-loop/switch region; other site 435998005592 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 435998005593 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 435998005594 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998005595 Walker A/P-loop; other site 435998005596 ATP binding site [chemical binding]; other site 435998005597 Q-loop/lid; other site 435998005598 ABC transporter signature motif; other site 435998005599 Walker B; other site 435998005600 D-loop; other site 435998005601 H-loop/switch region; other site 435998005602 thioredoxin reductase; Provisional; Region: PRK10262 435998005603 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 435998005604 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 435998005605 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 435998005606 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 435998005607 putative DNA binding site [nucleotide binding]; other site 435998005608 putative Zn2+ binding site [ion binding]; other site 435998005609 AsnC family; Region: AsnC_trans_reg; pfam01037 435998005610 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 435998005611 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 435998005612 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 435998005613 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 435998005614 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 435998005615 recombination factor protein RarA; Reviewed; Region: PRK13342 435998005616 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998005617 Walker A motif; other site 435998005618 ATP binding site [chemical binding]; other site 435998005619 Walker B motif; other site 435998005620 arginine finger; other site 435998005621 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 435998005622 seryl-tRNA synthetase; Provisional; Region: PRK05431 435998005623 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 435998005624 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 435998005625 dimer interface [polypeptide binding]; other site 435998005626 active site 435998005627 motif 1; other site 435998005628 motif 2; other site 435998005629 motif 3; other site 435998005630 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 435998005631 putative MFS family transporter protein; Provisional; Region: PRK03633 435998005632 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 435998005633 putative substrate translocation pore; other site 435998005634 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 435998005635 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 435998005636 FeS/SAM binding site; other site 435998005637 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 435998005638 Pyruvate formate lyase 1; Region: PFL1; cd01678 435998005639 coenzyme A binding site [chemical binding]; other site 435998005640 active site 435998005641 catalytic residues [active] 435998005642 glycine loop; other site 435998005643 formate transporter; Provisional; Region: PRK10805 435998005644 uncharacterized domain; Region: TIGR00702 435998005645 YcaO-like family; Region: YcaO; pfam02624 435998005646 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 435998005647 homodimer interface [polypeptide binding]; other site 435998005648 active site 435998005649 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 435998005650 homodimer interface [polypeptide binding]; other site 435998005651 substrate-cofactor binding pocket; other site 435998005652 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998005653 catalytic residue [active] 435998005654 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 435998005655 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 435998005656 hinge; other site 435998005657 active site 435998005658 cytidylate kinase; Provisional; Region: cmk; PRK00023 435998005659 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 435998005660 CMP-binding site; other site 435998005661 The sites determining sugar specificity; other site 435998005662 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 435998005663 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 435998005664 RNA binding site [nucleotide binding]; other site 435998005665 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 435998005666 RNA binding site [nucleotide binding]; other site 435998005667 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 435998005668 RNA binding site [nucleotide binding]; other site 435998005669 S1_RPS1_repeat_ec4: 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_ec4; cd05689 435998005670 RNA binding site [nucleotide binding]; other site 435998005671 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 435998005672 RNA binding site [nucleotide binding]; other site 435998005673 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 435998005674 RNA binding site [nucleotide binding]; other site 435998005675 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 435998005676 IHF dimer interface [polypeptide binding]; other site 435998005677 IHF - DNA interface [nucleotide binding]; other site 435998005678 ComEC family competence protein; Provisional; Region: PRK11539 435998005679 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 435998005680 Competence protein; Region: Competence; pfam03772 435998005681 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 435998005682 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 435998005683 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 435998005684 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 435998005685 Walker A/P-loop; other site 435998005686 ATP binding site [chemical binding]; other site 435998005687 Q-loop/lid; other site 435998005688 ABC transporter signature motif; other site 435998005689 Walker B; other site 435998005690 D-loop; other site 435998005691 H-loop/switch region; other site 435998005692 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 435998005693 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 435998005694 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 435998005695 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 435998005696 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 435998005697 DNA-binding site [nucleotide binding]; DNA binding site 435998005698 RNA-binding motif; other site 435998005699 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 435998005700 DNA-binding site [nucleotide binding]; DNA binding site 435998005701 RNA-binding motif; other site 435998005702 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 435998005703 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 435998005704 Trm112p-like protein; Region: Trm112p; cl01066 435998005705 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 435998005706 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 435998005707 Ligand binding site; other site 435998005708 oligomer interface; other site 435998005709 hypothetical protein; Provisional; Region: PRK10593 435998005710 Uncharacterized conserved protein [Function unknown]; Region: COG1434 435998005711 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 435998005712 putative active site [active] 435998005713 Methyltransferase domain; Region: Methyltransf_31; pfam13847 435998005714 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 435998005715 S-adenosylmethionine binding site [chemical binding]; other site 435998005716 condesin subunit F; Provisional; Region: PRK05260 435998005717 condesin subunit E; Provisional; Region: PRK05256 435998005718 cell division protein MukB; Provisional; Region: mukB; PRK04863 435998005719 P-loop containing region of AAA domain; Region: AAA_29; cl17516 435998005720 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 435998005721 murein L,D-transpeptidase; Provisional; Region: PRK10594 435998005722 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 435998005723 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 435998005724 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 435998005725 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 435998005726 Peptidase M15; Region: Peptidase_M15_3; cl01194 435998005727 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 435998005728 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 435998005729 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 435998005730 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998005731 homodimer interface [polypeptide binding]; other site 435998005732 catalytic residue [active] 435998005733 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 435998005734 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 435998005735 trimer interface [polypeptide binding]; other site 435998005736 eyelet of channel; other site 435998005737 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 435998005738 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 435998005739 putative dimer interface [polypeptide binding]; other site 435998005740 putative anticodon binding site; other site 435998005741 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 435998005742 homodimer interface [polypeptide binding]; other site 435998005743 motif 1; other site 435998005744 motif 2; other site 435998005745 active site 435998005746 motif 3; other site 435998005747 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 435998005748 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 435998005749 active site 435998005750 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 435998005751 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 435998005752 metal binding site [ion binding]; metal-binding site 435998005753 active site 435998005754 I-site; other site 435998005755 aminopeptidase N; Provisional; Region: pepN; PRK14015 435998005756 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 435998005757 active site 435998005758 Zn binding site [ion binding]; other site 435998005759 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 435998005760 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 435998005761 Walker A/P-loop; other site 435998005762 ATP binding site [chemical binding]; other site 435998005763 Q-loop/lid; other site 435998005764 ABC transporter signature motif; other site 435998005765 Walker B; other site 435998005766 D-loop; other site 435998005767 H-loop/switch region; other site 435998005768 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 435998005769 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 435998005770 dimer interface [polypeptide binding]; other site 435998005771 conserved gate region; other site 435998005772 putative PBP binding loops; other site 435998005773 ABC-ATPase subunit interface; other site 435998005774 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 435998005775 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 435998005776 active site 435998005777 dimer interface [polypeptide binding]; other site 435998005778 non-prolyl cis peptide bond; other site 435998005779 insertion regions; other site 435998005780 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 435998005781 substrate binding pocket [chemical binding]; other site 435998005782 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 435998005783 membrane-bound complex binding site; other site 435998005784 hinge residues; other site 435998005785 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 435998005786 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 435998005787 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 435998005788 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 435998005789 quinone interaction residues [chemical binding]; other site 435998005790 active site 435998005791 catalytic residues [active] 435998005792 FMN binding site [chemical binding]; other site 435998005793 substrate binding site [chemical binding]; other site 435998005794 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 435998005795 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 435998005796 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 435998005797 MOSC domain; Region: MOSC; pfam03473 435998005798 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 435998005799 catalytic loop [active] 435998005800 iron binding site [ion binding]; other site 435998005801 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 435998005802 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 435998005803 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 435998005804 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 435998005805 S-adenosylmethionine binding site [chemical binding]; other site 435998005806 ABC transporter ATPase component; Reviewed; Region: PRK11147 435998005807 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998005808 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998005809 Walker A/P-loop; other site 435998005810 Walker A/P-loop; other site 435998005811 ATP binding site [chemical binding]; other site 435998005812 ATP binding site [chemical binding]; other site 435998005813 Q-loop/lid; other site 435998005814 Q-loop/lid; other site 435998005815 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435998005816 ABC transporter signature motif; other site 435998005817 Walker B; other site 435998005818 D-loop; other site 435998005819 ABC transporter; Region: ABC_tran_2; pfam12848 435998005820 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435998005821 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 435998005822 Paraquat-inducible protein A; Region: PqiA; pfam04403 435998005823 Paraquat-inducible protein A; Region: PqiA; pfam04403 435998005824 paraquat-inducible protein B; Provisional; Region: PRK10807 435998005825 mce related protein; Region: MCE; pfam02470 435998005826 mce related protein; Region: MCE; pfam02470 435998005827 mce related protein; Region: MCE; pfam02470 435998005828 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 435998005829 Protein of unknown function (DUF330); Region: DUF330; pfam03886 435998005830 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 435998005831 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 435998005832 dimer interface [polypeptide binding]; other site 435998005833 active site 435998005834 Predicted transcriptional regulators [Transcription]; Region: COG1733 435998005835 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 435998005836 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 435998005837 active site 2 [active] 435998005838 dimer interface [polypeptide binding]; other site 435998005839 active site 1 [active] 435998005840 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 435998005841 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 435998005842 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 435998005843 outer membrane protein A; Reviewed; Region: PRK10808 435998005844 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 435998005845 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 435998005846 ligand binding site [chemical binding]; other site 435998005847 cell division inhibitor SulA; Region: sula; TIGR00623 435998005848 TfoX N-terminal domain; Region: TfoX_N; pfam04993 435998005849 TfoX C-terminal domain; Region: TfoX_C; pfam04994 435998005850 TIGR01666 family membrane protein; Region: YCCS 435998005851 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 435998005852 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 435998005853 Predicted membrane protein [Function unknown]; Region: COG3304 435998005854 Domain of unknown function (DUF307); Region: DUF307; pfam03733 435998005855 Domain of unknown function (DUF307); Region: DUF307; pfam03733 435998005856 DNA helicase IV; Provisional; Region: helD; PRK11054 435998005857 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 435998005858 Part of AAA domain; Region: AAA_19; pfam13245 435998005859 Family description; Region: UvrD_C_2; pfam13538 435998005860 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 435998005861 active site 435998005862 dimer interfaces [polypeptide binding]; other site 435998005863 catalytic residues [active] 435998005864 hypothetical protein; Provisional; Region: PRK03641 435998005865 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 435998005866 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 435998005867 heat shock protein HspQ; Provisional; Region: PRK14129 435998005868 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 435998005869 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 435998005870 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 435998005871 putative RNA binding site [nucleotide binding]; other site 435998005872 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 435998005873 S-adenosylmethionine binding site [chemical binding]; other site 435998005874 acylphosphatase; Provisional; Region: PRK14426 435998005875 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 435998005876 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 435998005877 YccA-like proteins; Region: YccA_like; cd10433 435998005878 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 435998005879 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 435998005880 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 435998005881 DNA binding residues [nucleotide binding] 435998005882 dimerization interface [polypeptide binding]; other site 435998005883 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998005884 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 435998005885 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 435998005886 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 435998005887 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 435998005888 PapC N-terminal domain; Region: PapC_N; pfam13954 435998005889 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 435998005890 PapC C-terminal domain; Region: PapC_C; pfam13953 435998005891 Fimbrial protein; Region: Fimbrial; pfam00419 435998005892 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 435998005893 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 435998005894 DNA binding residues [nucleotide binding] 435998005895 dimer interface [polypeptide binding]; other site 435998005896 [2Fe-2S] cluster binding site [ion binding]; other site 435998005897 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435998005898 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435998005899 HlyD family secretion protein; Region: HlyD_3; pfam13437 435998005900 multidrug efflux protein; Reviewed; Region: PRK09579 435998005901 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 435998005902 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 435998005903 active site 435998005904 substrate binding site [chemical binding]; other site 435998005905 Mg2+ binding site [ion binding]; other site 435998005906 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 435998005907 LysE type translocator; Region: LysE; cl00565 435998005908 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 435998005909 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998005910 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 435998005911 dimerization interface [polypeptide binding]; other site 435998005912 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 435998005913 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 435998005914 non-specific DNA binding site [nucleotide binding]; other site 435998005915 salt bridge; other site 435998005916 sequence-specific DNA binding site [nucleotide binding]; other site 435998005917 2TM domain; Region: 2TM; pfam13239 435998005918 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 435998005919 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 435998005920 non-specific DNA binding site [nucleotide binding]; other site 435998005921 salt bridge; other site 435998005922 sequence-specific DNA binding site [nucleotide binding]; other site 435998005923 Cupin domain; Region: Cupin_2; pfam07883 435998005924 EamA-like transporter family; Region: EamA; pfam00892 435998005925 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 435998005926 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 435998005927 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 435998005928 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 435998005929 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 435998005930 putative substrate translocation pore; other site 435998005931 Uncharacterized conserved protein [Function unknown]; Region: COG1359 435998005932 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 435998005933 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 435998005934 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 435998005935 substrate binding site [chemical binding]; other site 435998005936 oxyanion hole (OAH) forming residues; other site 435998005937 trimer interface [polypeptide binding]; other site 435998005938 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 435998005939 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435998005940 putative substrate translocation pore; other site 435998005941 5-aminolevulinate synthase; Validated; Region: PRK09064 435998005942 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 435998005943 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 435998005944 catalytic residue [active] 435998005945 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 435998005946 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 435998005947 dimer interface [polypeptide binding]; other site 435998005948 active site 435998005949 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 435998005950 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 435998005951 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 435998005952 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 435998005953 Autoinducer binding domain; Region: Autoind_bind; pfam03472 435998005954 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 435998005955 DNA binding residues [nucleotide binding] 435998005956 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 435998005957 Ligand Binding Site [chemical binding]; other site 435998005958 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 435998005959 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 435998005960 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 435998005961 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 435998005962 dimer interface [polypeptide binding]; other site 435998005963 NADP binding site [chemical binding]; other site 435998005964 catalytic residues [active] 435998005965 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 435998005966 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 435998005967 inhibitor site; inhibition site 435998005968 active site 435998005969 dimer interface [polypeptide binding]; other site 435998005970 catalytic residue [active] 435998005971 PAS fold; Region: PAS_4; pfam08448 435998005972 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 435998005973 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998005974 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 435998005975 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 435998005976 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 435998005977 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 435998005978 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 435998005979 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 435998005980 GlpM protein; Region: GlpM; pfam06942 435998005981 hypothetical protein; Provisional; Region: PRK10613 435998005982 response regulator; Provisional; Region: PRK09483 435998005983 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998005984 active site 435998005985 phosphorylation site [posttranslational modification] 435998005986 intermolecular recognition site; other site 435998005987 dimerization interface [polypeptide binding]; other site 435998005988 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 435998005989 DNA binding residues [nucleotide binding] 435998005990 dimerization interface [polypeptide binding]; other site 435998005991 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 435998005992 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 435998005993 GIY-YIG motif/motif A; other site 435998005994 active site 435998005995 catalytic site [active] 435998005996 putative DNA binding site [nucleotide binding]; other site 435998005997 metal binding site [ion binding]; metal-binding site 435998005998 UvrB/uvrC motif; Region: UVR; pfam02151 435998005999 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 435998006000 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 435998006001 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 435998006002 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 435998006003 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 435998006004 CoenzymeA binding site [chemical binding]; other site 435998006005 subunit interaction site [polypeptide binding]; other site 435998006006 PHB binding site; other site 435998006007 proline/glycine betaine transporter; Provisional; Region: PRK10642 435998006008 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 435998006009 putative substrate translocation pore; other site 435998006010 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 435998006011 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 435998006012 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 435998006013 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 435998006014 Walker A/P-loop; other site 435998006015 ATP binding site [chemical binding]; other site 435998006016 Q-loop/lid; other site 435998006017 ABC transporter signature motif; other site 435998006018 Walker B; other site 435998006019 D-loop; other site 435998006020 H-loop/switch region; other site 435998006021 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435998006022 FtsX-like permease family; Region: FtsX; pfam02687 435998006023 macrolide transporter subunit MacA; Provisional; Region: PRK11578 435998006024 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435998006025 HlyD family secretion protein; Region: HlyD_3; pfam13437 435998006026 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 435998006027 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 435998006028 GIY-YIG motif/motif A; other site 435998006029 active site 435998006030 catalytic site [active] 435998006031 putative DNA binding site [nucleotide binding]; other site 435998006032 metal binding site [ion binding]; metal-binding site 435998006033 sigma70 family sigma factor YlaC; Region: YlaC; pfam10777 435998006034 potassium/proton antiporter; Reviewed; Region: PRK05326 435998006035 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 435998006036 TrkA-C domain; Region: TrkA_C; pfam02080 435998006037 Transporter associated domain; Region: CorC_HlyC; smart01091 435998006038 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 435998006039 Acyltransferase family; Region: Acyl_transf_3; pfam01757 435998006040 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 435998006041 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 435998006042 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 435998006043 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 435998006044 Ligand binding site; other site 435998006045 DXD motif; other site 435998006046 lipoprotein; Provisional; Region: PRK10175 435998006047 secY/secA suppressor protein; Provisional; Region: PRK11467 435998006048 2-isopropylmalate synthase; Validated; Region: PRK03739 435998006049 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 435998006050 active site 435998006051 catalytic residues [active] 435998006052 metal binding site [ion binding]; metal-binding site 435998006053 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 435998006054 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 435998006055 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998006056 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 435998006057 dimerization interface [polypeptide binding]; other site 435998006058 putative DNA binding site [nucleotide binding]; other site 435998006059 putative Zn2+ binding site [ion binding]; other site 435998006060 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 435998006061 Predicted transporter component [General function prediction only]; Region: COG2391 435998006062 Sulphur transport; Region: Sulf_transp; pfam04143 435998006063 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 435998006064 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 435998006065 active site 435998006066 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 435998006067 putative substrate translocation pore; other site 435998006068 POT family; Region: PTR2; cl17359 435998006069 drug efflux system protein MdtG; Provisional; Region: PRK09874 435998006070 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 435998006071 putative substrate translocation pore; other site 435998006072 YCII-related domain; Region: YCII; cl00999 435998006073 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 435998006074 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 435998006075 putative acyl-acceptor binding pocket; other site 435998006076 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 435998006077 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 435998006078 active site residue [active] 435998006079 hypothetical protein; Provisional; Region: PRK03757 435998006080 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 435998006081 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 435998006082 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 435998006083 catalytic residues [active] 435998006084 catalytic nucleophile [active] 435998006085 Recombinase; Region: Recombinase; pfam07508 435998006086 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 435998006087 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 435998006088 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 435998006089 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 435998006090 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 435998006091 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 435998006092 NADP binding site [chemical binding]; other site 435998006093 dimer interface [polypeptide binding]; other site 435998006094 colanic acid capsular biosynthesis activation protein A; Provisional; Region: rcsA; PRK15411 435998006095 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 435998006096 DNA binding residues [nucleotide binding] 435998006097 dimerization interface [polypeptide binding]; other site 435998006098 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 435998006099 hydroxyglutarate oxidase; Provisional; Region: PRK11728 435998006100 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 435998006101 DNA damage-inducible protein I; Provisional; Region: PRK10597 435998006102 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 435998006103 active site 435998006104 substrate binding pocket [chemical binding]; other site 435998006105 dimer interface [polypeptide binding]; other site 435998006106 Uncharacterized conserved protein [Function unknown]; Region: COG1359 435998006107 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 435998006108 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 435998006109 homodimer interface [polypeptide binding]; other site 435998006110 oligonucleotide binding site [chemical binding]; other site 435998006111 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 435998006112 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 435998006113 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 435998006114 RNA binding surface [nucleotide binding]; other site 435998006115 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 435998006116 active site 435998006117 Maf-like protein; Provisional; Region: PRK14361 435998006118 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 435998006119 active site 435998006120 dimer interface [polypeptide binding]; other site 435998006121 hypothetical protein; Provisional; Region: PRK11193 435998006122 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 435998006123 putative phosphate acyltransferase; Provisional; Region: PRK05331 435998006124 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 435998006125 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 435998006126 dimer interface [polypeptide binding]; other site 435998006127 active site 435998006128 CoA binding pocket [chemical binding]; other site 435998006129 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 435998006130 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 435998006131 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 435998006132 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 435998006133 NAD(P) binding site [chemical binding]; other site 435998006134 homotetramer interface [polypeptide binding]; other site 435998006135 homodimer interface [polypeptide binding]; other site 435998006136 active site 435998006137 acyl carrier protein; Provisional; Region: acpP; PRK00982 435998006138 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 435998006139 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 435998006140 dimer interface [polypeptide binding]; other site 435998006141 active site 435998006142 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 435998006143 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 435998006144 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998006145 catalytic residue [active] 435998006146 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 435998006147 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 435998006148 dimerization interface [polypeptide binding]; other site 435998006149 thymidylate kinase; Validated; Region: tmk; PRK00698 435998006150 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 435998006151 TMP-binding site; other site 435998006152 ATP-binding site [chemical binding]; other site 435998006153 DNA polymerase III subunit delta'; Validated; Region: PRK07993 435998006154 DNA polymerase III subunit delta'; Validated; Region: PRK08485 435998006155 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 435998006156 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 435998006157 active site 435998006158 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 435998006159 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 435998006160 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 435998006161 active site turn [active] 435998006162 phosphorylation site [posttranslational modification] 435998006163 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 435998006164 manganese transport regulator MntR; Provisional; Region: PRK11050 435998006165 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 435998006166 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 435998006167 manganese transport protein MntH; Reviewed; Region: PRK00701 435998006168 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 435998006169 short chain dehydrogenase; Provisional; Region: PRK06500 435998006170 classical (c) SDRs; Region: SDR_c; cd05233 435998006171 NAD(P) binding site [chemical binding]; other site 435998006172 active site 435998006173 Predicted transcriptional regulators [Transcription]; Region: COG1733 435998006174 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 435998006175 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 435998006176 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 435998006177 substrate binding pocket [chemical binding]; other site 435998006178 membrane-bound complex binding site; other site 435998006179 hinge residues; other site 435998006180 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 435998006181 nucleotide binding site/active site [active] 435998006182 HIT family signature motif; other site 435998006183 catalytic residue [active] 435998006184 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 435998006185 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 435998006186 putative dimer interface [polypeptide binding]; other site 435998006187 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 435998006188 thiamine kinase; Region: ycfN_thiK; TIGR02721 435998006189 active site 435998006190 substrate binding site [chemical binding]; other site 435998006191 ATP binding site [chemical binding]; other site 435998006192 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 435998006193 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 435998006194 beta-hexosaminidase; Provisional; Region: PRK05337 435998006195 hypothetical protein; Provisional; Region: PRK04940 435998006196 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 435998006197 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 435998006198 hypothetical protein; Provisional; Region: PRK11280 435998006199 Predicted transcriptional regulator [Transcription]; Region: COG1959 435998006200 Transcriptional regulator; Region: Rrf2; pfam02082 435998006201 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 435998006202 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435998006203 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435998006204 HlyD family secretion protein; Region: HlyD_3; pfam13437 435998006205 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 435998006206 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998006207 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998006208 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 435998006209 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 435998006210 POT family; Region: PTR2; cl17359 435998006211 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 435998006212 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 435998006213 putative ligand binding site [chemical binding]; other site 435998006214 NAD binding site [chemical binding]; other site 435998006215 dimerization interface [polypeptide binding]; other site 435998006216 catalytic site [active] 435998006217 putative hydrolase; Validated; Region: PRK09248 435998006218 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 435998006219 active site 435998006220 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 435998006221 Protein of unknown function (DUF533); Region: DUF533; pfam04391 435998006222 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 435998006223 putative metal binding site [ion binding]; other site 435998006224 protease 2; Provisional; Region: PRK10115 435998006225 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435998006226 exodeoxyribonuclease X; Provisional; Region: PRK07983 435998006227 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 435998006228 active site 435998006229 catalytic site [active] 435998006230 substrate binding site [chemical binding]; other site 435998006231 Predicted amidohydrolase [General function prediction only]; Region: COG0388 435998006232 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 435998006233 active site 435998006234 catalytic triad [active] 435998006235 dimer interface [polypeptide binding]; other site 435998006236 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 435998006237 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998006238 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998006239 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 435998006240 putative effector binding pocket; other site 435998006241 dimerization interface [polypeptide binding]; other site 435998006242 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 435998006243 homotrimer interaction site [polypeptide binding]; other site 435998006244 putative active site [active] 435998006245 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 435998006246 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 435998006247 Ferritin-like domain; Region: Ferritin; pfam00210 435998006248 ferroxidase diiron center [ion binding]; other site 435998006249 CopC domain; Region: CopC; cl01012 435998006250 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 435998006251 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 435998006252 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 435998006253 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 435998006254 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 435998006255 dimer interface [polypeptide binding]; other site 435998006256 active site 435998006257 Int/Topo IB signature motif; other site 435998006258 Excisionase-like protein; Region: Exc; pfam07825 435998006259 RecT family; Region: RecT; pfam03837 435998006260 Enterobacterial exodeoxyribonuclease VIII; Region: Exonuc_VIII; pfam06630 435998006261 tellurite resistance protein terB; Region: terB; cd07176 435998006262 putative metal binding site [ion binding]; other site 435998006263 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998006264 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 435998006265 Walker A motif; other site 435998006266 ATP binding site [chemical binding]; other site 435998006267 Walker B motif; other site 435998006268 arginine finger; other site 435998006269 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 435998006270 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 435998006271 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 435998006272 Protein of unknown function (DUF1133); Region: DUF1133; pfam06576 435998006273 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 435998006274 catalytic residues [active] 435998006275 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 435998006276 Terminase small subunit; Region: Terminase_2; cl01513 435998006277 Phage terminase large subunit; Region: Terminase_3; cl12054 435998006278 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 435998006279 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 435998006280 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 435998006281 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 435998006282 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 435998006283 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4834 435998006284 Spc7 kinetochore protein; Region: Spc7; smart00787 435998006285 Protein of unknown function (DUF4054); Region: DUF4054; pfam13262 435998006286 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 435998006287 Protein of unknown function (DUF3277); Region: DUF3277; pfam11681 435998006288 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 435998006289 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 435998006290 N-acetyl-D-glucosamine binding site [chemical binding]; other site 435998006291 catalytic residue [active] 435998006292 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 435998006293 Baseplate J-like protein; Region: Baseplate_J; cl01294 435998006294 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 435998006295 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 435998006296 Catalytic site [active] 435998006297 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 435998006298 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 435998006299 Phosphotransferase enzyme family; Region: APH; pfam01636 435998006300 active site 435998006301 substrate binding site [chemical binding]; other site 435998006302 ATP binding site [chemical binding]; other site 435998006303 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 435998006304 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 435998006305 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 435998006306 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 435998006307 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 435998006308 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998006309 active site 435998006310 phosphorylation site [posttranslational modification] 435998006311 intermolecular recognition site; other site 435998006312 dimerization interface [polypeptide binding]; other site 435998006313 sensory histidine kinase DcuS; Provisional; Region: PRK11086 435998006314 Cache domain; Region: Cache_2; cl07034 435998006315 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998006316 ATP binding site [chemical binding]; other site 435998006317 Mg2+ binding site [ion binding]; other site 435998006318 G-X-G motif; other site 435998006319 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 435998006320 Class I aldolases; Region: Aldolase_Class_I; cl17187 435998006321 catalytic residue [active] 435998006322 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 435998006323 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 435998006324 putative ligand binding site [chemical binding]; other site 435998006325 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 435998006326 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 435998006327 Walker A/P-loop; other site 435998006328 ATP binding site [chemical binding]; other site 435998006329 Q-loop/lid; other site 435998006330 ABC transporter signature motif; other site 435998006331 Walker B; other site 435998006332 D-loop; other site 435998006333 H-loop/switch region; other site 435998006334 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 435998006335 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 435998006336 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 435998006337 TM-ABC transporter signature motif; other site 435998006338 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 435998006339 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 435998006340 putative ligand binding site [chemical binding]; other site 435998006341 short chain dehydrogenase; Provisional; Region: PRK07478 435998006342 classical (c) SDRs; Region: SDR_c; cd05233 435998006343 NAD(P) binding site [chemical binding]; other site 435998006344 active site 435998006345 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 435998006346 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 435998006347 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 435998006348 Ligand Binding Site [chemical binding]; other site 435998006349 alpha-glucosidase; Provisional; Region: PRK10137 435998006350 Protein of unknown function, DUF608; Region: DUF608; pfam04685 435998006351 Trehalase; Region: Trehalase; cl17346 435998006352 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 435998006353 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998006354 DNA binding site [nucleotide binding] 435998006355 domain linker motif; other site 435998006356 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 435998006357 putative dimerization interface [polypeptide binding]; other site 435998006358 putative ligand binding site [chemical binding]; other site 435998006359 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 435998006360 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 435998006361 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 435998006362 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 435998006363 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 435998006364 Domain of unknown function (DUF386); Region: DUF386; cl01047 435998006365 inner membrane transporter YjeM; Provisional; Region: PRK15238 435998006366 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 435998006367 dimerization interface [polypeptide binding]; other site 435998006368 putative DNA binding site [nucleotide binding]; other site 435998006369 putative Zn2+ binding site [ion binding]; other site 435998006370 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 435998006371 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 435998006372 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 435998006373 oligomer interface [polypeptide binding]; other site 435998006374 active site residues [active] 435998006375 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 435998006376 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 435998006377 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 435998006378 Fimbrial protein; Region: Fimbrial; cl01416 435998006379 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 435998006380 PapC N-terminal domain; Region: PapC_N; pfam13954 435998006381 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 435998006382 PapC C-terminal domain; Region: PapC_C; pfam13953 435998006383 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 435998006384 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 435998006385 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 435998006386 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998006387 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 435998006388 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 435998006389 DNA binding residues [nucleotide binding] 435998006390 dimerization interface [polypeptide binding]; other site 435998006391 Predicted transcriptional regulators [Transcription]; Region: COG1733 435998006392 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 435998006393 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 435998006394 GTP-binding protein YchF; Reviewed; Region: PRK09601 435998006395 YchF GTPase; Region: YchF; cd01900 435998006396 G1 box; other site 435998006397 GTP/Mg2+ binding site [chemical binding]; other site 435998006398 Switch I region; other site 435998006399 G2 box; other site 435998006400 Switch II region; other site 435998006401 G3 box; other site 435998006402 G4 box; other site 435998006403 G5 box; other site 435998006404 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 435998006405 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 435998006406 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 435998006407 Sulfate transporter family; Region: Sulfate_transp; pfam00916 435998006408 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 435998006409 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 435998006410 putative active site [active] 435998006411 catalytic residue [active] 435998006412 hypothetical protein; Provisional; Region: PRK10692 435998006413 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 435998006414 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 435998006415 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 435998006416 active site 435998006417 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 435998006418 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 435998006419 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 435998006420 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 435998006421 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 435998006422 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 435998006423 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 435998006424 tRNA; other site 435998006425 putative tRNA binding site [nucleotide binding]; other site 435998006426 putative NADP binding site [chemical binding]; other site 435998006427 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 435998006428 peptide chain release factor 1; Validated; Region: prfA; PRK00591 435998006429 This domain is found in peptide chain release factors; Region: PCRF; smart00937 435998006430 RF-1 domain; Region: RF-1; pfam00472 435998006431 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 435998006432 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 435998006433 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 435998006434 hypothetical protein; Provisional; Region: PRK10941 435998006435 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 435998006436 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 435998006437 binding surface 435998006438 TPR motif; other site 435998006439 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 435998006440 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 435998006441 putative transporter; Provisional; Region: PRK11660 435998006442 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 435998006443 Sulfate transporter family; Region: Sulfate_transp; pfam00916 435998006444 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 435998006445 hypothetical protein; Provisional; Region: PRK02487 435998006446 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 435998006447 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 435998006448 metal binding site [ion binding]; metal-binding site 435998006449 active site 435998006450 I-site; other site 435998006451 transcription-repair coupling factor; Provisional; Region: PRK10689 435998006452 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 435998006453 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 435998006454 ATP binding site [chemical binding]; other site 435998006455 putative Mg++ binding site [ion binding]; other site 435998006456 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 435998006457 nucleotide binding region [chemical binding]; other site 435998006458 ATP-binding site [chemical binding]; other site 435998006459 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 435998006460 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 435998006461 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435998006462 FtsX-like permease family; Region: FtsX; pfam02687 435998006463 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 435998006464 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 435998006465 Walker A/P-loop; other site 435998006466 ATP binding site [chemical binding]; other site 435998006467 Q-loop/lid; other site 435998006468 ABC transporter signature motif; other site 435998006469 Walker B; other site 435998006470 D-loop; other site 435998006471 H-loop/switch region; other site 435998006472 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 435998006473 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 435998006474 FtsX-like permease family; Region: FtsX; pfam02687 435998006475 fructokinase; Reviewed; Region: PRK09557 435998006476 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 435998006477 nucleotide binding site [chemical binding]; other site 435998006478 NAD-dependent deacetylase; Provisional; Region: PRK00481 435998006479 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 435998006480 NAD+ binding site [chemical binding]; other site 435998006481 substrate binding site [chemical binding]; other site 435998006482 Zn binding site [ion binding]; other site 435998006483 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 435998006484 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 435998006485 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 435998006486 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 435998006487 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 435998006488 putative active site [active] 435998006489 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 435998006490 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 435998006491 NAD(P) binding site [chemical binding]; other site 435998006492 LDH/MDH dimer interface [polypeptide binding]; other site 435998006493 substrate binding site [chemical binding]; other site 435998006494 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 435998006495 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 435998006496 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 435998006497 active site turn [active] 435998006498 phosphorylation site [posttranslational modification] 435998006499 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 435998006500 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 435998006501 dimer interface [polypeptide binding]; other site 435998006502 conserved gate region; other site 435998006503 putative PBP binding loops; other site 435998006504 ABC-ATPase subunit interface; other site 435998006505 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 435998006506 dimer interface [polypeptide binding]; other site 435998006507 conserved gate region; other site 435998006508 putative PBP binding loops; other site 435998006509 ABC-ATPase subunit interface; other site 435998006510 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 435998006511 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 435998006512 Walker A/P-loop; other site 435998006513 ATP binding site [chemical binding]; other site 435998006514 Q-loop/lid; other site 435998006515 ABC transporter signature motif; other site 435998006516 Walker B; other site 435998006517 D-loop; other site 435998006518 H-loop/switch region; other site 435998006519 TOBE domain; Region: TOBE_2; pfam08402 435998006520 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 435998006521 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 435998006522 metal binding site [ion binding]; metal-binding site 435998006523 dimer interface [polypeptide binding]; other site 435998006524 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 435998006525 S-type Pyocin; Region: Pyocin_S; pfam06958 435998006526 S-type Pyocin; Region: Pyocin_S; pfam06958 435998006527 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 435998006528 S-type Pyocin; Region: Pyocin_S; pfam06958 435998006529 Colicin D; Region: Colicin_D; pfam11429 435998006530 S-type Pyocin; Region: Pyocin_S; pfam06958 435998006531 putative dehydrogenase; Provisional; Region: PRK10098 435998006532 Uncharacterized conserved protein [Function unknown]; Region: COG2850 435998006533 Cupin domain; Region: Cupin_2; cl17218 435998006534 sensor protein PhoQ; Provisional; Region: PRK10815 435998006535 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 435998006536 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 435998006537 dimer interface [polypeptide binding]; other site 435998006538 phosphorylation site [posttranslational modification] 435998006539 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998006540 ATP binding site [chemical binding]; other site 435998006541 Mg2+ binding site [ion binding]; other site 435998006542 G-X-G motif; other site 435998006543 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 435998006544 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998006545 active site 435998006546 phosphorylation site [posttranslational modification] 435998006547 intermolecular recognition site; other site 435998006548 dimerization interface [polypeptide binding]; other site 435998006549 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 435998006550 DNA binding site [nucleotide binding] 435998006551 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 435998006552 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 435998006553 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998006554 DNA-binding site [nucleotide binding]; DNA binding site 435998006555 UTRA domain; Region: UTRA; pfam07702 435998006556 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 435998006557 DNA-binding site [nucleotide binding]; DNA binding site 435998006558 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 435998006559 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 435998006560 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998006561 homodimer interface [polypeptide binding]; other site 435998006562 catalytic residue [active] 435998006563 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 435998006564 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998006565 Coenzyme A binding pocket [chemical binding]; other site 435998006566 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 435998006567 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 435998006568 adenylosuccinate lyase; Provisional; Region: PRK09285 435998006569 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 435998006570 tetramer interface [polypeptide binding]; other site 435998006571 active site 435998006572 putative lysogenization regulator; Reviewed; Region: PRK00218 435998006573 K+ potassium transporter; Region: K_trans; cl15781 435998006574 potassium uptake protein; Region: kup; TIGR00794 435998006575 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 435998006576 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 435998006577 Ligand Binding Site [chemical binding]; other site 435998006578 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 435998006579 nudix motif; other site 435998006580 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 435998006581 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 435998006582 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 435998006583 probable active site [active] 435998006584 isocitrate dehydrogenase; Validated; Region: PRK07362 435998006585 isocitrate dehydrogenase; Reviewed; Region: PRK07006 435998006586 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 435998006587 Ligand Binding Site [chemical binding]; other site 435998006588 TolA C-terminal; Region: TolA; pfam06519 435998006589 HNH endonuclease; Region: HNH_2; pfam13391 435998006590 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 435998006591 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 435998006592 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998006593 Coenzyme A binding pocket [chemical binding]; other site 435998006594 Domain of unknown function DUF20; Region: UPF0118; pfam01594 435998006595 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 435998006596 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 435998006597 active site 1 [active] 435998006598 dimer interface [polypeptide binding]; other site 435998006599 hexamer interface [polypeptide binding]; other site 435998006600 active site 2 [active] 435998006601 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 435998006602 classical (c) SDRs; Region: SDR_c; cd05233 435998006603 NAD(P) binding site [chemical binding]; other site 435998006604 active site 435998006605 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998006606 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998006607 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 435998006608 putative effector binding pocket; other site 435998006609 dimerization interface [polypeptide binding]; other site 435998006610 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 435998006611 putative substrate translocation pore; other site 435998006612 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 435998006613 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 435998006614 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998006615 DNA binding site [nucleotide binding] 435998006616 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 435998006617 putative ligand binding site [chemical binding]; other site 435998006618 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 435998006619 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435998006620 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435998006621 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 435998006622 Uncharacterized conserved protein [Function unknown]; Region: COG3791 435998006623 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 435998006624 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 435998006625 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 435998006626 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 435998006627 LysE type translocator; Region: LysE; cl00565 435998006628 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 435998006629 Ligand Binding Site [chemical binding]; other site 435998006630 short chain dehydrogenase; Provisional; Region: PRK06138 435998006631 classical (c) SDRs; Region: SDR_c; cd05233 435998006632 NAD(P) binding site [chemical binding]; other site 435998006633 active site 435998006634 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 435998006635 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 435998006636 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 435998006637 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 435998006638 NAD(P) binding site [chemical binding]; other site 435998006639 catalytic residues [active] 435998006640 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 435998006641 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 435998006642 non-specific DNA binding site [nucleotide binding]; other site 435998006643 salt bridge; other site 435998006644 sequence-specific DNA binding site [nucleotide binding]; other site 435998006645 Cupin domain; Region: Cupin_2; pfam07883 435998006646 gamma-glutamyl-gamma-aminobutyrate hydrolase; Provisional; Region: puuD; PRK11366 435998006647 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 435998006648 catalytic triad [active] 435998006649 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 435998006650 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 435998006651 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 435998006652 aromatic amino acid exporter; Provisional; Region: PRK11689 435998006653 EamA-like transporter family; Region: EamA; cl17759 435998006654 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 435998006655 chorismate mutase; Provisional; Region: PRK08055 435998006656 Beta-lactamase; Region: Beta-lactamase; pfam00144 435998006657 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 435998006658 N-formylglutamate amidohydrolase; Region: FGase; cl01522 435998006659 imidazolonepropionase; Validated; Region: PRK09356 435998006660 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 435998006661 active site 435998006662 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 435998006663 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998006664 DNA-binding site [nucleotide binding]; DNA binding site 435998006665 UTRA domain; Region: UTRA; pfam07702 435998006666 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 435998006667 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 435998006668 active site 435998006669 HutD; Region: HutD; pfam05962 435998006670 Transcriptional regulators [Transcription]; Region: PurR; COG1609 435998006671 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998006672 DNA binding site [nucleotide binding] 435998006673 domain linker motif; other site 435998006674 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 435998006675 putative dimerization interface [polypeptide binding]; other site 435998006676 putative ligand binding site [chemical binding]; other site 435998006677 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 435998006678 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 435998006679 substrate binding [chemical binding]; other site 435998006680 active site 435998006681 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 435998006682 LacY proton/sugar symporter; Region: LacY_symp; pfam01306 435998006683 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 435998006684 putative substrate translocation pore; other site 435998006685 transcriptional regulator; Provisional; Region: PRK10632 435998006686 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998006687 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 435998006688 putative effector binding pocket; other site 435998006689 dimerization interface [polypeptide binding]; other site 435998006690 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 435998006691 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 435998006692 putative substrate translocation pore; other site 435998006693 metabolite-proton symporter; Region: 2A0106; TIGR00883 435998006694 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 435998006695 putative substrate translocation pore; other site 435998006696 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998006697 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998006698 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 435998006699 putative effector binding pocket; other site 435998006700 putative dimerization interface [polypeptide binding]; other site 435998006701 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 435998006702 Cinnamyl alcohol dehydrogenases (CAD) and related proteins; Region: CAD; cd08245 435998006703 NAD binding site [chemical binding]; other site 435998006704 substrate binding site [chemical binding]; other site 435998006705 catalytic Zn binding site [ion binding]; other site 435998006706 structural Zn binding site [ion binding]; other site 435998006707 tetramer interface [polypeptide binding]; other site 435998006708 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 435998006709 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 435998006710 active site 435998006711 substrate-binding site [chemical binding]; other site 435998006712 metal-binding site [ion binding] 435998006713 ATP binding site [chemical binding]; other site 435998006714 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 435998006715 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 435998006716 active site 435998006717 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 435998006718 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 435998006719 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 435998006720 Protein of unknown function (DUF1480); Region: DUF1480; pfam07351 435998006721 Spore Coat Protein U domain; Region: SCPU; pfam05229 435998006722 Uncharacterized secreted protein [Function unknown]; Region: COG5430 435998006723 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 435998006724 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 435998006725 PapC C-terminal domain; Region: PapC_C; pfam13953 435998006726 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 435998006727 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 435998006728 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 435998006729 Spore Coat Protein U domain; Region: SCPU; pfam05229 435998006730 Spore Coat Protein U domain; Region: SCPU; pfam05229 435998006731 Spore Coat Protein U domain; Region: SCPU; pfam05229 435998006732 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 435998006733 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 435998006734 S-adenosylmethionine binding site [chemical binding]; other site 435998006735 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 435998006736 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 435998006737 mce related protein; Region: MCE; pfam02470 435998006738 mce related protein; Region: MCE; pfam02470 435998006739 mce related protein; Region: MCE; pfam02470 435998006740 mce related protein; Region: MCE; pfam02470 435998006741 mce related protein; Region: MCE; pfam02470 435998006742 mce related protein; Region: MCE; pfam02470 435998006743 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 435998006744 Paraquat-inducible protein A; Region: PqiA; pfam04403 435998006745 Paraquat-inducible protein A; Region: PqiA; pfam04403 435998006746 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 435998006747 GAF domain; Region: GAF_2; pfam13185 435998006748 ProP expression regulator; Provisional; Region: PRK04950 435998006749 ProQ/FINO family; Region: ProQ; pfam04352 435998006750 putative RNA binding sites [nucleotide binding]; other site 435998006751 carboxy-terminal protease; Provisional; Region: PRK11186 435998006752 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 435998006753 protein binding site [polypeptide binding]; other site 435998006754 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 435998006755 Catalytic dyad [active] 435998006756 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 435998006757 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 435998006758 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4408 435998006759 Uncharacterized protein conserved in bacteria (DUF2338); Region: DUF2338; pfam10100 435998006760 Nicotianamine synthase protein; Region: NAS; cl17658 435998006761 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 435998006762 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 435998006763 Walker A/P-loop; other site 435998006764 ATP binding site [chemical binding]; other site 435998006765 Q-loop/lid; other site 435998006766 ABC transporter signature motif; other site 435998006767 Walker B; other site 435998006768 D-loop; other site 435998006769 H-loop/switch region; other site 435998006770 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 435998006771 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 435998006772 ABC-ATPase subunit interface; other site 435998006773 dimer interface [polypeptide binding]; other site 435998006774 putative PBP binding regions; other site 435998006775 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 435998006776 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 435998006777 putative ligand binding residues [chemical binding]; other site 435998006778 heat shock protein HtpX; Provisional; Region: PRK05457 435998006779 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 435998006780 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435998006781 putative substrate translocation pore; other site 435998006782 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 435998006783 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 435998006784 Bacterial transcriptional regulator; Region: IclR; pfam01614 435998006785 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 435998006786 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 435998006787 dimer interface [polypeptide binding]; other site 435998006788 conserved gate region; other site 435998006789 putative PBP binding loops; other site 435998006790 ABC-ATPase subunit interface; other site 435998006791 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 435998006792 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 435998006793 dimer interface [polypeptide binding]; other site 435998006794 conserved gate region; other site 435998006795 putative PBP binding loops; other site 435998006796 ABC-ATPase subunit interface; other site 435998006797 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 435998006798 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998006799 Walker A/P-loop; other site 435998006800 ATP binding site [chemical binding]; other site 435998006801 Q-loop/lid; other site 435998006802 ABC transporter signature motif; other site 435998006803 Walker B; other site 435998006804 D-loop; other site 435998006805 H-loop/switch region; other site 435998006806 TOBE domain; Region: TOBE_2; pfam08402 435998006807 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 435998006808 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 435998006809 transcriptional regulator protein; Region: phnR; TIGR03337 435998006810 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998006811 DNA-binding site [nucleotide binding]; DNA binding site 435998006812 UTRA domain; Region: UTRA; pfam07702 435998006813 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 435998006814 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 435998006815 catalytic residue [active] 435998006816 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 435998006817 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 435998006818 motif II; other site 435998006819 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 435998006820 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 435998006821 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 435998006822 inner membrane protein; Provisional; Region: PRK11648 435998006823 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 435998006824 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 435998006825 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 435998006826 motif II; other site 435998006827 YniB-like protein; Region: YniB; pfam14002 435998006828 Fructosamine kinase; Region: Fructosamin_kin; pfam03881 435998006829 Phosphotransferase enzyme family; Region: APH; pfam01636 435998006830 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 435998006831 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 435998006832 ABC-ATPase subunit interface; other site 435998006833 dimer interface [polypeptide binding]; other site 435998006834 putative PBP binding regions; other site 435998006835 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 435998006836 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 435998006837 ABC-ATPase subunit interface; other site 435998006838 dimer interface [polypeptide binding]; other site 435998006839 putative PBP binding regions; other site 435998006840 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 435998006841 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 435998006842 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 435998006843 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 435998006844 metal binding site [ion binding]; metal-binding site 435998006845 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 435998006846 lytic murein endotransglycosylase E; Provisional; Region: emtA; PRK15470 435998006847 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 435998006848 N-acetyl-D-glucosamine binding site [chemical binding]; other site 435998006849 catalytic residue [active] 435998006850 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 435998006851 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 435998006852 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 435998006853 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 435998006854 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 435998006855 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 435998006856 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 435998006857 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 435998006858 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 435998006859 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 435998006860 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 435998006861 intersubunit interface [polypeptide binding]; other site 435998006862 inner membrane protein; Provisional; Region: PRK10995 435998006863 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 435998006864 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 435998006865 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 435998006866 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 435998006867 active site 435998006868 dimer interface [polypeptide binding]; other site 435998006869 motif 1; other site 435998006870 motif 2; other site 435998006871 motif 3; other site 435998006872 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 435998006873 anticodon binding site; other site 435998006874 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 435998006875 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 435998006876 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 435998006877 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 435998006878 23S rRNA binding site [nucleotide binding]; other site 435998006879 L21 binding site [polypeptide binding]; other site 435998006880 L13 binding site [polypeptide binding]; other site 435998006881 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 435998006882 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 435998006883 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 435998006884 dimer interface [polypeptide binding]; other site 435998006885 motif 1; other site 435998006886 active site 435998006887 motif 2; other site 435998006888 motif 3; other site 435998006889 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 435998006890 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 435998006891 putative tRNA-binding site [nucleotide binding]; other site 435998006892 B3/4 domain; Region: B3_4; pfam03483 435998006893 tRNA synthetase B5 domain; Region: B5; smart00874 435998006894 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 435998006895 dimer interface [polypeptide binding]; other site 435998006896 motif 1; other site 435998006897 motif 3; other site 435998006898 motif 2; other site 435998006899 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 435998006900 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 435998006901 IHF dimer interface [polypeptide binding]; other site 435998006902 IHF - DNA interface [nucleotide binding]; other site 435998006903 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 435998006904 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 435998006905 dimer interface [polypeptide binding]; other site 435998006906 putative PBP binding regions; other site 435998006907 ABC-ATPase subunit interface; other site 435998006908 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 435998006909 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 435998006910 catalytic residues [active] 435998006911 dimer interface [polypeptide binding]; other site 435998006912 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 435998006913 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 435998006914 Walker A/P-loop; other site 435998006915 ATP binding site [chemical binding]; other site 435998006916 Q-loop/lid; other site 435998006917 ABC transporter signature motif; other site 435998006918 Walker B; other site 435998006919 D-loop; other site 435998006920 H-loop/switch region; other site 435998006921 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 435998006922 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 435998006923 inhibitor-cofactor binding pocket; inhibition site 435998006924 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998006925 catalytic residue [active] 435998006926 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 435998006927 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 435998006928 Ligand binding site; other site 435998006929 Putative Catalytic site; other site 435998006930 DXD motif; other site 435998006931 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 435998006932 ArnA, N-terminal formyltransferase domain; Region: FMT_core_ArnA_N; cd08644 435998006933 substrate binding site [chemical binding]; other site 435998006934 cosubstrate binding site; other site 435998006935 catalytic site [active] 435998006936 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 435998006937 active site 435998006938 hexamer interface [polypeptide binding]; other site 435998006939 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 435998006940 NAD binding site [chemical binding]; other site 435998006941 substrate binding site [chemical binding]; other site 435998006942 active site 435998006943 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 435998006944 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 435998006945 putative active site [active] 435998006946 putative catalytic site [active] 435998006947 putative Zn binding site [ion binding]; other site 435998006948 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 435998006949 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 435998006950 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 435998006951 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 435998006952 NlpC/P60 family; Region: NLPC_P60; pfam00877 435998006953 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 435998006954 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 435998006955 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 435998006956 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 435998006957 Uncharacterized conserved protein [Function unknown]; Region: COG0397 435998006958 hypothetical protein; Validated; Region: PRK00029 435998006959 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 435998006960 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 435998006961 Walker A/P-loop; other site 435998006962 ATP binding site [chemical binding]; other site 435998006963 Q-loop/lid; other site 435998006964 ABC transporter signature motif; other site 435998006965 Walker B; other site 435998006966 D-loop; other site 435998006967 H-loop/switch region; other site 435998006968 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 435998006969 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 435998006970 ABC-ATPase subunit interface; other site 435998006971 dimer interface [polypeptide binding]; other site 435998006972 putative PBP binding regions; other site 435998006973 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 435998006974 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 435998006975 putative hemin binding site; other site 435998006976 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 435998006977 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 435998006978 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 435998006979 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 435998006980 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 435998006981 N-terminal plug; other site 435998006982 ligand-binding site [chemical binding]; other site 435998006983 Hemin uptake protein hemP; Region: hemP; pfam10636 435998006984 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 435998006985 catalytic residues [active] 435998006986 dimer interface [polypeptide binding]; other site 435998006987 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 435998006988 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 435998006989 PEP synthetase regulatory protein; Provisional; Region: PRK05339 435998006990 phosphoenolpyruvate synthase; Validated; Region: PRK06464 435998006991 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 435998006992 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 435998006993 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 435998006994 putative inner membrane protein; Provisional; Region: PRK10983 435998006995 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 435998006996 FAD binding domain; Region: FAD_binding_4; pfam01565 435998006997 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 435998006998 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 435998006999 CoenzymeA binding site [chemical binding]; other site 435998007000 subunit interaction site [polypeptide binding]; other site 435998007001 PHB binding site; other site 435998007002 iron-sulfur cluster assembly scaffold protein; Provisional; Region: sufA; PRK09504 435998007003 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 435998007004 putative ABC transporter; Region: ycf24; CHL00085 435998007005 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 435998007006 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 435998007007 Walker A/P-loop; other site 435998007008 ATP binding site [chemical binding]; other site 435998007009 Q-loop/lid; other site 435998007010 ABC transporter signature motif; other site 435998007011 Walker B; other site 435998007012 D-loop; other site 435998007013 H-loop/switch region; other site 435998007014 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 435998007015 FeS assembly protein SufD; Region: sufD; TIGR01981 435998007016 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 435998007017 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 435998007018 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 435998007019 catalytic residue [active] 435998007020 cysteine desufuration protein SufE; Provisional; Region: PRK09296 435998007021 L,D-transpeptidase; Provisional; Region: PRK10190 435998007022 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 435998007023 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 435998007024 murein lipoprotein; Provisional; Region: PRK15396 435998007025 pyruvate kinase; Provisional; Region: PRK09206 435998007026 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; cd00288 435998007027 domain interfaces; other site 435998007028 active site 435998007029 Cupin domain; Region: Cupin_2; cl17218 435998007030 multidrug efflux protein; Reviewed; Region: PRK01766 435998007031 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 435998007032 cation binding site [ion binding]; other site 435998007033 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 435998007034 Lumazine binding domain; Region: Lum_binding; pfam00677 435998007035 Lumazine binding domain; Region: Lum_binding; pfam00677 435998007036 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 435998007037 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 435998007038 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 435998007039 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 435998007040 S-adenosylmethionine binding site [chemical binding]; other site 435998007041 putative transporter; Provisional; Region: PRK11043 435998007042 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 435998007043 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 435998007044 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998007045 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 435998007046 dimerization interface [polypeptide binding]; other site 435998007047 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 435998007048 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998007049 DNA binding site [nucleotide binding] 435998007050 domain linker motif; other site 435998007051 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 435998007052 dimerization interface [polypeptide binding]; other site 435998007053 ligand binding site [chemical binding]; other site 435998007054 superoxide dismutase; Provisional; Region: PRK10543 435998007055 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 435998007056 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 435998007057 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 435998007058 NlpC/P60 family; Region: NLPC_P60; pfam00877 435998007059 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 435998007060 putative GSH binding site [chemical binding]; other site 435998007061 catalytic residues [active] 435998007062 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 435998007063 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 435998007064 dimer interface [polypeptide binding]; other site 435998007065 catalytic site [active] 435998007066 putative active site [active] 435998007067 putative substrate binding site [chemical binding]; other site 435998007068 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 435998007069 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 435998007070 dimer interface [polypeptide binding]; other site 435998007071 active site 435998007072 metal binding site [ion binding]; metal-binding site 435998007073 glutathione binding site [chemical binding]; other site 435998007074 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 435998007075 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 435998007076 FMN binding site [chemical binding]; other site 435998007077 active site 435998007078 substrate binding site [chemical binding]; other site 435998007079 catalytic residue [active] 435998007080 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 435998007081 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 435998007082 putative metal dependent hydrolase; Provisional; Region: PRK11598 435998007083 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 435998007084 Sulfatase; Region: Sulfatase; pfam00884 435998007085 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 435998007086 NADH(P)-binding; Region: NAD_binding_10; pfam13460 435998007087 NAD binding site [chemical binding]; other site 435998007088 substrate binding site [chemical binding]; other site 435998007089 putative active site [active] 435998007090 transcriptional regulator; Provisional; Region: PRK10632 435998007091 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998007092 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 435998007093 putative effector binding pocket; other site 435998007094 dimerization interface [polypeptide binding]; other site 435998007095 Predicted Fe-S protein [General function prediction only]; Region: COG3313 435998007096 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 435998007097 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 435998007098 active site 435998007099 catalytic tetrad [active] 435998007100 Lipase (class 3); Region: Lipase_3; pfam01764 435998007101 nucleophilic elbow; other site 435998007102 catalytic triad; other site 435998007103 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 435998007104 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 435998007105 E-class dimer interface [polypeptide binding]; other site 435998007106 P-class dimer interface [polypeptide binding]; other site 435998007107 active site 435998007108 Cu2+ binding site [ion binding]; other site 435998007109 Zn2+ binding site [ion binding]; other site 435998007110 Fusaric acid resistance protein family; Region: FUSC; pfam04632 435998007111 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 435998007112 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 435998007113 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435998007114 HlyD family secretion protein; Region: HlyD_3; pfam13437 435998007115 transcriptional regulator SlyA; Provisional; Region: PRK03573 435998007116 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 435998007117 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 435998007118 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 435998007119 lysozyme inhibitor; Provisional; Region: PRK11372 435998007120 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 435998007121 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 435998007122 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 435998007123 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 435998007124 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 435998007125 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 435998007126 active site 435998007127 HIGH motif; other site 435998007128 dimer interface [polypeptide binding]; other site 435998007129 KMSKS motif; other site 435998007130 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 435998007131 RNA binding surface [nucleotide binding]; other site 435998007132 pyridoxamine kinase; Validated; Region: PRK05756 435998007133 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 435998007134 dimer interface [polypeptide binding]; other site 435998007135 pyridoxal binding site [chemical binding]; other site 435998007136 ATP binding site [chemical binding]; other site 435998007137 glutathionine S-transferase; Provisional; Region: PRK10542 435998007138 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 435998007139 C-terminal domain interface [polypeptide binding]; other site 435998007140 GSH binding site (G-site) [chemical binding]; other site 435998007141 dimer interface [polypeptide binding]; other site 435998007142 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 435998007143 dimer interface [polypeptide binding]; other site 435998007144 N-terminal domain interface [polypeptide binding]; other site 435998007145 substrate binding pocket (H-site) [chemical binding]; other site 435998007146 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 435998007147 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 435998007148 dimer interface [polypeptide binding]; other site 435998007149 active site 435998007150 catalytic residue [active] 435998007151 YjbD family (DUF3811); Region: DUF3811; cl08125 435998007152 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 435998007153 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 435998007154 Zn2+ binding site [ion binding]; other site 435998007155 Mg2+ binding site [ion binding]; other site 435998007156 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 435998007157 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 435998007158 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 435998007159 homotrimer interaction site [polypeptide binding]; other site 435998007160 putative active site [active] 435998007161 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 435998007162 Cupin domain; Region: Cupin_2; cl17218 435998007163 benzoate transporter; Region: benE; TIGR00843 435998007164 Benzoate membrane transport protein; Region: BenE; pfam03594 435998007165 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 435998007166 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 435998007167 non-specific DNA binding site [nucleotide binding]; other site 435998007168 salt bridge; other site 435998007169 sequence-specific DNA binding site [nucleotide binding]; other site 435998007170 Cupin domain; Region: Cupin_2; pfam07883 435998007171 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 435998007172 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435998007173 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 435998007174 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 435998007175 putative substrate translocation pore; other site 435998007176 POT family; Region: PTR2; pfam00854 435998007177 endonuclease III; Provisional; Region: PRK10702 435998007178 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 435998007179 minor groove reading motif; other site 435998007180 helix-hairpin-helix signature motif; other site 435998007181 substrate binding pocket [chemical binding]; other site 435998007182 active site 435998007183 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 435998007184 electron transport complex RsxE subunit; Provisional; Region: PRK12405 435998007185 electron transport complex protein RnfG; Validated; Region: PRK01908 435998007186 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 435998007187 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 435998007188 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998007189 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 435998007190 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 435998007191 SLBB domain; Region: SLBB; pfam10531 435998007192 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 435998007193 ferredoxin; Provisional; Region: PRK08764 435998007194 Putative Fe-S cluster; Region: FeS; cl17515 435998007195 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 435998007196 electron transport complex protein RsxA; Provisional; Region: PRK05151 435998007197 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 435998007198 putative oxidoreductase; Provisional; Region: PRK11579 435998007199 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435998007200 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 435998007201 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 435998007202 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 435998007203 Predicted ATPase [General function prediction only]; Region: COG3911 435998007204 AAA domain; Region: AAA_28; pfam13521 435998007205 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 435998007206 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 435998007207 active site 435998007208 purine riboside binding site [chemical binding]; other site 435998007209 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 435998007210 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 435998007211 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 435998007212 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 435998007213 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 435998007214 dimer interface [polypeptide binding]; other site 435998007215 ADP-ribose binding site [chemical binding]; other site 435998007216 active site 435998007217 nudix motif; other site 435998007218 metal binding site [ion binding]; metal-binding site 435998007219 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 435998007220 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 435998007221 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998007222 homodimer interface [polypeptide binding]; other site 435998007223 catalytic residue [active] 435998007224 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 435998007225 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 435998007226 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 435998007227 active site turn [active] 435998007228 phosphorylation site [posttranslational modification] 435998007229 DNA-binding transcriptional repressor MalI; Provisional; Region: PRK10014 435998007230 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998007231 DNA binding site [nucleotide binding] 435998007232 domain linker motif; other site 435998007233 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 435998007234 putative dimerization interface [polypeptide binding]; other site 435998007235 putative ligand binding site [chemical binding]; other site 435998007236 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 435998007237 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998007238 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 435998007239 dimerization interface [polypeptide binding]; other site 435998007240 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 435998007241 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 435998007242 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998007243 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998007244 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 435998007245 putative effector binding pocket; other site 435998007246 putative dimerization interface [polypeptide binding]; other site 435998007247 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 435998007248 Beta-lactamase; Region: Beta-lactamase; pfam00144 435998007249 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 435998007250 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 435998007251 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 435998007252 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 435998007253 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 435998007254 fumarate hydratase; Reviewed; Region: fumC; PRK00485 435998007255 Class II fumarases; Region: Fumarase_classII; cd01362 435998007256 active site 435998007257 tetramer interface [polypeptide binding]; other site 435998007258 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 435998007259 putative catalytic residues [active] 435998007260 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998007261 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998007262 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 435998007263 putative effector binding pocket; other site 435998007264 dimerization interface [polypeptide binding]; other site 435998007265 Predicted transcriptional regulator [Transcription]; Region: COG2378 435998007266 HTH domain; Region: HTH_11; pfam08279 435998007267 WYL domain; Region: WYL; pfam13280 435998007268 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_11; cd07261 435998007269 putative dimer interface [polypeptide binding]; other site 435998007270 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 435998007271 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 435998007272 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 435998007273 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 435998007274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 435998007275 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 435998007276 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 435998007277 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 435998007278 putative substrate translocation pore; other site 435998007279 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 435998007280 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998007281 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 435998007282 dimerization interface [polypeptide binding]; other site 435998007283 substrate binding pocket [chemical binding]; other site 435998007284 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 435998007285 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 435998007286 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 435998007287 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 435998007288 AAA domain; Region: AAA_26; pfam13500 435998007289 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 435998007290 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 435998007291 DNA binding residues [nucleotide binding] 435998007292 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 435998007293 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 435998007294 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 435998007295 Cl- selectivity filter; other site 435998007296 Cl- binding residues [ion binding]; other site 435998007297 pore gating glutamate residue; other site 435998007298 dimer interface [polypeptide binding]; other site 435998007299 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 435998007300 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 435998007301 Walker A/P-loop; other site 435998007302 ATP binding site [chemical binding]; other site 435998007303 Q-loop/lid; other site 435998007304 ABC transporter signature motif; other site 435998007305 Walker B; other site 435998007306 D-loop; other site 435998007307 H-loop/switch region; other site 435998007308 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc; cd04582 435998007309 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 435998007310 dimer interface [polypeptide binding]; other site 435998007311 conserved gate region; other site 435998007312 ABC-ATPase subunit interface; other site 435998007313 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 435998007314 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 435998007315 ABC-ATPase subunit interface; other site 435998007316 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 435998007317 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435998007318 putative substrate translocation pore; other site 435998007319 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 435998007320 Protein of unknown function (DUF1283); Region: DUF1283; cl11644 435998007321 hypothetical protein; Provisional; Region: PRK02237 435998007322 malonic semialdehyde reductase; Provisional; Region: PRK10538 435998007323 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 435998007324 putative NAD(P) binding site [chemical binding]; other site 435998007325 homodimer interface [polypeptide binding]; other site 435998007326 homotetramer interface [polypeptide binding]; other site 435998007327 active site 435998007328 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 435998007329 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 435998007330 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 435998007331 Secretin and TonB N terminus short domain; Region: STN; smart00965 435998007332 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 435998007333 N-terminal plug; other site 435998007334 ligand-binding site [chemical binding]; other site 435998007335 fec operon regulator FecR; Reviewed; Region: PRK09774 435998007336 FecR protein; Region: FecR; pfam04773 435998007337 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 435998007338 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435998007339 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 435998007340 DNA binding residues [nucleotide binding] 435998007341 guanine deaminase; Provisional; Region: PRK09228 435998007342 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 435998007343 active site 435998007344 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 435998007345 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 435998007346 active site 435998007347 Zn binding site [ion binding]; other site 435998007348 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 435998007349 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 435998007350 putative substrate translocation pore; other site 435998007351 Isochorismatase family; Region: Isochorismatase; pfam00857 435998007352 N-carbamoylsarcosine amidohydrolase (CSHase) hydrolyzes N-carbamoylsarcosine to sarcosine, carbon dioxide and ammonia. CSHase is involved in one of the two alternative pathways for creatinine degradation to glycine in microorganisms.This...; Region: CSHase; cd01015 435998007353 catalytic triad [active] 435998007354 substrate binding site [chemical binding]; other site 435998007355 domain interfaces; other site 435998007356 conserved cis-peptide bond; other site 435998007357 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 435998007358 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 435998007359 hypothetical protein; Provisional; Region: PRK06847 435998007360 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 435998007361 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 435998007362 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 435998007363 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 435998007364 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 435998007365 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 435998007366 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 435998007367 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 435998007368 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 435998007369 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 435998007370 Cytochrome c; Region: Cytochrom_C; pfam00034 435998007371 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 435998007372 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 435998007373 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 435998007374 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998007375 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998007376 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 435998007377 putative dimerization interface [polypeptide binding]; other site 435998007378 HlyD family secretion protein; Region: HlyD; pfam00529 435998007379 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435998007380 HlyD family secretion protein; Region: HlyD_3; pfam13437 435998007381 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 435998007382 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 435998007383 putative active site [active] 435998007384 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 435998007385 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998007386 Walker A/P-loop; other site 435998007387 ATP binding site [chemical binding]; other site 435998007388 Q-loop/lid; other site 435998007389 ABC transporter signature motif; other site 435998007390 Walker B; other site 435998007391 D-loop; other site 435998007392 H-loop/switch region; other site 435998007393 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 435998007394 homodimer interface [polypeptide binding]; other site 435998007395 homotetramer interface [polypeptide binding]; other site 435998007396 active site pocket [active] 435998007397 cleavage site 435998007398 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 435998007399 SxDxEG motif; other site 435998007400 active site 435998007401 metal binding site [ion binding]; metal-binding site 435998007402 homopentamer interface [polypeptide binding]; other site 435998007403 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 435998007404 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 435998007405 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 435998007406 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 435998007407 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 435998007408 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 435998007409 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 435998007410 catalytic loop [active] 435998007411 iron binding site [ion binding]; other site 435998007412 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 435998007413 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 435998007414 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 435998007415 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 435998007416 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 435998007417 Cupin; Region: Cupin_1; smart00835 435998007418 Cupin; Region: Cupin_1; smart00835 435998007419 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 435998007420 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998007421 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 435998007422 putative dimerization interface [polypeptide binding]; other site 435998007423 putative substrate binding pocket [chemical binding]; other site 435998007424 Chromate transporter; Region: Chromate_transp; pfam02417 435998007425 Chromate transporter; Region: Chromate_transp; pfam02417 435998007426 Protease inhibitor Inh; Region: Inh; pfam02974 435998007427 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 435998007428 active site 435998007429 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 435998007430 RibD C-terminal domain; Region: RibD_C; cl17279 435998007431 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 435998007432 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 435998007433 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 435998007434 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 435998007435 PAAR motif; Region: PAAR_motif; pfam05488 435998007436 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 435998007437 RHS Repeat; Region: RHS_repeat; pfam05593 435998007438 RHS Repeat; Region: RHS_repeat; pfam05593 435998007439 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 435998007440 RHS Repeat; Region: RHS_repeat; pfam05593 435998007441 RHS Repeat; Region: RHS_repeat; cl11982 435998007442 RHS protein; Region: RHS; pfam03527 435998007443 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 435998007444 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 435998007445 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 435998007446 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 435998007447 EamA-like transporter family; Region: EamA; pfam00892 435998007448 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 435998007449 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998007450 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 435998007451 active site 435998007452 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 435998007453 drug efflux system protein MdtG; Provisional; Region: PRK09874 435998007454 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 435998007455 putative substrate translocation pore; other site 435998007456 Isochorismatase family; Region: Isochorismatase; pfam00857 435998007457 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 435998007458 catalytic triad [active] 435998007459 conserved cis-peptide bond; other site 435998007460 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 435998007461 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 435998007462 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 435998007463 penicillin-binding protein 2; Provisional; Region: PRK10795 435998007464 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 435998007465 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 435998007466 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 435998007467 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 435998007468 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 435998007469 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 435998007470 hydrophobic ligand binding site; other site 435998007471 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 435998007472 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 435998007473 dimer interface [polypeptide binding]; other site 435998007474 ligand binding site [chemical binding]; other site 435998007475 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 435998007476 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 435998007477 dimer interface [polypeptide binding]; other site 435998007478 putative CheW interface [polypeptide binding]; other site 435998007479 lipoprotein; Provisional; Region: PRK10540 435998007480 Domain of unknown function (DUF427); Region: DUF427; pfam04248 435998007481 Predicted transcriptional regulator [Transcription]; Region: COG1959 435998007482 Transcriptional regulator; Region: Rrf2; pfam02082 435998007483 Transcriptional regulator; Region: Rrf2; cl17282 435998007484 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 435998007485 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 435998007486 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 435998007487 Walker A/P-loop; other site 435998007488 ATP binding site [chemical binding]; other site 435998007489 Q-loop/lid; other site 435998007490 ABC transporter signature motif; other site 435998007491 Walker B; other site 435998007492 D-loop; other site 435998007493 H-loop/switch region; other site 435998007494 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 435998007495 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 435998007496 dimer interface [polypeptide binding]; other site 435998007497 conserved gate region; other site 435998007498 putative PBP binding loops; other site 435998007499 ABC-ATPase subunit interface; other site 435998007500 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 435998007501 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 435998007502 substrate binding pocket [chemical binding]; other site 435998007503 membrane-bound complex binding site; other site 435998007504 hinge residues; other site 435998007505 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 435998007506 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 435998007507 active site 435998007508 non-prolyl cis peptide bond; other site 435998007509 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 435998007510 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998007511 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998007512 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_7; cd08476 435998007513 putative effector binding pocket; other site 435998007514 putative dimerization interface [polypeptide binding]; other site 435998007515 Beta-lactamase; Region: Beta-lactamase; pfam00144 435998007516 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 435998007517 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 435998007518 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 435998007519 putative substrate translocation pore; other site 435998007520 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 435998007521 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 435998007522 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435998007523 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 435998007524 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 435998007525 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 435998007526 putative oxidoreductase; Provisional; Region: PRK11579 435998007527 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435998007528 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 435998007529 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 435998007530 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 435998007531 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 435998007532 RibD C-terminal domain; Region: RibD_C; cl17279 435998007533 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 435998007534 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 435998007535 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 435998007536 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 435998007537 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 435998007538 hypothetical protein; Provisional; Region: PRK05208 435998007539 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 435998007540 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 435998007541 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998007542 transcriptional regulator, ArgP family; Region: argP; TIGR03298 435998007543 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 435998007544 putative effector binding pocket; other site 435998007545 dimerization interface [polypeptide binding]; other site 435998007546 Rdx family; Region: Rdx; cl01407 435998007547 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 435998007548 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 435998007549 Putative phosphatase (DUF442); Region: DUF442; cl17385 435998007550 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 435998007551 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 435998007552 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 435998007553 NAD binding site [chemical binding]; other site 435998007554 substrate binding site [chemical binding]; other site 435998007555 catalytic Zn binding site [ion binding]; other site 435998007556 tetramer interface [polypeptide binding]; other site 435998007557 structural Zn binding site [ion binding]; other site 435998007558 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 435998007559 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 435998007560 NAD(P) binding site [chemical binding]; other site 435998007561 catalytic residues [active] 435998007562 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 435998007563 GAF domain; Region: GAF; pfam01590 435998007564 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998007565 Walker A motif; other site 435998007566 ATP binding site [chemical binding]; other site 435998007567 Walker B motif; other site 435998007568 arginine finger; other site 435998007569 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 435998007570 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 435998007571 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 435998007572 substrate binding pocket [chemical binding]; other site 435998007573 membrane-bound complex binding site; other site 435998007574 hinge residues; other site 435998007575 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435998007576 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 435998007577 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 435998007578 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 435998007579 FeS/SAM binding site; other site 435998007580 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 435998007581 PAS fold; Region: PAS_3; pfam08447 435998007582 putative active site [active] 435998007583 heme pocket [chemical binding]; other site 435998007584 PAS fold; Region: PAS_4; pfam08448 435998007585 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 435998007586 putative active site [active] 435998007587 heme pocket [chemical binding]; other site 435998007588 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 435998007589 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 435998007590 metal binding site [ion binding]; metal-binding site 435998007591 active site 435998007592 I-site; other site 435998007593 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 435998007594 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 435998007595 active site 435998007596 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 435998007597 Protease inhibitor Inh; Region: Inh; pfam02974 435998007598 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 435998007599 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 435998007600 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 435998007601 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 435998007602 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 435998007603 FeS/SAM binding site; other site 435998007604 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 435998007605 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 435998007606 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 435998007607 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 435998007608 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 435998007609 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 435998007610 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 435998007611 active site 435998007612 dimer interface [polypeptide binding]; other site 435998007613 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998007614 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998007615 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_1; cd08460 435998007616 putative substrate binding pocket [chemical binding]; other site 435998007617 putative dimerization interface [polypeptide binding]; other site 435998007618 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 435998007619 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998007620 catalytic residue [active] 435998007621 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 435998007622 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 435998007623 inhibitor-cofactor binding pocket; inhibition site 435998007624 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998007625 catalytic residue [active] 435998007626 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 435998007627 Old yellow enzyme (OYE)-related FMN binding domain, group 2. 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_2_FMN; cd04733 435998007628 putative active site [active] 435998007629 putative FMN binding site [chemical binding]; other site 435998007630 putative substrate binding site [chemical binding]; other site 435998007631 putative catalytic residue [active] 435998007632 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 435998007633 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 435998007634 DNA binding residues [nucleotide binding] 435998007635 enolase; Provisional; Region: eno; PRK00077 435998007636 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 435998007637 dimer interface [polypeptide binding]; other site 435998007638 metal binding site [ion binding]; metal-binding site 435998007639 substrate binding pocket [chemical binding]; other site 435998007640 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 435998007641 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 435998007642 DHH family; Region: DHH; pfam01368 435998007643 DHHA2 domain; Region: DHHA2; pfam02833 435998007644 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 435998007645 GAF domain; Region: GAF; pfam01590 435998007646 PAS domain S-box; Region: sensory_box; TIGR00229 435998007647 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 435998007648 putative active site [active] 435998007649 heme pocket [chemical binding]; other site 435998007650 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 435998007651 PAS fold; Region: PAS_4; pfam08448 435998007652 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 435998007653 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 435998007654 metal binding site [ion binding]; metal-binding site 435998007655 active site 435998007656 I-site; other site 435998007657 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 435998007658 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 435998007659 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998007660 Protein of unknown function (DUF2000); Region: DUF2000; pfam09391 435998007661 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 435998007662 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998007663 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 435998007664 dimerization interface [polypeptide binding]; other site 435998007665 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 435998007666 benzoate transport; Region: 2A0115; TIGR00895 435998007667 putative substrate translocation pore; other site 435998007668 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 435998007669 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 435998007670 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 435998007671 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 435998007672 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 435998007673 PLD-like domain; Region: PLDc_2; pfam13091 435998007674 putative active site [active] 435998007675 catalytic site [active] 435998007676 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 435998007677 PLD-like domain; Region: PLDc_2; pfam13091 435998007678 putative active site [active] 435998007679 catalytic site [active] 435998007680 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 435998007681 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 435998007682 tetramer interface [polypeptide binding]; other site 435998007683 catalytic Zn binding site [ion binding]; other site 435998007684 NADP binding site [chemical binding]; other site 435998007685 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 435998007686 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435998007687 HlyD family secretion protein; Region: HlyD_3; pfam13437 435998007688 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 435998007689 Fusaric acid resistance protein family; Region: FUSC; pfam04632 435998007690 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 435998007691 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 435998007692 MarR family; Region: MarR; pfam01047 435998007693 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 435998007694 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 435998007695 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435998007696 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435998007697 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 435998007698 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 435998007699 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 435998007700 putative ligand binding site [chemical binding]; other site 435998007701 Transcriptional regulators [Transcription]; Region: PurR; COG1609 435998007702 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998007703 DNA binding site [nucleotide binding] 435998007704 domain linker motif; other site 435998007705 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 435998007706 putative dimerization interface [polypeptide binding]; other site 435998007707 putative ligand binding site [chemical binding]; other site 435998007708 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 435998007709 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 435998007710 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 435998007711 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 435998007712 putative deacylase active site [active] 435998007713 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 435998007714 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 435998007715 Methyltransferase domain; Region: Methyltransf_23; pfam13489 435998007716 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 435998007717 S-adenosylmethionine binding site [chemical binding]; other site 435998007718 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 435998007719 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 435998007720 N-terminal plug; other site 435998007721 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 435998007722 ligand-binding site [chemical binding]; other site 435998007723 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998007724 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998007725 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 435998007726 putative substrate binding pocket [chemical binding]; other site 435998007727 putative dimerization interface [polypeptide binding]; other site 435998007728 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 435998007729 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 435998007730 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 435998007731 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 435998007732 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 435998007733 Walker A/P-loop; other site 435998007734 ATP binding site [chemical binding]; other site 435998007735 Q-loop/lid; other site 435998007736 ABC transporter signature motif; other site 435998007737 Walker B; other site 435998007738 D-loop; other site 435998007739 H-loop/switch region; other site 435998007740 Fic/DOC family; Region: Fic; pfam02661 435998007741 Predicted transcriptional regulators [Transcription]; Region: COG1733 435998007742 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 435998007743 enterobactin exporter EntS; Provisional; Region: PRK10489 435998007744 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 435998007745 Condensation domain; Region: Condensation; pfam00668 435998007746 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 435998007747 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 435998007748 acyl-activating enzyme (AAE) consensus motif; other site 435998007749 AMP binding site [chemical binding]; other site 435998007750 Condensation domain; Region: Condensation; pfam00668 435998007751 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 435998007752 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 435998007753 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 435998007754 acyl-activating enzyme (AAE) consensus motif; other site 435998007755 AMP binding site [chemical binding]; other site 435998007756 MbtH-like protein; Region: MbtH; pfam03621 435998007757 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 435998007758 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 435998007759 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 435998007760 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 435998007761 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 435998007762 N-terminal plug; other site 435998007763 ligand-binding site [chemical binding]; other site 435998007764 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 435998007765 YheO-like PAS domain; Region: PAS_6; pfam08348 435998007766 HTH domain; Region: HTH_22; pfam13309 435998007767 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 435998007768 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 435998007769 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 435998007770 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 435998007771 NAD(P) binding site [chemical binding]; other site 435998007772 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 435998007773 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 435998007774 acyl-activating enzyme (AAE) consensus motif; other site 435998007775 putative AMP binding site [chemical binding]; other site 435998007776 putative active site [active] 435998007777 putative CoA binding site [chemical binding]; other site 435998007778 intracellular protease, PfpI family; Region: PfpI; TIGR01382 435998007779 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 435998007780 conserved cys residue [active] 435998007781 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 435998007782 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 435998007783 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 435998007784 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 435998007785 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435998007786 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435998007787 HlyD family secretion protein; Region: HlyD_3; pfam13437 435998007788 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 435998007789 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435998007790 putative substrate translocation pore; other site 435998007791 Transcriptional regulator [Transcription]; Region: IclR; COG1414 435998007792 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 435998007793 Bacterial transcriptional regulator; Region: IclR; pfam01614 435998007794 Methyltransferase domain; Region: Methyltransf_23; pfam13489 435998007795 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 435998007796 S-adenosylmethionine binding site [chemical binding]; other site 435998007797 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 435998007798 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 435998007799 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 435998007800 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998007801 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 435998007802 dimerization interface [polypeptide binding]; other site 435998007803 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 435998007804 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 435998007805 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 435998007806 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 435998007807 putative molybdopterin cofactor binding site [chemical binding]; other site 435998007808 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 435998007809 putative molybdopterin cofactor binding site; other site 435998007810 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 435998007811 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 435998007812 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 435998007813 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 435998007814 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 435998007815 non-specific DNA binding site [nucleotide binding]; other site 435998007816 salt bridge; other site 435998007817 sequence-specific DNA binding site [nucleotide binding]; other site 435998007818 Cupin domain; Region: Cupin_2; cl17218 435998007819 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 435998007820 dimer interface [polypeptide binding]; other site 435998007821 FMN binding site [chemical binding]; other site 435998007822 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 435998007823 Cytochrome c; Region: Cytochrom_C; pfam00034 435998007824 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 435998007825 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 435998007826 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 435998007827 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 435998007828 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 435998007829 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 435998007830 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2; pfam00111 435998007831 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 435998007832 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 435998007833 tetracycline repressor protein TetR; Provisional; Region: PRK13756 435998007834 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 435998007835 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 435998007836 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 435998007837 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435998007838 putative substrate translocation pore; other site 435998007839 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 435998007840 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 435998007841 substrate binding pocket [chemical binding]; other site 435998007842 membrane-bound complex binding site; other site 435998007843 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 435998007844 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 435998007845 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 435998007846 putative active site [active] 435998007847 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 435998007848 beta-galactosidase; Region: BGL; TIGR03356 435998007849 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 435998007850 hypothetical protein; Provisional; Region: PRK06815 435998007851 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 435998007852 catalytic residue [active] 435998007853 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 435998007854 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 435998007855 dimer interface [polypeptide binding]; other site 435998007856 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 435998007857 MASE1; Region: MASE1; cl17823 435998007858 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 435998007859 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 435998007860 metal binding site [ion binding]; metal-binding site 435998007861 active site 435998007862 I-site; other site 435998007863 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 435998007864 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998007865 Coenzyme A binding pocket [chemical binding]; other site 435998007866 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 435998007867 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 435998007868 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 435998007869 Mechanosensitive ion channel; Region: MS_channel; pfam00924 435998007870 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 435998007871 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435998007872 ABC transporter; Region: ABC_tran_2; pfam12848 435998007873 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435998007874 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 435998007875 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 435998007876 active site 435998007877 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 435998007878 Cation efflux family; Region: Cation_efflux; cl00316 435998007879 Cation efflux family; Region: Cation_efflux; cl00316 435998007880 FOG: CBS domain [General function prediction only]; Region: COG0517 435998007881 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 435998007882 Divalent cation transporter; Region: MgtE; pfam01769 435998007883 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 435998007884 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 435998007885 peptide binding site [polypeptide binding]; other site 435998007886 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 435998007887 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 435998007888 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 435998007889 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 435998007890 dimer interface [polypeptide binding]; other site 435998007891 conserved gate region; other site 435998007892 putative PBP binding loops; other site 435998007893 ABC-ATPase subunit interface; other site 435998007894 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 435998007895 dimer interface [polypeptide binding]; other site 435998007896 conserved gate region; other site 435998007897 putative PBP binding loops; other site 435998007898 ABC-ATPase subunit interface; other site 435998007899 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 435998007900 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 435998007901 Walker A/P-loop; other site 435998007902 ATP binding site [chemical binding]; other site 435998007903 Q-loop/lid; other site 435998007904 ABC transporter signature motif; other site 435998007905 Walker B; other site 435998007906 D-loop; other site 435998007907 H-loop/switch region; other site 435998007908 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 435998007909 TAP-like protein; Region: Abhydrolase_4; pfam08386 435998007910 CsbD-like; Region: CsbD; cl17424 435998007911 elongation factor G; Reviewed; Region: PRK00007 435998007912 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 435998007913 G1 box; other site 435998007914 putative GEF interaction site [polypeptide binding]; other site 435998007915 GTP/Mg2+ binding site [chemical binding]; other site 435998007916 Switch I region; other site 435998007917 G2 box; other site 435998007918 G3 box; other site 435998007919 Switch II region; other site 435998007920 G4 box; other site 435998007921 G5 box; other site 435998007922 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 435998007923 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 435998007924 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 435998007925 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 435998007926 EamA-like transporter family; Region: EamA; pfam00892 435998007927 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 435998007928 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 435998007929 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998007930 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 435998007931 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 435998007932 tetramerization interface [polypeptide binding]; other site 435998007933 NAD(P) binding site [chemical binding]; other site 435998007934 catalytic residues [active] 435998007935 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 435998007936 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 435998007937 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 435998007938 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 435998007939 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 435998007940 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 435998007941 Metal-binding active site; metal-binding site 435998007942 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 435998007943 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 435998007944 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 435998007945 Cupin domain; Region: Cupin_2; pfam07883 435998007946 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 435998007947 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 435998007948 active site 435998007949 trimer interface [polypeptide binding]; other site 435998007950 allosteric site; other site 435998007951 active site lid [active] 435998007952 hexamer (dimer of trimers) interface [polypeptide binding]; other site 435998007953 K+ potassium transporter; Region: K_trans; pfam02705 435998007954 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 435998007955 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998007956 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 435998007957 dimerization interface [polypeptide binding]; other site 435998007958 substrate binding pocket [chemical binding]; other site 435998007959 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 435998007960 TM-ABC transporter signature motif; other site 435998007961 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 435998007962 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 435998007963 TM-ABC transporter signature motif; other site 435998007964 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 435998007965 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 435998007966 Walker A/P-loop; other site 435998007967 ATP binding site [chemical binding]; other site 435998007968 Q-loop/lid; other site 435998007969 ABC transporter signature motif; other site 435998007970 Walker B; other site 435998007971 D-loop; other site 435998007972 H-loop/switch region; other site 435998007973 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 435998007974 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 435998007975 Walker A/P-loop; other site 435998007976 ATP binding site [chemical binding]; other site 435998007977 Q-loop/lid; other site 435998007978 ABC transporter signature motif; other site 435998007979 Walker B; other site 435998007980 D-loop; other site 435998007981 H-loop/switch region; other site 435998007982 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 435998007983 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 435998007984 dimerization interface [polypeptide binding]; other site 435998007985 ligand binding site [chemical binding]; other site 435998007986 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 435998007987 allantoate amidohydrolase; Reviewed; Region: PRK12893 435998007988 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 435998007989 active site 435998007990 metal binding site [ion binding]; metal-binding site 435998007991 dimer interface [polypeptide binding]; other site 435998007992 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 435998007993 dimerization interface [polypeptide binding]; other site 435998007994 putative DNA binding site [nucleotide binding]; other site 435998007995 putative Zn2+ binding site [ion binding]; other site 435998007996 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 435998007997 putative hydrophobic ligand binding site [chemical binding]; other site 435998007998 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 435998007999 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 435998008000 Cl binding site [ion binding]; other site 435998008001 oligomer interface [polypeptide binding]; other site 435998008002 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 435998008003 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 435998008004 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 435998008005 NlpC/P60 family; Region: NLPC_P60; cl17555 435998008006 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 435998008007 nudix motif; other site 435998008008 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 435998008009 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 435998008010 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 435998008011 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 435998008012 transcriptional regulatory protein PtsJ; Provisional; Region: PRK15481 435998008013 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998008014 DNA-binding site [nucleotide binding]; DNA binding site 435998008015 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 435998008016 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998008017 homodimer interface [polypeptide binding]; other site 435998008018 catalytic residue [active] 435998008019 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 435998008020 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 435998008021 catalytic triad [active] 435998008022 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 435998008023 dimer interface [polypeptide binding]; other site 435998008024 pyridoxal binding site [chemical binding]; other site 435998008025 ATP binding site [chemical binding]; other site 435998008026 Flagellar regulator YcgR; Region: YcgR; pfam07317 435998008027 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 435998008028 PilZ domain; Region: PilZ; pfam07238 435998008029 N-formylglutamate amidohydrolase; Region: FGase; cl01522 435998008030 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 435998008031 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 435998008032 putative acyl-acceptor binding pocket; other site 435998008033 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 435998008034 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 435998008035 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 435998008036 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 435998008037 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 435998008038 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 435998008039 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 435998008040 ABC-ATPase subunit interface; other site 435998008041 putative PBP binding loops; other site 435998008042 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 435998008043 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 435998008044 dimer interface [polypeptide binding]; other site 435998008045 conserved gate region; other site 435998008046 putative PBP binding loops; other site 435998008047 ABC-ATPase subunit interface; other site 435998008048 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 435998008049 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 435998008050 Walker A/P-loop; other site 435998008051 ATP binding site [chemical binding]; other site 435998008052 Q-loop/lid; other site 435998008053 ABC transporter signature motif; other site 435998008054 Walker B; other site 435998008055 D-loop; other site 435998008056 H-loop/switch region; other site 435998008057 TOBE domain; Region: TOBE_2; pfam08402 435998008058 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435998008059 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435998008060 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 435998008061 fructokinase; Reviewed; Region: PRK09557 435998008062 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 435998008063 nucleotide binding site [chemical binding]; other site 435998008064 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 435998008065 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 435998008066 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 435998008067 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 435998008068 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 435998008069 dimer interface [polypeptide binding]; other site 435998008070 active site 435998008071 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 435998008072 putative active site [active] 435998008073 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 435998008074 intersubunit interface [polypeptide binding]; other site 435998008075 active site 435998008076 zinc binding site [ion binding]; other site 435998008077 Na+ binding site [ion binding]; other site 435998008078 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 435998008079 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 435998008080 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 435998008081 DNA binding site [nucleotide binding] 435998008082 active site 435998008083 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 435998008084 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 435998008085 ligand binding site [chemical binding]; other site 435998008086 flexible hinge region; other site 435998008087 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 435998008088 putative switch regulator; other site 435998008089 non-specific DNA interactions [nucleotide binding]; other site 435998008090 DNA binding site [nucleotide binding] 435998008091 sequence specific DNA binding site [nucleotide binding]; other site 435998008092 putative cAMP binding site [chemical binding]; other site 435998008093 universal stress protein UspE; Provisional; Region: PRK11175 435998008094 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 435998008095 Ligand Binding Site [chemical binding]; other site 435998008096 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 435998008097 Ligand Binding Site [chemical binding]; other site 435998008098 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 435998008099 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 435998008100 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 435998008101 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 435998008102 ligand binding site [chemical binding]; other site 435998008103 homodimer interface [polypeptide binding]; other site 435998008104 NAD(P) binding site [chemical binding]; other site 435998008105 trimer interface B [polypeptide binding]; other site 435998008106 trimer interface A [polypeptide binding]; other site 435998008107 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 435998008108 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 435998008109 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 435998008110 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 435998008111 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 435998008112 Spore germination protein; Region: Spore_permease; cl17796 435998008113 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 435998008114 dihydromonapterin reductase; Provisional; Region: PRK06483 435998008115 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435998008116 NAD(P) binding site [chemical binding]; other site 435998008117 active site 435998008118 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 435998008119 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998008120 active site 435998008121 phosphorylation site [posttranslational modification] 435998008122 intermolecular recognition site; other site 435998008123 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 435998008124 DNA binding site [nucleotide binding] 435998008125 sensor protein RstB; Provisional; Region: PRK10604 435998008126 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 435998008127 dimerization interface [polypeptide binding]; other site 435998008128 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 435998008129 dimer interface [polypeptide binding]; other site 435998008130 phosphorylation site [posttranslational modification] 435998008131 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998008132 ATP binding site [chemical binding]; other site 435998008133 Mg2+ binding site [ion binding]; other site 435998008134 G-X-G motif; other site 435998008135 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 435998008136 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 435998008137 active site 435998008138 Zn binding site [ion binding]; other site 435998008139 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 435998008140 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 435998008141 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 435998008142 Cupin domain; Region: Cupin_2; cl17218 435998008143 Helix-turn-helix domain; Region: HTH_18; pfam12833 435998008144 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998008145 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 435998008146 putative substrate translocation pore; other site 435998008147 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 435998008148 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 435998008149 ATP binding site [chemical binding]; other site 435998008150 putative Mg++ binding site [ion binding]; other site 435998008151 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 435998008152 nucleotide binding region [chemical binding]; other site 435998008153 ATP-binding site [chemical binding]; other site 435998008154 Helicase associated domain (HA2); Region: HA2; pfam04408 435998008155 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 435998008156 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 435998008157 azoreductase; Reviewed; Region: PRK00170 435998008158 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 435998008159 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3784 435998008160 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 435998008161 hypothetical protein; Provisional; Region: PRK10695 435998008162 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 435998008163 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 435998008164 putative ligand binding site [chemical binding]; other site 435998008165 putative NAD binding site [chemical binding]; other site 435998008166 catalytic site [active] 435998008167 META domain; Region: META; cl01245 435998008168 Domain of unknown function (DUF333); Region: DUF333; pfam03891 435998008169 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 435998008170 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 435998008171 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 435998008172 dimer interface [polypeptide binding]; other site 435998008173 PYR/PP interface [polypeptide binding]; other site 435998008174 TPP binding site [chemical binding]; other site 435998008175 substrate binding site [chemical binding]; other site 435998008176 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 435998008177 Domain of unknown function; Region: EKR; pfam10371 435998008178 4Fe-4S binding domain; Region: Fer4_6; pfam12837 435998008179 4Fe-4S binding domain; Region: Fer4; pfam00037 435998008180 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 435998008181 TPP-binding site [chemical binding]; other site 435998008182 dimer interface [polypeptide binding]; other site 435998008183 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 435998008184 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 435998008185 Ligand Binding Site [chemical binding]; other site 435998008186 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 435998008187 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 435998008188 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 435998008189 Cl binding site [ion binding]; other site 435998008190 oligomer interface [polypeptide binding]; other site 435998008191 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 435998008192 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 435998008193 peptide binding site [polypeptide binding]; other site 435998008194 murein peptide amidase A; Provisional; Region: PRK10602 435998008195 active site 435998008196 Zn binding site [ion binding]; other site 435998008197 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 435998008198 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 435998008199 active site 435998008200 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 435998008201 dimer interface [polypeptide binding]; other site 435998008202 catalytic triad [active] 435998008203 peroxidatic and resolving cysteines [active] 435998008204 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 435998008205 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 435998008206 putative aromatic amino acid binding site; other site 435998008207 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 435998008208 putative active site [active] 435998008209 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998008210 Walker A motif; other site 435998008211 ATP binding site [chemical binding]; other site 435998008212 Walker B motif; other site 435998008213 arginine finger; other site 435998008214 hypothetical protein; Provisional; Region: PRK05415 435998008215 Domain of unknown function (DUF697); Region: DUF697; cl12064 435998008216 Predicted ATPase [General function prediction only]; Region: COG3106 435998008217 Phage shock protein PspD (Phageshock_PspD); Region: Phageshock_PspD; pfam09584 435998008218 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 435998008219 phage shock protein C; Region: phageshock_pspC; TIGR02978 435998008220 phage shock protein B; Provisional; Region: pspB; PRK09458 435998008221 phage shock protein PspA; Provisional; Region: PRK10698 435998008222 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 435998008223 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998008224 Walker A motif; other site 435998008225 ATP binding site [chemical binding]; other site 435998008226 Walker B motif; other site 435998008227 arginine finger; other site 435998008228 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 435998008229 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 435998008230 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 435998008231 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 435998008232 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 435998008233 Gamma carbonic anhydrases (CA): Carbonic anhydrases are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed...; Region: LbH_gamma_CA; cd00710 435998008234 trimer interface [polypeptide binding]; other site 435998008235 active site 435998008236 putative GTP cyclohydrolase; Provisional; Region: PRK13674 435998008237 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 435998008238 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 435998008239 peptide binding site [polypeptide binding]; other site 435998008240 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 435998008241 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 435998008242 putative PBP binding loops; other site 435998008243 dimer interface [polypeptide binding]; other site 435998008244 ABC-ATPase subunit interface; other site 435998008245 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 435998008246 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 435998008247 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 435998008248 dimer interface [polypeptide binding]; other site 435998008249 conserved gate region; other site 435998008250 putative PBP binding loops; other site 435998008251 ABC-ATPase subunit interface; other site 435998008252 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 435998008253 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 435998008254 Walker A/P-loop; other site 435998008255 ATP binding site [chemical binding]; other site 435998008256 Q-loop/lid; other site 435998008257 ABC transporter signature motif; other site 435998008258 Walker B; other site 435998008259 D-loop; other site 435998008260 H-loop/switch region; other site 435998008261 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 435998008262 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 435998008263 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 435998008264 Walker A/P-loop; other site 435998008265 ATP binding site [chemical binding]; other site 435998008266 Q-loop/lid; other site 435998008267 ABC transporter signature motif; other site 435998008268 Walker B; other site 435998008269 D-loop; other site 435998008270 H-loop/switch region; other site 435998008271 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 435998008272 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 435998008273 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 435998008274 Inclusion body protein; Region: PixA; pfam12306 435998008275 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998008276 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998008277 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 435998008278 dimerization interface [polypeptide binding]; other site 435998008279 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 435998008280 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 435998008281 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 435998008282 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 435998008283 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 435998008284 putative molybdopterin cofactor binding site [chemical binding]; other site 435998008285 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 435998008286 putative molybdopterin cofactor binding site; other site 435998008287 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998008288 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998008289 LysR substrate binding domain; Region: LysR_substrate; pfam03466 435998008290 dimerization interface [polypeptide binding]; other site 435998008291 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 435998008292 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 435998008293 dimer interface [polypeptide binding]; other site 435998008294 active site 435998008295 metal binding site [ion binding]; metal-binding site 435998008296 glutathione binding site [chemical binding]; other site 435998008297 exoribonuclease II; Provisional; Region: PRK05054 435998008298 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 435998008299 RNB domain; Region: RNB; pfam00773 435998008300 S1 RNA binding domain; Region: S1; pfam00575 435998008301 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 435998008302 metabolite-proton symporter; Region: 2A0106; TIGR00883 435998008303 putative substrate translocation pore; other site 435998008304 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 435998008305 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 435998008306 metal binding site [ion binding]; metal-binding site 435998008307 putative dimer interface [polypeptide binding]; other site 435998008308 carbon starvation protein A; Provisional; Region: PRK15015 435998008309 Carbon starvation protein CstA; Region: CstA; pfam02554 435998008310 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 435998008311 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 435998008312 active site 435998008313 intersubunit interactions; other site 435998008314 catalytic residue [active] 435998008315 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 435998008316 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 435998008317 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 435998008318 dimer interface [polypeptide binding]; other site 435998008319 active site 435998008320 glycine loop; other site 435998008321 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 435998008322 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 435998008323 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 435998008324 lipoprotein; Provisional; Region: PRK10540 435998008325 translation initiation factor Sui1; Validated; Region: PRK06824 435998008326 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 435998008327 putative rRNA binding site [nucleotide binding]; other site 435998008328 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 435998008329 active site 435998008330 dimer interface [polypeptide binding]; other site 435998008331 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 435998008332 tetratricopeptide repeat protein; Provisional; Region: PRK11788 435998008333 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 435998008334 TPR motif; other site 435998008335 binding surface 435998008336 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 435998008337 binding surface 435998008338 TPR motif; other site 435998008339 Predicted membrane protein [Function unknown]; Region: COG3771 435998008340 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 435998008341 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 435998008342 NAD binding site [chemical binding]; other site 435998008343 homotetramer interface [polypeptide binding]; other site 435998008344 homodimer interface [polypeptide binding]; other site 435998008345 active site 435998008346 substrate binding site [chemical binding]; other site 435998008347 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 435998008348 bacterial glycerol kinase 2-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GK2_bacteria; cd07791 435998008349 N- and C-terminal domain interface [polypeptide binding]; other site 435998008350 active site 435998008351 MgATP binding site [chemical binding]; other site 435998008352 catalytic site [active] 435998008353 metal binding site [ion binding]; metal-binding site 435998008354 putative homotetramer interface [polypeptide binding]; other site 435998008355 putative homodimer interface [polypeptide binding]; other site 435998008356 glycerol binding site [chemical binding]; other site 435998008357 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 435998008358 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 435998008359 TM-ABC transporter signature motif; other site 435998008360 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 435998008361 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 435998008362 Walker A/P-loop; other site 435998008363 ATP binding site [chemical binding]; other site 435998008364 Q-loop/lid; other site 435998008365 ABC transporter signature motif; other site 435998008366 Walker B; other site 435998008367 D-loop; other site 435998008368 H-loop/switch region; other site 435998008369 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 435998008370 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; cl02395 435998008371 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 435998008372 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 435998008373 short chain dehydrogenase; Provisional; Region: PRK06841 435998008374 classical (c) SDRs; Region: SDR_c; cd05233 435998008375 NAD(P) binding site [chemical binding]; other site 435998008376 active site 435998008377 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 435998008378 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 435998008379 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 435998008380 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 435998008381 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 435998008382 active site 435998008383 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 435998008384 dimerization interface [polypeptide binding]; other site 435998008385 active site 435998008386 aconitate hydratase; Validated; Region: PRK09277 435998008387 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 435998008388 substrate binding site [chemical binding]; other site 435998008389 ligand binding site [chemical binding]; other site 435998008390 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 435998008391 substrate binding site [chemical binding]; other site 435998008392 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 435998008393 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998008394 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 435998008395 substrate binding site [chemical binding]; other site 435998008396 putative dimerization interface [polypeptide binding]; other site 435998008397 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 435998008398 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 435998008399 active site 435998008400 interdomain interaction site; other site 435998008401 putative metal-binding site [ion binding]; other site 435998008402 nucleotide binding site [chemical binding]; other site 435998008403 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 435998008404 domain I; other site 435998008405 DNA binding groove [nucleotide binding] 435998008406 phosphate binding site [ion binding]; other site 435998008407 domain II; other site 435998008408 domain III; other site 435998008409 nucleotide binding site [chemical binding]; other site 435998008410 catalytic site [active] 435998008411 domain IV; other site 435998008412 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 435998008413 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 435998008414 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 435998008415 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 435998008416 hypothetical protein; Provisional; Region: PRK11037 435998008417 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 435998008418 putative inner membrane peptidase; Provisional; Region: PRK11778 435998008419 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 435998008420 tandem repeat interface [polypeptide binding]; other site 435998008421 oligomer interface [polypeptide binding]; other site 435998008422 active site residues [active] 435998008423 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 435998008424 Escherichia coli K-12 YCIK-like, classical (c) SDRs; Region: Ycik_SDR_c; cd05340 435998008425 NADP binding site [chemical binding]; other site 435998008426 homodimer interface [polypeptide binding]; other site 435998008427 active site 435998008428 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 435998008429 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 435998008430 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 435998008431 homodimer interface [polypeptide binding]; other site 435998008432 Walker A motif; other site 435998008433 ATP binding site [chemical binding]; other site 435998008434 hydroxycobalamin binding site [chemical binding]; other site 435998008435 Walker B motif; other site 435998008436 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 435998008437 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 435998008438 RNA binding surface [nucleotide binding]; other site 435998008439 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 435998008440 probable active site [active] 435998008441 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 435998008442 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 435998008443 active site 435998008444 catalytic residues [active] 435998008445 DNA binding site [nucleotide binding] 435998008446 Int/Topo IB signature motif; other site 435998008447 tape measure domain; Region: tape_meas_nterm; TIGR02675 435998008448 Helix-turn-helix domain; Region: HTH_36; pfam13730 435998008449 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 435998008450 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 435998008451 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 435998008452 hypothetical protein; Provisional; Region: PRK11630 435998008453 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 435998008454 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 435998008455 active site 435998008456 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 435998008457 anthranilate synthase component I; Provisional; Region: PRK13564 435998008458 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 435998008459 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 435998008460 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 435998008461 Glutamine amidotransferase class-I; Region: GATase; pfam00117 435998008462 glutamine binding [chemical binding]; other site 435998008463 catalytic triad [active] 435998008464 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 435998008465 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 435998008466 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 435998008467 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 435998008468 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 435998008469 active site 435998008470 ribulose/triose binding site [chemical binding]; other site 435998008471 phosphate binding site [ion binding]; other site 435998008472 substrate (anthranilate) binding pocket [chemical binding]; other site 435998008473 product (indole) binding pocket [chemical binding]; other site 435998008474 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 435998008475 active site 435998008476 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 435998008477 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 435998008478 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998008479 catalytic residue [active] 435998008480 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 435998008481 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 435998008482 substrate binding site [chemical binding]; other site 435998008483 active site 435998008484 catalytic residues [active] 435998008485 heterodimer interface [polypeptide binding]; other site 435998008486 BON domain; Region: BON; pfam04972 435998008487 outer membrane protein W; Provisional; Region: PRK10959 435998008488 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 435998008489 hypothetical protein; Provisional; Region: PRK02868 435998008490 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 435998008491 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 435998008492 Sulfate transporter family; Region: Sulfate_transp; pfam00916 435998008493 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 435998008494 intracellular septation protein A; Reviewed; Region: PRK00259 435998008495 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 435998008496 transport protein TonB; Provisional; Region: PRK10819 435998008497 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 435998008498 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 435998008499 YciI-like protein; Reviewed; Region: PRK11370 435998008500 Amidohydrolase; Region: Amidohydro_2; pfam04909 435998008501 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 435998008502 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998008503 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 435998008504 dimerization interface [polypeptide binding]; other site 435998008505 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 435998008506 EamA-like transporter family; Region: EamA; pfam00892 435998008507 Transcriptional regulators [Transcription]; Region: PurR; COG1609 435998008508 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998008509 DNA binding site [nucleotide binding] 435998008510 domain linker motif; other site 435998008511 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 435998008512 dimerization interface [polypeptide binding]; other site 435998008513 ligand binding site [chemical binding]; other site 435998008514 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 435998008515 L-idonate 5-dehydrogenase; Region: PLN02702 435998008516 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 435998008517 inhibitor binding site; inhibition site 435998008518 catalytic Zn binding site [ion binding]; other site 435998008519 structural Zn binding site [ion binding]; other site 435998008520 NADP binding site [chemical binding]; other site 435998008521 tetramer interface [polypeptide binding]; other site 435998008522 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 435998008523 N- and C-terminal domain interface [polypeptide binding]; other site 435998008524 D-xylulose kinase; Region: XylB; TIGR01312 435998008525 active site 435998008526 MgATP binding site [chemical binding]; other site 435998008527 catalytic site [active] 435998008528 metal binding site [ion binding]; metal-binding site 435998008529 xylulose binding site [chemical binding]; other site 435998008530 putative homodimer interface [polypeptide binding]; other site 435998008531 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 435998008532 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 435998008533 Walker A/P-loop; other site 435998008534 ATP binding site [chemical binding]; other site 435998008535 Q-loop/lid; other site 435998008536 ABC transporter signature motif; other site 435998008537 Walker B; other site 435998008538 D-loop; other site 435998008539 H-loop/switch region; other site 435998008540 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 435998008541 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 435998008542 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 435998008543 TM-ABC transporter signature motif; other site 435998008544 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 435998008545 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 435998008546 putative ligand binding site [chemical binding]; other site 435998008547 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 435998008548 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 435998008549 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 435998008550 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 435998008551 putative substrate translocation pore; other site 435998008552 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 435998008553 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 435998008554 dimerization interface [polypeptide binding]; other site 435998008555 DPS ferroxidase diiron center [ion binding]; other site 435998008556 ion pore; other site 435998008557 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 435998008558 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 435998008559 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 435998008560 putative active site [active] 435998008561 catalytic site [active] 435998008562 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 435998008563 putative active site [active] 435998008564 catalytic site [active] 435998008565 dsDNA-mimic protein; Reviewed; Region: PRK05094 435998008566 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 435998008567 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 435998008568 Walker A/P-loop; other site 435998008569 ATP binding site [chemical binding]; other site 435998008570 Q-loop/lid; other site 435998008571 ABC transporter signature motif; other site 435998008572 Walker B; other site 435998008573 D-loop; other site 435998008574 H-loop/switch region; other site 435998008575 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 435998008576 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 435998008577 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 435998008578 Walker A/P-loop; other site 435998008579 ATP binding site [chemical binding]; other site 435998008580 Q-loop/lid; other site 435998008581 ABC transporter signature motif; other site 435998008582 Walker B; other site 435998008583 D-loop; other site 435998008584 H-loop/switch region; other site 435998008585 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 435998008586 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 435998008587 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 435998008588 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 435998008589 dimer interface [polypeptide binding]; other site 435998008590 conserved gate region; other site 435998008591 ABC-ATPase subunit interface; other site 435998008592 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 435998008593 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 435998008594 dimer interface [polypeptide binding]; other site 435998008595 conserved gate region; other site 435998008596 putative PBP binding loops; other site 435998008597 ABC-ATPase subunit interface; other site 435998008598 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 435998008599 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 435998008600 peptide binding site [polypeptide binding]; other site 435998008601 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 435998008602 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 435998008603 peptide binding site [polypeptide binding]; other site 435998008604 hypothetical protein; Provisional; Region: PRK11111 435998008605 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 435998008606 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 435998008607 putative catalytic cysteine [active] 435998008608 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 435998008609 putative active site [active] 435998008610 metal binding site [ion binding]; metal-binding site 435998008611 thymidine kinase; Provisional; Region: PRK04296 435998008612 Uncharacterized conserved protein (DUF2217); Region: DUF2217; pfam10265 435998008613 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 435998008614 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 435998008615 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 435998008616 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 435998008617 putative NAD(P) binding site [chemical binding]; other site 435998008618 active site 435998008619 putative substrate binding site [chemical binding]; other site 435998008620 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 435998008621 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 435998008622 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 435998008623 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 435998008624 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 435998008625 active site 435998008626 tetramer interface; other site 435998008627 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998008628 active site 435998008629 response regulator of RpoS; Provisional; Region: PRK10693 435998008630 phosphorylation site [posttranslational modification] 435998008631 intermolecular recognition site; other site 435998008632 dimerization interface [polypeptide binding]; other site 435998008633 hypothetical protein; Provisional; Region: PRK10279 435998008634 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 435998008635 active site 435998008636 nucleophile elbow; other site 435998008637 SEC-C motif; Region: SEC-C; pfam02810 435998008638 hypothetical protein; Provisional; Region: PRK04233 435998008639 SnoaL-like domain; Region: SnoaL_2; pfam12680 435998008640 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 435998008641 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 435998008642 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 435998008643 putative active site [active] 435998008644 putative substrate binding site [chemical binding]; other site 435998008645 putative cosubstrate binding site; other site 435998008646 catalytic site [active] 435998008647 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 435998008648 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 435998008649 putative catalytic site [active] 435998008650 putative phosphate binding site [ion binding]; other site 435998008651 active site 435998008652 metal binding site A [ion binding]; metal-binding site 435998008653 DNA binding site [nucleotide binding] 435998008654 putative AP binding site [nucleotide binding]; other site 435998008655 putative metal binding site B [ion binding]; other site 435998008656 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 435998008657 active site 435998008658 8-oxo-dGMP binding site [chemical binding]; other site 435998008659 nudix motif; other site 435998008660 metal binding site [ion binding]; metal-binding site 435998008661 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 435998008662 DNA topoisomerase III; Provisional; Region: PRK07726 435998008663 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 435998008664 active site 435998008665 putative interdomain interaction site [polypeptide binding]; other site 435998008666 putative metal-binding site [ion binding]; other site 435998008667 putative nucleotide binding site [chemical binding]; other site 435998008668 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 435998008669 domain I; other site 435998008670 DNA binding groove [nucleotide binding] 435998008671 phosphate binding site [ion binding]; other site 435998008672 domain II; other site 435998008673 domain III; other site 435998008674 nucleotide binding site [chemical binding]; other site 435998008675 catalytic site [active] 435998008676 domain IV; other site 435998008677 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 435998008678 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 435998008679 active site residue [active] 435998008680 selenophosphate synthetase; Provisional; Region: PRK00943 435998008681 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 435998008682 dimerization interface [polypeptide binding]; other site 435998008683 putative ATP binding site [chemical binding]; other site 435998008684 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 435998008685 putative FMN binding site [chemical binding]; other site 435998008686 protease 4; Provisional; Region: PRK10949 435998008687 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 435998008688 tandem repeat interface [polypeptide binding]; other site 435998008689 oligomer interface [polypeptide binding]; other site 435998008690 active site residues [active] 435998008691 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 435998008692 tandem repeat interface [polypeptide binding]; other site 435998008693 oligomer interface [polypeptide binding]; other site 435998008694 active site residues [active] 435998008695 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 435998008696 active site 435998008697 homodimer interface [polypeptide binding]; other site 435998008698 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 435998008699 Isochorismatase family; Region: Isochorismatase; pfam00857 435998008700 catalytic triad [active] 435998008701 metal binding site [ion binding]; metal-binding site 435998008702 conserved cis-peptide bond; other site 435998008703 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 435998008704 Glyco_18 domain; Region: Glyco_18; smart00636 435998008705 active site 435998008706 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 435998008707 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 435998008708 methionine sulfoxide reductase B; Provisional; Region: PRK00222 435998008709 SelR domain; Region: SelR; pfam01641 435998008710 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 435998008711 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 435998008712 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 435998008713 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 435998008714 active site 435998008715 phosphate binding residues; other site 435998008716 catalytic residues [active] 435998008717 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 435998008718 PrkA family serine protein kinase; Provisional; Region: PRK15455 435998008719 AAA ATPase domain; Region: AAA_16; pfam13191 435998008720 Walker A motif; other site 435998008721 ATP binding site [chemical binding]; other site 435998008722 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 435998008723 hypothetical protein; Provisional; Region: PRK05325 435998008724 Serine hydrolase; Region: Ser_hydrolase; cl17834 435998008725 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 435998008726 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 435998008727 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 435998008728 active site 435998008729 substrate binding site [chemical binding]; other site 435998008730 catalytic site [active] 435998008731 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 435998008732 putative substrate translocation pore; other site 435998008733 alanine racemase; Reviewed; Region: dadX; PRK03646 435998008734 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 435998008735 active site 435998008736 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 435998008737 substrate binding site [chemical binding]; other site 435998008738 catalytic residues [active] 435998008739 dimer interface [polypeptide binding]; other site 435998008740 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 435998008741 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 435998008742 hydroxyglutarate oxidase; Provisional; Region: PRK11728 435998008743 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 435998008744 zinc/cadmium-binding protein; Provisional; Region: PRK10306 435998008745 SpoVR family protein; Provisional; Region: PRK11767 435998008746 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 435998008747 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 435998008748 fatty acid metabolism regulator; Provisional; Region: PRK04984 435998008749 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998008750 DNA-binding site [nucleotide binding]; DNA binding site 435998008751 FadR C-terminal domain; Region: FadR_C; pfam07840 435998008752 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 435998008753 disulfide bond formation protein B; Provisional; Region: PRK01749 435998008754 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 435998008755 hypothetical protein; Provisional; Region: PRK05170 435998008756 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 435998008757 hypothetical protein; Provisional; Region: PRK10691 435998008758 Transglycosylase SLT domain; Region: SLT_2; pfam13406 435998008759 murein hydrolase B; Provisional; Region: PRK10760; cl17906 435998008760 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 435998008761 septum formation inhibitor; Reviewed; Region: minC; PRK03511 435998008762 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 435998008763 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 435998008764 cell division inhibitor MinD; Provisional; Region: PRK10818 435998008765 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 435998008766 Switch I; other site 435998008767 Switch II; other site 435998008768 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 435998008769 ribonuclease D; Provisional; Region: PRK10829 435998008770 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 435998008771 catalytic site [active] 435998008772 putative active site [active] 435998008773 putative substrate binding site [chemical binding]; other site 435998008774 HRDC domain; Region: HRDC; cl02578 435998008775 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 435998008776 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 435998008777 acyl-activating enzyme (AAE) consensus motif; other site 435998008778 putative AMP binding site [chemical binding]; other site 435998008779 putative active site [active] 435998008780 putative CoA binding site [chemical binding]; other site 435998008781 Starvation-inducible outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: Slp; COG3065 435998008782 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 435998008783 Glycoprotease family; Region: Peptidase_M22; pfam00814 435998008784 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 435998008785 DEAD/DEAH box helicase; Region: DEAD; pfam00270 435998008786 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 435998008787 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 435998008788 homotrimer interaction site [polypeptide binding]; other site 435998008789 putative active site [active] 435998008790 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 435998008791 multidrug efflux system protein MdtJ; Provisional; Region: PRK10452 435998008792 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 435998008793 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 435998008794 active site 435998008795 intersubunit interface [polypeptide binding]; other site 435998008796 catalytic residue [active] 435998008797 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 435998008798 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 435998008799 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 435998008800 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 435998008801 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 435998008802 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 435998008803 putative active site [active] 435998008804 pyruvate kinase; Provisional; Region: PRK05826 435998008805 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 435998008806 domain interfaces; other site 435998008807 active site 435998008808 Leucine rich repeat; Region: LRR_8; pfam13855 435998008809 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 435998008810 Leucine-rich repeats; other site 435998008811 Substrate binding site [chemical binding]; other site 435998008812 Leucine rich repeat; Region: LRR_8; pfam13855 435998008813 Leucine rich repeat; Region: LRR_8; pfam13855 435998008814 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 435998008815 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 435998008816 putative acyl-acceptor binding pocket; other site 435998008817 putative peptidase; Provisional; Region: PRK11649 435998008818 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 435998008819 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 435998008820 Peptidase family M23; Region: Peptidase_M23; pfam01551 435998008821 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 435998008822 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 435998008823 metal binding site [ion binding]; metal-binding site 435998008824 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 435998008825 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 435998008826 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 435998008827 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 435998008828 ABC-ATPase subunit interface; other site 435998008829 dimer interface [polypeptide binding]; other site 435998008830 putative PBP binding regions; other site 435998008831 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 435998008832 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998008833 Walker A motif; other site 435998008834 ATP binding site [chemical binding]; other site 435998008835 Walker B motif; other site 435998008836 arginine finger; other site 435998008837 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 435998008838 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 435998008839 RuvA N terminal domain; Region: RuvA_N; pfam01330 435998008840 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 435998008841 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 435998008842 active site 435998008843 putative DNA-binding cleft [nucleotide binding]; other site 435998008844 dimer interface [polypeptide binding]; other site 435998008845 hypothetical protein; Validated; Region: PRK00110 435998008846 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_7; cd04664 435998008847 nudix motif; other site 435998008848 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 435998008849 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 435998008850 dimer interface [polypeptide binding]; other site 435998008851 anticodon binding site; other site 435998008852 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 435998008853 homodimer interface [polypeptide binding]; other site 435998008854 motif 1; other site 435998008855 active site 435998008856 motif 2; other site 435998008857 GAD domain; Region: GAD; pfam02938 435998008858 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 435998008859 active site 435998008860 motif 3; other site 435998008861 Isochorismatase family; Region: Isochorismatase; pfam00857 435998008862 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 435998008863 catalytic triad [active] 435998008864 conserved cis-peptide bond; other site 435998008865 hypothetical protein; Provisional; Region: PRK10302 435998008866 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 435998008867 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 435998008868 S-adenosylmethionine binding site [chemical binding]; other site 435998008869 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 435998008870 S-adenosylmethionine binding site [chemical binding]; other site 435998008871 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 435998008872 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 435998008873 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 435998008874 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 435998008875 copper homeostasis protein CutC; Provisional; Region: PRK11572 435998008876 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 435998008877 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 435998008878 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998008879 homodimer interface [polypeptide binding]; other site 435998008880 catalytic residue [active] 435998008881 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_4; cd07268 435998008882 putative metal binding site [ion binding]; other site 435998008883 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 435998008884 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 435998008885 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 435998008886 active site 435998008887 HIGH motif; other site 435998008888 KMSK motif region; other site 435998008889 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 435998008890 tRNA binding surface [nucleotide binding]; other site 435998008891 anticodon binding site; other site 435998008892 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 435998008893 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 435998008894 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435998008895 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435998008896 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 435998008897 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 435998008898 hypothetical protein; Provisional; Region: PRK11239 435998008899 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 435998008900 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 435998008901 multidrug resistance protein MdtH; Provisional; Region: PRK11646 435998008902 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 435998008903 putative substrate translocation pore; other site 435998008904 glutaredoxin 2; Provisional; Region: PRK10387 435998008905 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-terminal...; Region: GST_N_GRX2; cd03037 435998008906 C-terminal domain interface [polypeptide binding]; other site 435998008907 GSH binding site (G-site) [chemical binding]; other site 435998008908 catalytic residues [active] 435998008909 putative dimer interface [polypeptide binding]; other site 435998008910 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 435998008911 N-terminal domain interface [polypeptide binding]; other site 435998008912 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 435998008913 ABC1 family; Region: ABC1; cl17513 435998008914 ABC1 family; Region: ABC1; cl17513 435998008915 lipoprotein; Provisional; Region: PRK10598 435998008916 YebF-like protein; Region: YebF; cl10126 435998008917 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 435998008918 YebG protein; Region: YebG; pfam07130 435998008919 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 435998008920 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 435998008921 ATP binding site [chemical binding]; other site 435998008922 Mg++ binding site [ion binding]; other site 435998008923 motif III; other site 435998008924 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 435998008925 nucleotide binding region [chemical binding]; other site 435998008926 ATP-binding site [chemical binding]; other site 435998008927 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 435998008928 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 435998008929 DNA-binding site [nucleotide binding]; DNA binding site 435998008930 RNA-binding motif; other site 435998008931 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 435998008932 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 435998008933 ATP-grasp domain; Region: ATP-grasp; pfam02222 435998008934 hypothetical protein; Provisional; Region: PRK05114 435998008935 putative glycosyl transferase; Provisional; Region: PRK10073 435998008936 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 435998008937 active site 435998008938 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 435998008939 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 435998008940 chorismate binding enzyme; Region: Chorismate_bind; cl10555 435998008941 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 435998008942 putative active site [active] 435998008943 putative CoA binding site [chemical binding]; other site 435998008944 nudix motif; other site 435998008945 metal binding site [ion binding]; metal-binding site 435998008946 L-serine deaminase; Provisional; Region: PRK15023 435998008947 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 435998008948 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 435998008949 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 435998008950 phage resistance protein; Provisional; Region: PRK10551 435998008951 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 435998008952 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 435998008953 FOG: CBS domain [General function prediction only]; Region: COG0517 435998008954 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 435998008955 Transporter associated domain; Region: CorC_HlyC; smart01091 435998008956 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 435998008957 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 435998008958 active pocket/dimerization site; other site 435998008959 active site 435998008960 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 435998008961 active site 435998008962 phosphorylation site [posttranslational modification] 435998008963 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 435998008964 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 435998008965 hypothetical protein; Provisional; Region: PRK02913 435998008966 Domain of unknown function DUF; Region: DUF204; pfam02659 435998008967 Domain of unknown function DUF; Region: DUF204; pfam02659 435998008968 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 435998008969 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 435998008970 S-adenosylmethionine binding site [chemical binding]; other site 435998008971 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 435998008972 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 435998008973 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 435998008974 DNA-binding site [nucleotide binding]; DNA binding site 435998008975 RNA-binding motif; other site 435998008976 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 435998008977 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 435998008978 aromatic amino acid transporter; Provisional; Region: PRK10238 435998008979 Protein of unknown function (DUF4060); Region: DUF4060; pfam13269 435998008980 Protein of unknown function (DUF2591); Region: DUF2591; pfam10765 435998008981 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 435998008982 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 435998008983 active site 435998008984 metal binding site [ion binding]; metal-binding site 435998008985 YebO-like protein; Region: YebO; pfam13974 435998008986 YobH-like protein; Region: YobH; pfam13996 435998008987 Protein of unknown function (DUF2766); Region: DUF2766; pfam10964 435998008988 YccJ-like protein; Region: YccJ; cl08091 435998008989 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 435998008990 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998008991 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 435998008992 Pirin; Region: Pirin; pfam02678 435998008993 Pirin-related protein [General function prediction only]; Region: COG1741 435998008994 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 435998008995 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 435998008996 BON domain; Region: BON; pfam04972 435998008997 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 435998008998 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 435998008999 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 435998009000 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 435998009001 trimer interface [polypeptide binding]; other site 435998009002 eyelet of channel; other site 435998009003 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 435998009004 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 435998009005 putative active site [active] 435998009006 Zn binding site [ion binding]; other site 435998009007 succinylarginine dihydrolase; Provisional; Region: PRK13281 435998009008 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 435998009009 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 435998009010 NAD(P) binding site [chemical binding]; other site 435998009011 catalytic residues [active] 435998009012 arginine succinyltransferase; Provisional; Region: PRK10456 435998009013 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 435998009014 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 435998009015 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 435998009016 inhibitor-cofactor binding pocket; inhibition site 435998009017 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998009018 catalytic residue [active] 435998009019 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 435998009020 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435998009021 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 435998009022 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 435998009023 Walker A/P-loop; other site 435998009024 ATP binding site [chemical binding]; other site 435998009025 Q-loop/lid; other site 435998009026 ABC transporter signature motif; other site 435998009027 Walker B; other site 435998009028 D-loop; other site 435998009029 H-loop/switch region; other site 435998009030 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 435998009031 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 435998009032 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 435998009033 Walker A/P-loop; other site 435998009034 ATP binding site [chemical binding]; other site 435998009035 Q-loop/lid; other site 435998009036 ABC transporter signature motif; other site 435998009037 Walker B; other site 435998009038 D-loop; other site 435998009039 H-loop/switch region; other site 435998009040 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 435998009041 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 435998009042 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 435998009043 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 435998009044 dimer interface [polypeptide binding]; other site 435998009045 conserved gate region; other site 435998009046 putative PBP binding loops; other site 435998009047 ABC-ATPase subunit interface; other site 435998009048 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 435998009049 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 435998009050 dimer interface [polypeptide binding]; other site 435998009051 conserved gate region; other site 435998009052 putative PBP binding loops; other site 435998009053 ABC-ATPase subunit interface; other site 435998009054 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 435998009055 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; cd00995 435998009056 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 435998009057 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998009058 DNA-binding site [nucleotide binding]; DNA binding site 435998009059 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 435998009060 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998009061 homodimer interface [polypeptide binding]; other site 435998009062 catalytic residue [active] 435998009063 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 435998009064 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 435998009065 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 435998009066 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 435998009067 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 435998009068 Fatty acid desaturase; Region: FA_desaturase; pfam00487 435998009069 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 435998009070 putative di-iron ligands [ion binding]; other site 435998009071 Fatty acid desaturase; Region: FA_desaturase; pfam00487 435998009072 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 435998009073 putative di-iron ligands [ion binding]; other site 435998009074 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 435998009075 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 435998009076 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 435998009077 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 435998009078 active site 435998009079 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 435998009080 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 435998009081 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 435998009082 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 435998009083 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07204 435998009084 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 435998009085 dimer interface [polypeptide binding]; other site 435998009086 active site 435998009087 CoA binding pocket [chemical binding]; other site 435998009088 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 435998009089 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 435998009090 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 435998009091 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 435998009092 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 435998009093 [4Fe-4S] binding site [ion binding]; other site 435998009094 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 435998009095 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 435998009096 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 435998009097 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 435998009098 molybdopterin cofactor binding site; other site 435998009099 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 435998009100 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 435998009101 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 435998009102 active site 435998009103 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435998009104 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 435998009105 putative ADP-binding pocket [chemical binding]; other site 435998009106 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 435998009107 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 435998009108 active site 435998009109 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 435998009110 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 435998009111 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 435998009112 tyrosine kinase; Provisional; Region: PRK11519 435998009113 Chain length determinant protein; Region: Wzz; pfam02706 435998009114 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 435998009115 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 435998009116 polysaccharide export protein Wza; Provisional; Region: PRK15078 435998009117 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 435998009118 SLBB domain; Region: SLBB; pfam10531 435998009119 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 435998009120 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 435998009121 Mg++ binding site [ion binding]; other site 435998009122 putative catalytic motif [active] 435998009123 substrate binding site [chemical binding]; other site 435998009124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435998009125 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 435998009126 NAD(P) binding site [chemical binding]; other site 435998009127 active site 435998009128 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 435998009129 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 435998009130 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 435998009131 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 435998009132 dimerization interface [polypeptide binding]; other site 435998009133 Histidine kinase; Region: HisKA_3; pfam07730 435998009134 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998009135 ATP binding site [chemical binding]; other site 435998009136 Mg2+ binding site [ion binding]; other site 435998009137 G-X-G motif; other site 435998009138 transcriptional regulator NarL; Provisional; Region: PRK10651 435998009139 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998009140 active site 435998009141 phosphorylation site [posttranslational modification] 435998009142 intermolecular recognition site; other site 435998009143 dimerization interface [polypeptide binding]; other site 435998009144 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 435998009145 DNA binding residues [nucleotide binding] 435998009146 dimerization interface [polypeptide binding]; other site 435998009147 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 435998009148 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 435998009149 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_7; cd08512 435998009150 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 435998009151 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 435998009152 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 435998009153 Walker A/P-loop; other site 435998009154 ATP binding site [chemical binding]; other site 435998009155 Q-loop/lid; other site 435998009156 ABC transporter signature motif; other site 435998009157 Walker B; other site 435998009158 D-loop; other site 435998009159 H-loop/switch region; other site 435998009160 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 435998009161 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 435998009162 Walker A/P-loop; other site 435998009163 ATP binding site [chemical binding]; other site 435998009164 Q-loop/lid; other site 435998009165 ABC transporter signature motif; other site 435998009166 Walker B; other site 435998009167 D-loop; other site 435998009168 H-loop/switch region; other site 435998009169 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 435998009170 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 435998009171 dimer interface [polypeptide binding]; other site 435998009172 conserved gate region; other site 435998009173 putative PBP binding loops; other site 435998009174 ABC-ATPase subunit interface; other site 435998009175 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 435998009176 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 435998009177 dimer interface [polypeptide binding]; other site 435998009178 conserved gate region; other site 435998009179 putative PBP binding loops; other site 435998009180 ABC-ATPase subunit interface; other site 435998009181 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_7; cd08512 435998009182 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 435998009183 transcriptional regulator Cbl; Reviewed; Region: cbl; PRK12679 435998009184 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 435998009185 substrate binding site [chemical binding]; other site 435998009186 dimerization interface [polypeptide binding]; other site 435998009187 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 435998009188 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 435998009189 putative active site pocket [active] 435998009190 dimerization interface [polypeptide binding]; other site 435998009191 putative catalytic residue [active] 435998009192 cation transport regulator; Reviewed; Region: chaB; PRK09582 435998009193 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 435998009194 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 435998009195 FAD binding pocket [chemical binding]; other site 435998009196 FAD binding motif [chemical binding]; other site 435998009197 phosphate binding motif [ion binding]; other site 435998009198 NAD binding pocket [chemical binding]; other site 435998009199 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 435998009200 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 435998009201 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 435998009202 portal vertex protein; Provisional; Region: Q; PHA02536 435998009203 Phage portal protein; Region: Phage_portal; pfam04860 435998009204 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 435998009205 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 435998009206 hypothetical protein; Provisional; Region: PRK10536 435998009207 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 435998009208 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 435998009209 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 435998009210 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 435998009211 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 435998009212 Imelysin; Region: Peptidase_M75; pfam09375 435998009213 Iron permease FTR1 family; Region: FTR1; cl00475 435998009214 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 435998009215 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 435998009216 Na binding site [ion binding]; other site 435998009217 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 435998009218 Predicted transcriptional regulator [Transcription]; Region: COG3905 435998009219 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 435998009220 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 435998009221 Glutamate binding site [chemical binding]; other site 435998009222 NAD binding site [chemical binding]; other site 435998009223 catalytic residues [active] 435998009224 YcfA-like protein; Region: YcfA; pfam07927 435998009225 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 435998009226 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 435998009227 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 435998009228 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 435998009229 Walker A/P-loop; other site 435998009230 ATP binding site [chemical binding]; other site 435998009231 Q-loop/lid; other site 435998009232 ABC transporter signature motif; other site 435998009233 Walker B; other site 435998009234 D-loop; other site 435998009235 H-loop/switch region; other site 435998009236 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 435998009237 dimer interface [polypeptide binding]; other site 435998009238 conserved gate region; other site 435998009239 putative PBP binding loops; other site 435998009240 ABC-ATPase subunit interface; other site 435998009241 cystine transporter subunit; Provisional; Region: PRK11260 435998009242 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 435998009243 substrate binding pocket [chemical binding]; other site 435998009244 membrane-bound complex binding site; other site 435998009245 hinge residues; other site 435998009246 D-cysteine desulfhydrase; Validated; Region: PRK03910 435998009247 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 435998009248 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998009249 catalytic residue [active] 435998009250 flagella biosynthesis protein FliZ; Provisional; Region: PRK11582 435998009251 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 435998009252 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435998009253 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 435998009254 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 435998009255 DNA binding residues [nucleotide binding] 435998009256 flagellin; Validated; Region: PRK06819 435998009257 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 435998009258 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 435998009259 flagellar capping protein; Reviewed; Region: fliD; PRK08032 435998009260 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 435998009261 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 435998009262 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 435998009263 flagellar protein FliS; Validated; Region: fliS; PRK05685 435998009264 flagellar biosynthesis protein FliT; Provisional; Region: PRK10548 435998009265 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 435998009266 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998009267 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998009268 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998009269 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 435998009270 putative effector binding pocket; other site 435998009271 putative dimerization interface [polypeptide binding]; other site 435998009272 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 435998009273 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 435998009274 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 435998009275 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 435998009276 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 435998009277 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 435998009278 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 435998009279 FliG C-terminal domain; Region: FliG_C; pfam01706 435998009280 flagellar assembly protein H; Validated; Region: fliH; PRK05687 435998009281 Flagellar assembly protein FliH; Region: FliH; pfam02108 435998009282 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 435998009283 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 435998009284 Walker A motif/ATP binding site; other site 435998009285 Walker B motif; other site 435998009286 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 435998009287 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 435998009288 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 435998009289 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 435998009290 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 435998009291 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 435998009292 flagellar motor switch protein FliN; Validated; Region: fliN; PRK07963 435998009293 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 435998009294 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 435998009295 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 435998009296 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 435998009297 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 435998009298 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 435998009299 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 435998009300 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 435998009301 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 435998009302 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 435998009303 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 435998009304 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 435998009305 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 435998009306 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 435998009307 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 435998009308 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 435998009309 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 435998009310 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 435998009311 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 435998009312 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgF; COG4787 435998009313 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 435998009314 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 435998009315 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 435998009316 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 435998009317 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 435998009318 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 435998009319 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 435998009320 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 435998009321 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 435998009322 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 435998009323 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 435998009324 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 435998009325 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 435998009326 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 435998009327 SAF-like; Region: SAF_2; pfam13144 435998009328 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 435998009329 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 435998009330 FlgN protein; Region: FlgN; cl09176 435998009331 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 435998009332 Predicted transcriptional regulator [Transcription]; Region: COG2944 435998009333 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 435998009334 non-specific DNA binding site [nucleotide binding]; other site 435998009335 salt bridge; other site 435998009336 sequence-specific DNA binding site [nucleotide binding]; other site 435998009337 Flagellar protein FlhE; Region: FlhE; pfam06366 435998009338 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 435998009339 FHIPEP family; Region: FHIPEP; pfam00771 435998009340 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK12468 435998009341 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 435998009342 chemotaxis regulator CheZ; Provisional; Region: PRK11166 435998009343 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 435998009344 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998009345 active site 435998009346 phosphorylation site [posttranslational modification] 435998009347 intermolecular recognition site; other site 435998009348 dimerization interface [polypeptide binding]; other site 435998009349 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 435998009350 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998009351 active site 435998009352 phosphorylation site [posttranslational modification] 435998009353 intermolecular recognition site; other site 435998009354 dimerization interface [polypeptide binding]; other site 435998009355 CheB methylesterase; Region: CheB_methylest; pfam01339 435998009356 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 435998009357 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 435998009358 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 435998009359 methyl-accepting protein IV; Provisional; Region: PRK09793 435998009360 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 435998009361 dimer interface [polypeptide binding]; other site 435998009362 ligand binding site [chemical binding]; other site 435998009363 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 435998009364 dimerization interface [polypeptide binding]; other site 435998009365 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 435998009366 dimer interface [polypeptide binding]; other site 435998009367 putative CheW interface [polypeptide binding]; other site 435998009368 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 435998009369 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 435998009370 dimer interface [polypeptide binding]; other site 435998009371 ligand binding site [chemical binding]; other site 435998009372 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 435998009373 dimerization interface [polypeptide binding]; other site 435998009374 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 435998009375 dimer interface [polypeptide binding]; other site 435998009376 putative CheW interface [polypeptide binding]; other site 435998009377 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 435998009378 putative CheA interaction surface; other site 435998009379 chemotaxis protein CheA; Provisional; Region: PRK10547 435998009380 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 435998009381 putative binding surface; other site 435998009382 active site 435998009383 CheY binding; Region: CheY-binding; pfam09078 435998009384 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 435998009385 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998009386 ATP binding site [chemical binding]; other site 435998009387 Mg2+ binding site [ion binding]; other site 435998009388 G-X-G motif; other site 435998009389 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 435998009390 flagellar motor protein MotB; Validated; Region: motB; PRK09041 435998009391 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 435998009392 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 435998009393 ligand binding site [chemical binding]; other site 435998009394 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 435998009395 flagellar motor protein MotA; Validated; Region: PRK09110 435998009396 transcriptional activator FlhC; Provisional; Region: PRK12722 435998009397 transcriptional activator FlhD; Provisional; Region: PRK02909 435998009398 Haemolysin expression modulating protein; Region: HHA; cl11501 435998009399 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 435998009400 Ligand Binding Site [chemical binding]; other site 435998009401 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 435998009402 Prostaglandin dehydrogenases; Region: PGDH; cd05288 435998009403 NAD(P) binding site [chemical binding]; other site 435998009404 substrate binding site [chemical binding]; other site 435998009405 dimer interface [polypeptide binding]; other site 435998009406 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 435998009407 putative substrate binding pocket [chemical binding]; other site 435998009408 AC domain interface; other site 435998009409 catalytic triad [active] 435998009410 AB domain interface; other site 435998009411 interchain disulfide; other site 435998009412 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 435998009413 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998009414 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 435998009415 substrate binding pocket [chemical binding]; other site 435998009416 dimerization interface [polypeptide binding]; other site 435998009417 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 435998009418 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 435998009419 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 435998009420 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 435998009421 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 435998009422 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 435998009423 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 435998009424 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 435998009425 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 435998009426 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 435998009427 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 435998009428 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 435998009429 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 435998009430 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 435998009431 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 435998009432 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 435998009433 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 435998009434 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 435998009435 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 435998009436 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 435998009437 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 435998009438 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 435998009439 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 435998009440 ligand binding site [chemical binding]; other site 435998009441 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 435998009442 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 435998009443 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 435998009444 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; pfam09867 435998009445 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 435998009446 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 435998009447 Protein of unknown function (DUF770); Region: DUF770; pfam05591 435998009448 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 435998009449 Protein of unknown function (DUF877); Region: DUF877; pfam05943 435998009450 Protein of unknown function (DUF796); Region: DUF796; pfam05638 435998009451 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 435998009452 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 435998009453 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 435998009454 Protein of unknown function (DUF4225); Region: DUF4225; pfam13988 435998009455 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 435998009456 phosphopeptide binding site; other site 435998009457 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 435998009458 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 435998009459 active site 435998009460 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 435998009461 ImpE protein; Region: ImpE; pfam07024 435998009462 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 435998009463 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 435998009464 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 435998009465 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 435998009466 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 435998009467 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998009468 Walker A motif; other site 435998009469 ATP binding site [chemical binding]; other site 435998009470 Walker B motif; other site 435998009471 arginine finger; other site 435998009472 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998009473 Walker A motif; other site 435998009474 ATP binding site [chemical binding]; other site 435998009475 Walker B motif; other site 435998009476 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 435998009477 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 435998009478 Catalytic domain of Protein Kinases; Region: PKc; cd00180 435998009479 active site 435998009480 ATP binding site [chemical binding]; other site 435998009481 substrate binding site [chemical binding]; other site 435998009482 activation loop (A-loop); other site 435998009483 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 435998009484 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 435998009485 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 435998009486 DNA gyrase inhibitor; Provisional; Region: PRK10016 435998009487 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 435998009488 Transcriptional regulators [Transcription]; Region: PurR; COG1609 435998009489 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 435998009490 DNA binding site [nucleotide binding] 435998009491 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 435998009492 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 435998009493 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 435998009494 putative substrate translocation pore; other site 435998009495 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 435998009496 classical (c) SDRs; Region: SDR_c; cd05233 435998009497 NAD(P) binding site [chemical binding]; other site 435998009498 active site 435998009499 RbsD / FucU transport protein family; Region: RbsD_FucU; pfam05025 435998009500 Colicin pore forming domain; Region: Colicin; pfam01024 435998009501 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 435998009502 MarR family; Region: MarR_2; pfam12802 435998009503 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 435998009504 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 435998009505 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 435998009506 dimer interface [polypeptide binding]; other site 435998009507 TPP-binding site [chemical binding]; other site 435998009508 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 435998009509 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 435998009510 active site 435998009511 DNA binding site [nucleotide binding] 435998009512 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 435998009513 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 435998009514 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 435998009515 Catalytic site [active] 435998009516 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 435998009517 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 435998009518 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 435998009519 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 435998009520 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 435998009521 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 435998009522 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 435998009523 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 435998009524 Bacterial transcriptional regulator; Region: IclR; pfam01614 435998009525 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 435998009526 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 435998009527 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 435998009528 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 435998009529 dimer interface [polypeptide binding]; other site 435998009530 active site 435998009531 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 435998009532 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 435998009533 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 435998009534 octamer interface [polypeptide binding]; other site 435998009535 active site 435998009536 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 435998009537 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 435998009538 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 435998009539 dimer interface [polypeptide binding]; other site 435998009540 active site 435998009541 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 435998009542 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 435998009543 iron-sulfur cluster [ion binding]; other site 435998009544 [2Fe-2S] cluster binding site [ion binding]; other site 435998009545 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 435998009546 putative alpha subunit interface [polypeptide binding]; other site 435998009547 putative active site [active] 435998009548 putative substrate binding site [chemical binding]; other site 435998009549 Fe binding site [ion binding]; other site 435998009550 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 435998009551 inter-subunit interface; other site 435998009552 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 435998009553 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 435998009554 catalytic loop [active] 435998009555 iron binding site [ion binding]; other site 435998009556 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 435998009557 FAD binding pocket [chemical binding]; other site 435998009558 FAD binding motif [chemical binding]; other site 435998009559 phosphate binding motif [ion binding]; other site 435998009560 beta-alpha-beta structure motif; other site 435998009561 NAD binding pocket [chemical binding]; other site 435998009562 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 435998009563 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 435998009564 putative NAD(P) binding site [chemical binding]; other site 435998009565 active site 435998009566 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 435998009567 ArsC family; Region: ArsC; pfam03960 435998009568 catalytic residues [active] 435998009569 arsenical pump membrane protein; Provisional; Region: PRK15445 435998009570 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 435998009571 transmembrane helices; other site 435998009572 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 435998009573 dimerization interface [polypeptide binding]; other site 435998009574 putative DNA binding site [nucleotide binding]; other site 435998009575 putative Zn2+ binding site [ion binding]; other site 435998009576 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 435998009577 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 435998009578 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 435998009579 magnesium-transporting ATPase; Provisional; Region: PRK15122 435998009580 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 435998009581 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 435998009582 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 435998009583 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 435998009584 Soluble P-type ATPase [General function prediction only]; Region: COG4087 435998009585 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 435998009586 magnesium transport protein MgtC; Provisional; Region: PRK15385 435998009587 MgtC family; Region: MgtC; pfam02308 435998009588 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 435998009589 CoA-transferase family III; Region: CoA_transf_3; pfam02515 435998009590 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 435998009591 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998009592 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 435998009593 dimerization interface [polypeptide binding]; other site 435998009594 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 435998009595 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 435998009596 catalytic residue [active] 435998009597 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 435998009598 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 435998009599 colanic acid capsular biosynthesis activation protein A; Provisional; Region: rcsA; PRK15411 435998009600 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 435998009601 DNA binding residues [nucleotide binding] 435998009602 dimerization interface [polypeptide binding]; other site 435998009603 hypothetical protein; Provisional; Region: PRK10708 435998009604 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 435998009605 DNA-binding site [nucleotide binding]; DNA binding site 435998009606 RNA-binding motif; other site 435998009607 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 435998009608 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 435998009609 NAD(P) binding site [chemical binding]; other site 435998009610 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 435998009611 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 435998009612 NAD(P) binding site [chemical binding]; other site 435998009613 active site 435998009614 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998009615 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998009616 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 435998009617 putative effector binding pocket; other site 435998009618 dimerization interface [polypeptide binding]; other site 435998009619 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 435998009620 hypothetical protein; Provisional; Region: PRK10457 435998009621 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 435998009622 putative acyl-acceptor binding pocket; other site 435998009623 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 435998009624 dimer interface [polypeptide binding]; other site 435998009625 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 435998009626 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 435998009627 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 435998009628 metal binding site [ion binding]; metal-binding site 435998009629 active site 435998009630 I-site; other site 435998009631 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 435998009632 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 435998009633 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 435998009634 substrate binding site [chemical binding]; other site 435998009635 dimer interface [polypeptide binding]; other site 435998009636 NADP binding site [chemical binding]; other site 435998009637 catalytic residues [active] 435998009638 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 435998009639 substrate binding site [chemical binding]; other site 435998009640 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 435998009641 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 435998009642 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 435998009643 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 435998009644 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 435998009645 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 435998009646 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 435998009647 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 435998009648 FAD binding pocket [chemical binding]; other site 435998009649 FAD binding motif [chemical binding]; other site 435998009650 phosphate binding motif [ion binding]; other site 435998009651 beta-alpha-beta structure motif; other site 435998009652 NAD(p) ribose binding residues [chemical binding]; other site 435998009653 NAD binding pocket [chemical binding]; other site 435998009654 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 435998009655 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 435998009656 catalytic loop [active] 435998009657 iron binding site [ion binding]; other site 435998009658 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 435998009659 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 435998009660 substrate binding site [chemical binding]; other site 435998009661 oxyanion hole (OAH) forming residues; other site 435998009662 trimer interface [polypeptide binding]; other site 435998009663 enoyl-CoA hydratase; Provisional; Region: PRK08140 435998009664 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 435998009665 substrate binding site [chemical binding]; other site 435998009666 oxyanion hole (OAH) forming residues; other site 435998009667 trimer interface [polypeptide binding]; other site 435998009668 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 435998009669 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 435998009670 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 435998009671 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 435998009672 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 435998009673 CoenzymeA binding site [chemical binding]; other site 435998009674 subunit interaction site [polypeptide binding]; other site 435998009675 PHB binding site; other site 435998009676 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 435998009677 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 435998009678 dimer interface [polypeptide binding]; other site 435998009679 active site 435998009680 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 435998009681 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 435998009682 active site 435998009683 AMP binding site [chemical binding]; other site 435998009684 homodimer interface [polypeptide binding]; other site 435998009685 acyl-activating enzyme (AAE) consensus motif; other site 435998009686 CoA binding site [chemical binding]; other site 435998009687 PaaX-like protein; Region: PaaX; pfam07848 435998009688 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 435998009689 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 435998009690 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 435998009691 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 435998009692 putative trimer interface [polypeptide binding]; other site 435998009693 putative metal binding site [ion binding]; other site 435998009694 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 435998009695 Spore germination protein; Region: Spore_permease; cl17796 435998009696 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 435998009697 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 435998009698 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998009699 homodimer interface [polypeptide binding]; other site 435998009700 catalytic residue [active] 435998009701 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 435998009702 homotrimer interaction site [polypeptide binding]; other site 435998009703 putative active site [active] 435998009704 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 435998009705 LysR family transcriptional regulator; Provisional; Region: PRK14997 435998009706 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998009707 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 435998009708 putative effector binding pocket; other site 435998009709 putative dimerization interface [polypeptide binding]; other site 435998009710 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 435998009711 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 435998009712 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 435998009713 putative N-terminal domain interface [polypeptide binding]; other site 435998009714 putative dimer interface [polypeptide binding]; other site 435998009715 putative substrate binding pocket (H-site) [chemical binding]; other site 435998009716 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 435998009717 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 435998009718 Glycogen synthesis protein; Region: GlgS; cl11663 435998009719 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 435998009720 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 435998009721 tetramerization interface [polypeptide binding]; other site 435998009722 NAD(P) binding site [chemical binding]; other site 435998009723 catalytic residues [active] 435998009724 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 435998009725 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 435998009726 dimer interface [polypeptide binding]; other site 435998009727 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 435998009728 ligand binding site [chemical binding]; other site 435998009729 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 435998009730 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998009731 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998009732 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 435998009733 putative effector binding pocket; other site 435998009734 putative dimerization interface [polypeptide binding]; other site 435998009735 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 435998009736 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 435998009737 active site 435998009738 catalytic tetrad [active] 435998009739 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 435998009740 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 435998009741 N-terminal plug; other site 435998009742 ligand-binding site [chemical binding]; other site 435998009743 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 435998009744 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 435998009745 Trp docking motif [polypeptide binding]; other site 435998009746 putative active site [active] 435998009747 MATE family multidrug exporter; Provisional; Region: PRK10189 435998009748 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 435998009749 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 435998009750 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 435998009751 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 435998009752 putative active site [active] 435998009753 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 435998009754 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 435998009755 Walker A/P-loop; other site 435998009756 ATP binding site [chemical binding]; other site 435998009757 Q-loop/lid; other site 435998009758 ABC transporter signature motif; other site 435998009759 Walker B; other site 435998009760 D-loop; other site 435998009761 H-loop/switch region; other site 435998009762 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 435998009763 HlyD family secretion protein; Region: HlyD_3; pfam13437 435998009764 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998009765 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 435998009766 PapC N-terminal domain; Region: PapC_N; pfam13954 435998009767 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 435998009768 PapC C-terminal domain; Region: PapC_C; pfam13953 435998009769 fimbrial assembly chaperone SthB; Provisional; Region: PRK15295 435998009770 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 435998009771 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 435998009772 Fimbrial protein; Region: Fimbrial; cl01416 435998009773 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; cl01750 435998009774 variant surface antigen, rifin family; Region: RIFIN; TIGR01477 435998009775 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 435998009776 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 435998009777 active site 435998009778 motif I; other site 435998009779 motif II; other site 435998009780 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 435998009781 Condensation domain; Region: Condensation; pfam00668 435998009782 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 435998009783 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 435998009784 acyl-activating enzyme (AAE) consensus motif; other site 435998009785 AMP binding site [chemical binding]; other site 435998009786 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 435998009787 Condensation domain; Region: Condensation; pfam00668 435998009788 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 435998009789 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 435998009790 Condensation domain; Region: Condensation; pfam00668 435998009791 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 435998009792 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 435998009793 DNA binding residues [nucleotide binding] 435998009794 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 435998009795 dimerization interface [polypeptide binding]; other site 435998009796 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 435998009797 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 435998009798 G1 box; other site 435998009799 GTP/Mg2+ binding site [chemical binding]; other site 435998009800 G2 box; other site 435998009801 G3 box; other site 435998009802 Switch II region; other site 435998009803 G4 box; other site 435998009804 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 435998009805 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 435998009806 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 435998009807 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 435998009808 ligand binding site [chemical binding]; other site 435998009809 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 435998009810 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 435998009811 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 435998009812 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 435998009813 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 435998009814 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 435998009815 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 435998009816 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 435998009817 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 435998009818 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 435998009819 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 435998009820 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 435998009821 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 435998009822 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 435998009823 Clp amino terminal domain; Region: Clp_N; pfam02861 435998009824 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998009825 Walker A motif; other site 435998009826 ATP binding site [chemical binding]; other site 435998009827 Walker B motif; other site 435998009828 arginine finger; other site 435998009829 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998009830 Walker A motif; other site 435998009831 ATP binding site [chemical binding]; other site 435998009832 Walker B motif; other site 435998009833 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 435998009834 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 435998009835 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 435998009836 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 435998009837 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 435998009838 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 435998009839 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 435998009840 Protein of unknown function (DUF877); Region: DUF877; pfam05943 435998009841 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 435998009842 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 435998009843 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 435998009844 DoxX; Region: DoxX; pfam07681 435998009845 Helix-turn-helix domain; Region: HTH_39; pfam14090 435998009846 MarR family; Region: MarR; pfam01047 435998009847 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 435998009848 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 435998009849 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 435998009850 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 435998009851 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 435998009852 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 435998009853 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 435998009854 conserved cys residue [active] 435998009855 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998009856 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998009857 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435998009858 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 435998009859 NAD(P) binding site [chemical binding]; other site 435998009860 active site 435998009861 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 435998009862 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 435998009863 Putative transcription activator [Transcription]; Region: TenA; COG0819 435998009864 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 435998009865 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998009866 Walker A/P-loop; other site 435998009867 ATP binding site [chemical binding]; other site 435998009868 Q-loop/lid; other site 435998009869 ABC transporter signature motif; other site 435998009870 Walker B; other site 435998009871 D-loop; other site 435998009872 H-loop/switch region; other site 435998009873 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 435998009874 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 435998009875 dimer interface [polypeptide binding]; other site 435998009876 conserved gate region; other site 435998009877 putative PBP binding loops; other site 435998009878 ABC-ATPase subunit interface; other site 435998009879 NMT1/THI5 like; Region: NMT1; pfam09084 435998009880 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 435998009881 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 435998009882 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 435998009883 substrate binding pocket [chemical binding]; other site 435998009884 membrane-bound complex binding site; other site 435998009885 hinge residues; other site 435998009886 phosphoglycerol transferase I; Provisional; Region: PRK03776 435998009887 AMP nucleosidase; Provisional; Region: PRK08292 435998009888 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 435998009889 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 435998009890 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 435998009891 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998009892 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 435998009893 putative dimerization interface [polypeptide binding]; other site 435998009894 Protein of unknown function, DUF606; Region: DUF606; cl01273 435998009895 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 435998009896 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 435998009897 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 435998009898 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 435998009899 sequence-specific DNA binding site [nucleotide binding]; other site 435998009900 salt bridge; other site 435998009901 Cupin domain; Region: Cupin_2; pfam07883 435998009902 Protein of unknown function (DUF2623); Region: DUF2623; pfam11115 435998009903 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 435998009904 putative FMN binding site [chemical binding]; other site 435998009905 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 435998009906 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998009907 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 435998009908 dimerization interface [polypeptide binding]; other site 435998009909 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 435998009910 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 435998009911 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 435998009912 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 435998009913 Flavin binding site [chemical binding]; other site 435998009914 benzoate transport; Region: 2A0115; TIGR00895 435998009915 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 435998009916 putative substrate translocation pore; other site 435998009917 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 435998009918 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 435998009919 dimer interface [polypeptide binding]; other site 435998009920 conserved gate region; other site 435998009921 ABC-ATPase subunit interface; other site 435998009922 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 435998009923 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998009924 Walker A/P-loop; other site 435998009925 ATP binding site [chemical binding]; other site 435998009926 Q-loop/lid; other site 435998009927 ABC transporter signature motif; other site 435998009928 Walker B; other site 435998009929 D-loop; other site 435998009930 H-loop/switch region; other site 435998009931 NIL domain; Region: NIL; pfam09383 435998009932 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 435998009933 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 435998009934 active site 435998009935 non-prolyl cis peptide bond; other site 435998009936 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 435998009937 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 435998009938 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 435998009939 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 435998009940 active site 435998009941 dimer interface [polypeptide binding]; other site 435998009942 non-prolyl cis peptide bond; other site 435998009943 insertion regions; other site 435998009944 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 435998009945 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998009946 Walker A motif; other site 435998009947 ATP binding site [chemical binding]; other site 435998009948 Walker B motif; other site 435998009949 arginine finger; other site 435998009950 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 435998009951 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 435998009952 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 435998009953 substrate binding pocket [chemical binding]; other site 435998009954 membrane-bound complex binding site; other site 435998009955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 435998009956 alkylhydroperoxidase domain protein, Avi_7169 family; Region: perox_Avi_7169; TIGR04030 435998009957 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 435998009958 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 435998009959 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 435998009960 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 435998009961 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 435998009962 Walker A/P-loop; other site 435998009963 ATP binding site [chemical binding]; other site 435998009964 Q-loop/lid; other site 435998009965 ABC transporter signature motif; other site 435998009966 Walker B; other site 435998009967 D-loop; other site 435998009968 H-loop/switch region; other site 435998009969 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 435998009970 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 435998009971 Walker A/P-loop; other site 435998009972 ATP binding site [chemical binding]; other site 435998009973 Q-loop/lid; other site 435998009974 ABC transporter signature motif; other site 435998009975 Walker B; other site 435998009976 D-loop; other site 435998009977 H-loop/switch region; other site 435998009978 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 435998009979 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 435998009980 putative PBP binding loops; other site 435998009981 ABC-ATPase subunit interface; other site 435998009982 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 435998009983 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 435998009984 dimer interface [polypeptide binding]; other site 435998009985 conserved gate region; other site 435998009986 putative PBP binding loops; other site 435998009987 ABC-ATPase subunit interface; other site 435998009988 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 435998009989 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_15; cd08492 435998009990 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 435998009991 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 435998009992 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998009993 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998009994 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 435998009995 putative effector binding pocket; other site 435998009996 dimerization interface [polypeptide binding]; other site 435998009997 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 435998009998 Predicted permeases [General function prediction only]; Region: RarD; COG2962 435998009999 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 435998010000 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 435998010001 putative NAD(P) binding site [chemical binding]; other site 435998010002 active site 435998010003 isochorismate synthase EntC; Provisional; Region: PRK15016 435998010004 chorismate binding enzyme; Region: Chorismate_bind; cl10555 435998010005 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 435998010006 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 435998010007 Uncharacterized conserved protein [Function unknown]; Region: COG2361 435998010008 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 435998010009 active site 435998010010 NTP binding site [chemical binding]; other site 435998010011 metal binding triad [ion binding]; metal-binding site 435998010012 antibiotic binding site [chemical binding]; other site 435998010013 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 435998010014 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 435998010015 catalytic core [active] 435998010016 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 435998010017 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 435998010018 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 435998010019 transmembrane helices; other site 435998010020 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 435998010021 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; pfam03802 435998010022 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 435998010023 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 435998010024 citrate lyase subunit gamma; Provisional; Region: PRK13253 435998010025 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 435998010026 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 435998010027 putative active site [active] 435998010028 (T/H)XGH motif; other site 435998010029 two-component response regulator DpiA; Provisional; Region: dpiA; PRK10046 435998010030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998010031 active site 435998010032 phosphorylation site [posttranslational modification] 435998010033 intermolecular recognition site; other site 435998010034 dimerization interface [polypeptide binding]; other site 435998010035 Transcriptional regulator; Region: CitT; pfam12431 435998010036 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 435998010037 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 435998010038 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 435998010039 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 435998010040 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 435998010041 short chain dehydrogenase; Provisional; Region: PRK06180 435998010042 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 435998010043 NADP binding site [chemical binding]; other site 435998010044 active site 435998010045 steroid binding site; other site 435998010046 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 435998010047 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998010048 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 435998010049 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 435998010050 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 435998010051 active site 435998010052 catalytic tetrad [active] 435998010053 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 435998010054 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 435998010055 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 435998010056 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 435998010057 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 435998010058 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 435998010059 putative substrate translocation pore; other site 435998010060 Uncharacterized conserved protein [Function unknown]; Region: COG4925 435998010061 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998010062 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998010063 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 435998010064 putative effector binding pocket; other site 435998010065 putative dimerization interface [polypeptide binding]; other site 435998010066 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 435998010067 nudix motif; other site 435998010068 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 435998010069 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998010070 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 435998010071 dimerization interface [polypeptide binding]; other site 435998010072 substrate binding pocket [chemical binding]; other site 435998010073 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 435998010074 Autoinducer binding domain; Region: Autoind_bind; pfam03472 435998010075 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 435998010076 DNA binding residues [nucleotide binding] 435998010077 dimerization interface [polypeptide binding]; other site 435998010078 chaperone protein HchA; Provisional; Region: PRK04155 435998010079 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 435998010080 conserved cys residue [active] 435998010081 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 435998010082 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 435998010083 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435998010084 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 435998010085 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 435998010086 NAD(P) binding site [chemical binding]; other site 435998010087 catalytic residues [active] 435998010088 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 435998010089 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 435998010090 dimer interface [polypeptide binding]; other site 435998010091 active site 435998010092 heme binding site [chemical binding]; other site 435998010093 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 435998010094 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 435998010095 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 435998010096 active site 435998010097 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 435998010098 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 435998010099 Transcription factor/nuclear export subunit protein 2; Region: Tho2; pfam11262 435998010100 S-type Pyocin; Region: Pyocin_S; pfam06958 435998010101 Nitronate monooxygenase; Region: NMO; pfam03060 435998010102 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 435998010103 FMN binding site [chemical binding]; other site 435998010104 substrate binding site [chemical binding]; other site 435998010105 putative catalytic residue [active] 435998010106 Transmembrane secretion effector; Region: MFS_3; pfam05977 435998010107 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 435998010108 Predicted membrane protein [Function unknown]; Region: COG2259 435998010109 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 435998010110 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 435998010111 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435998010112 benzoate transport; Region: 2A0115; TIGR00895 435998010113 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 435998010114 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 435998010115 putative substrate translocation pore; other site 435998010116 putative arabinose transporter; Provisional; Region: PRK03545 435998010117 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 435998010118 putative substrate translocation pore; other site 435998010119 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 435998010120 phenylcoumaran benzylic ether reductase (PCBER) like, atypical (a) SDRs; Region: PCBER_SDR_a; cd05259 435998010121 NmrA-like family; Region: NmrA; pfam05368 435998010122 NAD(P) binding site [chemical binding]; other site 435998010123 active site lysine 435998010124 Predicted transcriptional regulators [Transcription]; Region: COG1733 435998010125 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 435998010126 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 435998010127 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 435998010128 Walker A/P-loop; other site 435998010129 ATP binding site [chemical binding]; other site 435998010130 Q-loop/lid; other site 435998010131 ABC transporter signature motif; other site 435998010132 Walker B; other site 435998010133 D-loop; other site 435998010134 H-loop/switch region; other site 435998010135 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 435998010136 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 435998010137 Walker A/P-loop; other site 435998010138 ATP binding site [chemical binding]; other site 435998010139 Q-loop/lid; other site 435998010140 ABC transporter signature motif; other site 435998010141 Walker B; other site 435998010142 D-loop; other site 435998010143 H-loop/switch region; other site 435998010144 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 435998010145 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 435998010146 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 435998010147 TM-ABC transporter signature motif; other site 435998010148 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 435998010149 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 435998010150 TM-ABC transporter signature motif; other site 435998010151 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 435998010152 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 435998010153 dimerization interface [polypeptide binding]; other site 435998010154 ligand binding site [chemical binding]; other site 435998010155 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 435998010156 Old yellow enzyme (OYE)-related FMN binding domain, group 4. 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_4_FMN; cd04735 435998010157 putative active site [active] 435998010158 putative FMN binding site [chemical binding]; other site 435998010159 putative substrate binding site [chemical binding]; other site 435998010160 putative catalytic residue [active] 435998010161 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 435998010162 short chain dehydrogenase; Provisional; Region: PRK06180 435998010163 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 435998010164 NADP binding site [chemical binding]; other site 435998010165 active site 435998010166 steroid binding site; other site 435998010167 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 435998010168 classical (c) SDRs; Region: SDR_c; cd05233 435998010169 NAD(P) binding site [chemical binding]; other site 435998010170 active site 435998010171 atypical (a) SDRs, subgroup 6; Region: SDR_a6; cd05267 435998010172 NADH(P)-binding; Region: NAD_binding_10; pfam13460 435998010173 putative NAD(P) binding site [chemical binding]; other site 435998010174 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 435998010175 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 435998010176 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435998010177 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998010178 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998010179 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 435998010180 putative effector binding pocket; other site 435998010181 putative dimerization interface [polypeptide binding]; other site 435998010182 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 435998010183 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 435998010184 citrate-proton symporter; Provisional; Region: PRK15075 435998010185 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 435998010186 putative substrate translocation pore; other site 435998010187 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 435998010188 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 435998010189 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998010190 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998010191 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 435998010192 putative dimerization interface [polypeptide binding]; other site 435998010193 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 435998010194 acyl-CoA synthetase; Validated; Region: PRK09192 435998010195 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 435998010196 acyl-activating enzyme (AAE) consensus motif; other site 435998010197 active site 435998010198 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 435998010199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435998010200 NAD(P) binding site [chemical binding]; other site 435998010201 active site 435998010202 Phosphopantetheine attachment site; Region: PP-binding; cl09936 435998010203 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 435998010204 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 435998010205 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 435998010206 catalytic residue [active] 435998010207 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 435998010208 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 435998010209 TMP-binding site; other site 435998010210 ATP-binding site [chemical binding]; other site 435998010211 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 435998010212 active site 435998010213 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 435998010214 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 435998010215 active site 435998010216 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 435998010217 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 435998010218 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 435998010219 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; pfam09695 435998010220 Predicted permeases [General function prediction only]; Region: COG0795 435998010221 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 435998010222 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 435998010223 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 435998010224 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 435998010225 putative metal binding site; other site 435998010226 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 435998010227 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 435998010228 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 435998010229 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 435998010230 Beta-lactamase; Region: Beta-lactamase; pfam00144 435998010231 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 435998010232 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998010233 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998010234 LysR substrate binding domain; Region: LysR_substrate; pfam03466 435998010235 dimerization interface [polypeptide binding]; other site 435998010236 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998010237 AAA domain; Region: AAA_21; pfam13304 435998010238 Walker A/P-loop; other site 435998010239 ATP binding site [chemical binding]; other site 435998010240 Q-loop/lid; other site 435998010241 ABC transporter signature motif; other site 435998010242 Walker B; other site 435998010243 D-loop; other site 435998010244 H-loop/switch region; other site 435998010245 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 435998010246 putative active site [active] 435998010247 putative metal-binding site [ion binding]; other site 435998010248 Transcriptional regulators [Transcription]; Region: PurR; COG1609 435998010249 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998010250 DNA binding site [nucleotide binding] 435998010251 domain linker motif; other site 435998010252 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 435998010253 dimerization interface [polypeptide binding]; other site 435998010254 ligand binding site [chemical binding]; other site 435998010255 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 435998010256 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; cd00398 435998010257 intersubunit interface [polypeptide binding]; other site 435998010258 active site 435998010259 Zn2+ binding site [ion binding]; other site 435998010260 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 435998010261 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 435998010262 AP (apurinic/apyrimidinic) site pocket; other site 435998010263 DNA interaction; other site 435998010264 Metal-binding active site; metal-binding site 435998010265 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 435998010266 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 435998010267 putative N- and C-terminal domain interface [polypeptide binding]; other site 435998010268 putative active site [active] 435998010269 MgATP binding site [chemical binding]; other site 435998010270 catalytic site [active] 435998010271 metal binding site [ion binding]; metal-binding site 435998010272 putative xylulose binding site [chemical binding]; other site 435998010273 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 435998010274 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 435998010275 TM-ABC transporter signature motif; other site 435998010276 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 435998010277 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 435998010278 Walker A/P-loop; other site 435998010279 ATP binding site [chemical binding]; other site 435998010280 Q-loop/lid; other site 435998010281 ABC transporter signature motif; other site 435998010282 Walker B; other site 435998010283 D-loop; other site 435998010284 H-loop/switch region; other site 435998010285 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 435998010286 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 435998010287 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 435998010288 putative ligand binding site [chemical binding]; other site 435998010289 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 435998010290 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 435998010291 putative NAD(P) binding site [chemical binding]; other site 435998010292 catalytic Zn binding site [ion binding]; other site 435998010293 structural Zn binding site [ion binding]; other site 435998010294 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 435998010295 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998010296 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 435998010297 dimerization interface [polypeptide binding]; other site 435998010298 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 435998010299 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 435998010300 metal binding site [ion binding]; metal-binding site 435998010301 putative dimer interface [polypeptide binding]; other site 435998010302 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 435998010303 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 435998010304 substrate binding pocket [chemical binding]; other site 435998010305 membrane-bound complex binding site; other site 435998010306 hinge residues; other site 435998010307 hypothetical protein; Provisional; Region: PRK05423 435998010308 Predicted membrane protein [Function unknown]; Region: COG1289 435998010309 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 435998010310 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 435998010311 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 435998010312 amidase catalytic site [active] 435998010313 Zn binding residues [ion binding]; other site 435998010314 substrate binding site [chemical binding]; other site 435998010315 Predicted transcriptional regulator [Transcription]; Region: COG2932 435998010316 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 435998010317 Catalytic site [active] 435998010318 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435998010319 NAD(P) binding site [chemical binding]; other site 435998010320 active site 435998010321 DNA polymerase III, theta subunit; Region: DNA_pol3_theta; cl11635 435998010322 exonuclease I; Provisional; Region: sbcB; PRK11779 435998010323 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 435998010324 active site 435998010325 catalytic site [active] 435998010326 substrate binding site [chemical binding]; other site 435998010327 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 435998010328 amino acid transporter; Region: 2A0306; TIGR00909 435998010329 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 435998010330 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 435998010331 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 435998010332 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 435998010333 non-specific DNA binding site [nucleotide binding]; other site 435998010334 salt bridge; other site 435998010335 sequence-specific DNA binding site [nucleotide binding]; other site 435998010336 Cupin domain; Region: Cupin_2; pfam07883 435998010337 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 435998010338 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 435998010339 Walker A/P-loop; other site 435998010340 ATP binding site [chemical binding]; other site 435998010341 Q-loop/lid; other site 435998010342 ABC transporter signature motif; other site 435998010343 Walker B; other site 435998010344 D-loop; other site 435998010345 H-loop/switch region; other site 435998010346 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 435998010347 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 435998010348 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 435998010349 TM-ABC transporter signature motif; other site 435998010350 putative outer membrane receptor; Provisional; Region: PRK13513 435998010351 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 435998010352 N-terminal plug; other site 435998010353 ligand-binding site [chemical binding]; other site 435998010354 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 435998010355 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 435998010356 putative ligand binding residues [chemical binding]; other site 435998010357 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 435998010358 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 435998010359 Walker A/P-loop; other site 435998010360 ATP binding site [chemical binding]; other site 435998010361 Q-loop/lid; other site 435998010362 ABC transporter signature motif; other site 435998010363 Walker B; other site 435998010364 D-loop; other site 435998010365 H-loop/switch region; other site 435998010366 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 435998010367 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 435998010368 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 435998010369 ABC-ATPase subunit interface; other site 435998010370 dimer interface [polypeptide binding]; other site 435998010371 putative PBP binding regions; other site 435998010372 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 435998010373 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 435998010374 active site 435998010375 I-site; other site 435998010376 metal binding site [ion binding]; metal-binding site 435998010377 lysine transporter; Provisional; Region: PRK10836 435998010378 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 435998010379 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998010380 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 435998010381 putative dimerization interface [polypeptide binding]; other site 435998010382 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 435998010383 endonuclease IV; Provisional; Region: PRK01060 435998010384 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 435998010385 AP (apurinic/apyrimidinic) site pocket; other site 435998010386 DNA interaction; other site 435998010387 Metal-binding active site; metal-binding site 435998010388 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 435998010389 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 435998010390 conserved cys residue [active] 435998010391 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 435998010392 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 435998010393 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 435998010394 active site 435998010395 P-loop; other site 435998010396 phosphorylation site [posttranslational modification] 435998010397 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 435998010398 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 435998010399 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 435998010400 putative substrate binding site [chemical binding]; other site 435998010401 putative ATP binding site [chemical binding]; other site 435998010402 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 435998010403 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 435998010404 active site 435998010405 phosphorylation site [posttranslational modification] 435998010406 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 435998010407 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 435998010408 regulatory protein interface [polypeptide binding]; other site 435998010409 active site 435998010410 regulatory phosphorylation site [posttranslational modification]; other site 435998010411 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_19; cd04678 435998010412 nudix motif; other site 435998010413 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 435998010414 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 435998010415 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 435998010416 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 435998010417 molybdopterin cofactor binding site [chemical binding]; other site 435998010418 substrate binding site [chemical binding]; other site 435998010419 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 435998010420 molybdopterin cofactor binding site; other site 435998010421 Flagellin N-methylase; Region: FliB; cl00497 435998010422 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 435998010423 aromatic amino acid transport protein; Region: araaP; TIGR00837 435998010424 elongation factor P; Provisional; Region: PRK04542 435998010425 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 435998010426 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 435998010427 RNA binding site [nucleotide binding]; other site 435998010428 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 435998010429 RNA binding site [nucleotide binding]; other site 435998010430 mannonate dehydratase; Provisional; Region: PRK03906 435998010431 mannonate dehydratase; Region: uxuA; TIGR00695 435998010432 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 435998010433 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 435998010434 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 435998010435 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998010436 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 435998010437 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 435998010438 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 435998010439 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 435998010440 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 435998010441 active site 435998010442 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 435998010443 NlpC/P60 family; Region: NLPC_P60; pfam00877 435998010444 phage resistance protein; Provisional; Region: PRK10551 435998010445 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 435998010446 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 435998010447 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 435998010448 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 435998010449 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 435998010450 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 435998010451 dimer interface [polypeptide binding]; other site 435998010452 conserved gate region; other site 435998010453 putative PBP binding loops; other site 435998010454 ABC-ATPase subunit interface; other site 435998010455 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 435998010456 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 435998010457 dimer interface [polypeptide binding]; other site 435998010458 conserved gate region; other site 435998010459 putative PBP binding loops; other site 435998010460 ABC-ATPase subunit interface; other site 435998010461 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 435998010462 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 435998010463 Walker A/P-loop; other site 435998010464 ATP binding site [chemical binding]; other site 435998010465 Q-loop/lid; other site 435998010466 ABC transporter signature motif; other site 435998010467 Walker B; other site 435998010468 D-loop; other site 435998010469 H-loop/switch region; other site 435998010470 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 435998010471 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 435998010472 Walker A/P-loop; other site 435998010473 ATP binding site [chemical binding]; other site 435998010474 Q-loop/lid; other site 435998010475 ABC transporter signature motif; other site 435998010476 Walker B; other site 435998010477 D-loop; other site 435998010478 H-loop/switch region; other site 435998010479 hypothetical protein; Provisional; Region: PRK11835 435998010480 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 435998010481 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 435998010482 putative substrate translocation pore; other site 435998010483 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 435998010484 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 435998010485 RNA binding surface [nucleotide binding]; other site 435998010486 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 435998010487 active site 435998010488 uracil binding [chemical binding]; other site 435998010489 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 435998010490 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 435998010491 ATP binding site [chemical binding]; other site 435998010492 putative Mg++ binding site [ion binding]; other site 435998010493 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 435998010494 nucleotide binding region [chemical binding]; other site 435998010495 ATP-binding site [chemical binding]; other site 435998010496 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 435998010497 5S rRNA interface [nucleotide binding]; other site 435998010498 CTC domain interface [polypeptide binding]; other site 435998010499 L16 interface [polypeptide binding]; other site 435998010500 Nucleoid-associated protein [General function prediction only]; Region: COG3081 435998010501 nucleoid-associated protein NdpA; Validated; Region: PRK00378 435998010502 hypothetical protein; Provisional; Region: PRK13689 435998010503 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 435998010504 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 435998010505 Sulfatase; Region: Sulfatase; pfam00884 435998010506 HlyD family secretion protein; Region: HlyD; pfam00529 435998010507 HlyD family secretion protein; Region: HlyD_3; pfam13437 435998010508 tetrathionate reductase subunit A; Provisional; Region: PRK14991 435998010509 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 435998010510 putative [Fe4-S4] binding site [ion binding]; other site 435998010511 putative molybdopterin cofactor binding site [chemical binding]; other site 435998010512 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 435998010513 putative molybdopterin cofactor binding site; other site 435998010514 tetrathionate reductase subunit C; Provisional; Region: PRK14992 435998010515 tetrathionate reductase subunit B; Provisional; Region: PRK14993 435998010516 4Fe-4S binding domain; Region: Fer4; pfam00037 435998010517 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 435998010518 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 435998010519 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435998010520 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 435998010521 dimer interface [polypeptide binding]; other site 435998010522 phosphorylation site [posttranslational modification] 435998010523 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998010524 ATP binding site [chemical binding]; other site 435998010525 G-X-G motif; other site 435998010526 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 435998010527 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998010528 active site 435998010529 phosphorylation site [posttranslational modification] 435998010530 intermolecular recognition site; other site 435998010531 dimerization interface [polypeptide binding]; other site 435998010532 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 435998010533 DNA binding residues [nucleotide binding] 435998010534 dimerization interface [polypeptide binding]; other site 435998010535 DinI-like family; Region: DinI; pfam06183 435998010536 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 435998010537 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 435998010538 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998010539 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998010540 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 435998010541 dimerization interface [polypeptide binding]; other site 435998010542 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 435998010543 SnoaL-like domain; Region: SnoaL_2; pfam12680 435998010544 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 435998010545 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 435998010546 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 435998010547 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_13; cd08354 435998010548 putative metal binding site [ion binding]; other site 435998010549 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 435998010550 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 435998010551 trimer interface [polypeptide binding]; other site 435998010552 eyelet of channel; other site 435998010553 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 435998010554 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 435998010555 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998010556 ATP binding site [chemical binding]; other site 435998010557 Mg2+ binding site [ion binding]; other site 435998010558 G-X-G motif; other site 435998010559 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 435998010560 putative binding surface; other site 435998010561 active site 435998010562 transcriptional regulator RcsB; Provisional; Region: PRK10840 435998010563 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998010564 active site 435998010565 phosphorylation site [posttranslational modification] 435998010566 intermolecular recognition site; other site 435998010567 dimerization interface [polypeptide binding]; other site 435998010568 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 435998010569 DNA binding residues [nucleotide binding] 435998010570 dimerization interface [polypeptide binding]; other site 435998010571 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 435998010572 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 435998010573 dimer interface [polypeptide binding]; other site 435998010574 phosphorylation site [posttranslational modification] 435998010575 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998010576 ATP binding site [chemical binding]; other site 435998010577 Mg2+ binding site [ion binding]; other site 435998010578 G-X-G motif; other site 435998010579 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 435998010580 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998010581 active site 435998010582 phosphorylation site [posttranslational modification] 435998010583 intermolecular recognition site; other site 435998010584 dimerization interface [polypeptide binding]; other site 435998010585 DNA gyrase subunit A; Validated; Region: PRK05560 435998010586 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 435998010587 CAP-like domain; other site 435998010588 active site 435998010589 primary dimer interface [polypeptide binding]; other site 435998010590 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 435998010591 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 435998010592 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 435998010593 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 435998010594 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 435998010595 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 435998010596 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 435998010597 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 435998010598 S-adenosylmethionine binding site [chemical binding]; other site 435998010599 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 435998010600 ATP cone domain; Region: ATP-cone; pfam03477 435998010601 Class I ribonucleotide reductase; Region: RNR_I; cd01679 435998010602 active site 435998010603 dimer interface [polypeptide binding]; other site 435998010604 catalytic residues [active] 435998010605 effector binding site; other site 435998010606 R2 peptide binding site; other site 435998010607 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 435998010608 dimer interface [polypeptide binding]; other site 435998010609 putative radical transfer pathway; other site 435998010610 diiron center [ion binding]; other site 435998010611 tyrosyl radical; other site 435998010612 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 435998010613 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 435998010614 catalytic loop [active] 435998010615 iron binding site [ion binding]; other site 435998010616 Hok/gef family; Region: HOK_GEF; cl11494 435998010617 Helix-turn-helix domain; Region: HTH_18; pfam12833 435998010618 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998010619 hypothetical protein; Provisional; Region: PRK07236 435998010620 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 435998010621 hypothetical protein; Provisional; Region: PRK03673 435998010622 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 435998010623 putative MPT binding site; other site 435998010624 Competence-damaged protein; Region: CinA; cl00666 435998010625 tyrosine transporter TyrP; Provisional; Region: PRK15132 435998010626 aromatic amino acid transport protein; Region: araaP; TIGR00837 435998010627 YfaZ precursor; Region: YfaZ; pfam07437 435998010628 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 435998010629 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 435998010630 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 435998010631 tetramer interface [polypeptide binding]; other site 435998010632 heme binding pocket [chemical binding]; other site 435998010633 NADPH binding site [chemical binding]; other site 435998010634 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 435998010635 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 435998010636 acyl-activating enzyme (AAE) consensus motif; other site 435998010637 putative AMP binding site [chemical binding]; other site 435998010638 putative active site [active] 435998010639 putative CoA binding site [chemical binding]; other site 435998010640 O-succinylbenzoate synthase; Provisional; Region: PRK05105 435998010641 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 435998010642 active site 435998010643 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 435998010644 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 435998010645 substrate binding site [chemical binding]; other site 435998010646 oxyanion hole (OAH) forming residues; other site 435998010647 trimer interface [polypeptide binding]; other site 435998010648 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 435998010649 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 435998010650 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 435998010651 dimer interface [polypeptide binding]; other site 435998010652 tetramer interface [polypeptide binding]; other site 435998010653 PYR/PP interface [polypeptide binding]; other site 435998010654 TPP binding site [chemical binding]; other site 435998010655 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 435998010656 TPP-binding site; other site 435998010657 hypothetical protein; Provisional; Region: PRK10404 435998010658 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 435998010659 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 435998010660 putative NAD(P) binding site [chemical binding]; other site 435998010661 catalytic Zn binding site [ion binding]; other site 435998010662 gluconate 5-dehydrogenase; Provisional; Region: PRK08085 435998010663 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 435998010664 NADP binding site [chemical binding]; other site 435998010665 homodimer interface [polypeptide binding]; other site 435998010666 active site 435998010667 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 435998010668 Transmembrane secretion effector; Region: MFS_3; pfam05977 435998010669 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 435998010670 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 435998010671 EamA-like transporter family; Region: EamA; pfam00892 435998010672 Cupin domain; Region: Cupin_2; cl17218 435998010673 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 435998010674 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 435998010675 PYR/PP interface [polypeptide binding]; other site 435998010676 dimer interface [polypeptide binding]; other site 435998010677 TPP binding site [chemical binding]; other site 435998010678 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 435998010679 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 435998010680 TPP-binding site [chemical binding]; other site 435998010681 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998010682 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998010683 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 435998010684 putative effector binding pocket; other site 435998010685 dimerization interface [polypeptide binding]; other site 435998010686 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 435998010687 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 435998010688 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 435998010689 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 435998010690 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 435998010691 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 435998010692 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 435998010693 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 435998010694 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 435998010695 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 435998010696 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 435998010697 4Fe-4S binding domain; Region: Fer4; pfam00037 435998010698 4Fe-4S binding domain; Region: Fer4; pfam00037 435998010699 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 435998010700 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 435998010701 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 435998010702 catalytic loop [active] 435998010703 iron binding site [ion binding]; other site 435998010704 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 435998010705 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 435998010706 [4Fe-4S] binding site [ion binding]; other site 435998010707 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 435998010708 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 435998010709 SLBB domain; Region: SLBB; pfam10531 435998010710 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 435998010711 NADH dehydrogenase subunit E; Validated; Region: PRK07539 435998010712 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 435998010713 putative dimer interface [polypeptide binding]; other site 435998010714 [2Fe-2S] cluster binding site [ion binding]; other site 435998010715 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 435998010716 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 435998010717 NADH dehydrogenase subunit D; Validated; Region: PRK06075 435998010718 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 435998010719 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 435998010720 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 435998010721 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998010722 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 435998010723 putative dimerization interface [polypeptide binding]; other site 435998010724 aminotransferase AlaT; Validated; Region: PRK09265 435998010725 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 435998010726 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998010727 homodimer interface [polypeptide binding]; other site 435998010728 catalytic residue [active] 435998010729 5'-nucleotidase; Provisional; Region: PRK03826 435998010730 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 435998010731 transmembrane helices; other site 435998010732 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 435998010733 TrkA-C domain; Region: TrkA_C; pfam02080 435998010734 TrkA-C domain; Region: TrkA_C; pfam02080 435998010735 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 435998010736 putative phosphatase; Provisional; Region: PRK11587 435998010737 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 435998010738 motif II; other site 435998010739 hypothetical protein; Validated; Region: PRK05445 435998010740 hypothetical protein; Provisional; Region: PRK01816 435998010741 propionate/acetate kinase; Provisional; Region: PRK12379 435998010742 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 435998010743 phosphate acetyltransferase; Reviewed; Region: PRK05632 435998010744 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 435998010745 DRTGG domain; Region: DRTGG; pfam07085 435998010746 phosphate acetyltransferase; Region: pta; TIGR00651 435998010747 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 435998010748 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 435998010749 active site 435998010750 P-loop; other site 435998010751 phosphorylation site [posttranslational modification] 435998010752 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 435998010753 active site 435998010754 phosphorylation site [posttranslational modification] 435998010755 Transcriptional regulators [Transcription]; Region: PurR; COG1609 435998010756 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998010757 DNA binding site [nucleotide binding] 435998010758 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 435998010759 putative dimerization interface [polypeptide binding]; other site 435998010760 putative ligand binding site [chemical binding]; other site 435998010761 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 435998010762 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_38; cd04697 435998010763 nudix motif; other site 435998010764 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 435998010765 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 435998010766 active site 435998010767 metal binding site [ion binding]; metal-binding site 435998010768 homotetramer interface [polypeptide binding]; other site 435998010769 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 435998010770 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 435998010771 C-terminal domain interface [polypeptide binding]; other site 435998010772 GSH binding site (G-site) [chemical binding]; other site 435998010773 dimer interface [polypeptide binding]; other site 435998010774 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 435998010775 N-terminal domain interface [polypeptide binding]; other site 435998010776 putative dimer interface [polypeptide binding]; other site 435998010777 active site 435998010778 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 435998010779 homooctamer interface [polypeptide binding]; other site 435998010780 active site 435998010781 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 435998010782 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 435998010783 putative NAD(P) binding site [chemical binding]; other site 435998010784 putative active site [active] 435998010785 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 435998010786 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 435998010787 Walker A/P-loop; other site 435998010788 ATP binding site [chemical binding]; other site 435998010789 Q-loop/lid; other site 435998010790 ABC transporter signature motif; other site 435998010791 Walker B; other site 435998010792 D-loop; other site 435998010793 H-loop/switch region; other site 435998010794 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 435998010795 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 435998010796 dimer interface [polypeptide binding]; other site 435998010797 conserved gate region; other site 435998010798 putative PBP binding loops; other site 435998010799 ABC-ATPase subunit interface; other site 435998010800 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 435998010801 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 435998010802 dimer interface [polypeptide binding]; other site 435998010803 conserved gate region; other site 435998010804 putative PBP binding loops; other site 435998010805 ABC-ATPase subunit interface; other site 435998010806 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 435998010807 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 435998010808 substrate binding pocket [chemical binding]; other site 435998010809 membrane-bound complex binding site; other site 435998010810 hinge residues; other site 435998010811 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 435998010812 Flavoprotein; Region: Flavoprotein; pfam02441 435998010813 amidophosphoribosyltransferase; Provisional; Region: PRK09246 435998010814 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 435998010815 active site 435998010816 tetramer interface [polypeptide binding]; other site 435998010817 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 435998010818 active site 435998010819 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 435998010820 colicin V production protein; Provisional; Region: PRK10845 435998010821 cell division protein DedD; Provisional; Region: PRK11633 435998010822 Sporulation related domain; Region: SPOR; pfam05036 435998010823 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 435998010824 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 435998010825 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 435998010826 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 435998010827 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 435998010828 hypothetical protein; Provisional; Region: PRK10847 435998010829 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 435998010830 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 435998010831 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 435998010832 dimerization interface 3.5A [polypeptide binding]; other site 435998010833 active site 435998010834 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 435998010835 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 435998010836 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 435998010837 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 435998010838 ligand binding site [chemical binding]; other site 435998010839 NAD binding site [chemical binding]; other site 435998010840 catalytic site [active] 435998010841 homodimer interface [polypeptide binding]; other site 435998010842 Cupin domain; Region: Cupin_2; cl17218 435998010843 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 435998010844 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998010845 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 435998010846 EamA-like transporter family; Region: EamA; pfam00892 435998010847 EamA-like transporter family; Region: EamA; pfam00892 435998010848 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 435998010849 HAMP domain; Region: HAMP; pfam00672 435998010850 dimerization interface [polypeptide binding]; other site 435998010851 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 435998010852 dimer interface [polypeptide binding]; other site 435998010853 phosphorylation site [posttranslational modification] 435998010854 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998010855 ATP binding site [chemical binding]; other site 435998010856 G-X-G motif; other site 435998010857 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 435998010858 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998010859 active site 435998010860 phosphorylation site [posttranslational modification] 435998010861 intermolecular recognition site; other site 435998010862 dimerization interface [polypeptide binding]; other site 435998010863 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 435998010864 DNA binding site [nucleotide binding] 435998010865 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 435998010866 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 435998010867 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 435998010868 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 435998010869 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 435998010870 trimer interface [polypeptide binding]; other site 435998010871 active site 435998010872 CoA binding site [chemical binding]; other site 435998010873 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 435998010874 EamA-like transporter family; Region: EamA; pfam00892 435998010875 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 435998010876 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998010877 DNA-binding site [nucleotide binding]; DNA binding site 435998010878 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 435998010879 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998010880 homodimer interface [polypeptide binding]; other site 435998010881 catalytic residue [active] 435998010882 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 435998010883 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 435998010884 catalytic residues [active] 435998010885 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 435998010886 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 435998010887 catalytic residues [active] 435998010888 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 435998010889 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 435998010890 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 435998010891 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 435998010892 DsbD alpha interface [polypeptide binding]; other site 435998010893 catalytic residues [active] 435998010894 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 435998010895 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 435998010896 active site residue [active] 435998010897 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 435998010898 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998010899 DNA-binding site [nucleotide binding]; DNA binding site 435998010900 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 435998010901 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998010902 homodimer interface [polypeptide binding]; other site 435998010903 catalytic residue [active] 435998010904 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 435998010905 putative catalytic site [active] 435998010906 putative metal binding site [ion binding]; other site 435998010907 putative phosphate binding site [ion binding]; other site 435998010908 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 435998010909 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 435998010910 metal binding site [ion binding]; metal-binding site 435998010911 dimer interface [polypeptide binding]; other site 435998010912 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 435998010913 transmembrane helices; other site 435998010914 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 435998010915 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 435998010916 ApbE family; Region: ApbE; pfam02424 435998010917 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 435998010918 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 435998010919 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 435998010920 dimer interface [polypeptide binding]; other site 435998010921 active site 435998010922 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 435998010923 Uncharacterized conserved protein [Function unknown]; Region: COG4121 435998010924 YfcL protein; Region: YfcL; pfam08891 435998010925 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 435998010926 hypothetical protein; Provisional; Region: PRK10621 435998010927 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 435998010928 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 435998010929 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 435998010930 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 435998010931 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 435998010932 Tetramer interface [polypeptide binding]; other site 435998010933 active site 435998010934 FMN-binding site [chemical binding]; other site 435998010935 HemK family putative methylases; Region: hemK_fam; TIGR00536 435998010936 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 435998010937 S-adenosylmethionine binding site [chemical binding]; other site 435998010938 hypothetical protein; Provisional; Region: PRK04946 435998010939 Smr domain; Region: Smr; pfam01713 435998010940 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 435998010941 catalytic core [active] 435998010942 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 435998010943 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 435998010944 substrate binding site [chemical binding]; other site 435998010945 oxyanion hole (OAH) forming residues; other site 435998010946 trimer interface [polypeptide binding]; other site 435998010947 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 435998010948 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 435998010949 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 435998010950 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 435998010951 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 435998010952 dimer interface [polypeptide binding]; other site 435998010953 active site 435998010954 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 435998010955 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 435998010956 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 435998010957 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 435998010958 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 435998010959 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 435998010960 binding surface 435998010961 TPR motif; other site 435998010962 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 435998010963 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 435998010964 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 435998010965 catalytic residues [active] 435998010966 central insert; other site 435998010967 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 435998010968 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 435998010969 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 435998010970 heme exporter protein CcmC; Region: ccmC; TIGR01191 435998010971 heme exporter protein CcmB; Region: ccmB; TIGR01190 435998010972 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 435998010973 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 435998010974 Walker A/P-loop; other site 435998010975 ATP binding site [chemical binding]; other site 435998010976 Q-loop/lid; other site 435998010977 ABC transporter signature motif; other site 435998010978 Walker B; other site 435998010979 D-loop; other site 435998010980 H-loop/switch region; other site 435998010981 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 435998010982 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 435998010983 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 435998010984 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998010985 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 435998010986 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 435998010987 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 435998010988 putative active site [active] 435998010989 heme pocket [chemical binding]; other site 435998010990 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 435998010991 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 435998010992 putative active site [active] 435998010993 heme pocket [chemical binding]; other site 435998010994 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 435998010995 putative active site [active] 435998010996 heme pocket [chemical binding]; other site 435998010997 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 435998010998 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 435998010999 DNA binding residues [nucleotide binding] 435998011000 dimerization interface [polypeptide binding]; other site 435998011001 CsbD-like; Region: CsbD; pfam05532 435998011002 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 435998011003 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998011004 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 435998011005 dimerization interface [polypeptide binding]; other site 435998011006 substrate binding pocket [chemical binding]; other site 435998011007 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 435998011008 EamA-like transporter family; Region: EamA; pfam00892 435998011009 EamA-like transporter family; Region: EamA; pfam00892 435998011010 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 435998011011 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 435998011012 Transglycosylase SLT domain; Region: SLT_2; pfam13406 435998011013 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 435998011014 N-acetyl-D-glucosamine binding site [chemical binding]; other site 435998011015 PgaD-like protein; Region: PgaD; cl14676 435998011016 N-glycosyltransferase; Provisional; Region: hmsR; PRK14583 435998011017 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 435998011018 DXD motif; other site 435998011019 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 435998011020 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 435998011021 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 435998011022 putative active site [active] 435998011023 putative metal binding site [ion binding]; other site 435998011024 outer membrane protein PgaA; Provisional; Region: pgaA; PRK10049 435998011025 CDP-diacylglycerol pyrophosphatase; Region: CDH; cl00934 435998011026 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 435998011027 aminotransferase; Validated; Region: PRK08175 435998011028 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 435998011029 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998011030 homodimer interface [polypeptide binding]; other site 435998011031 catalytic residue [active] 435998011032 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 435998011033 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 435998011034 Coenzyme A binding pocket [chemical binding]; other site 435998011035 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 435998011036 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 435998011037 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 435998011038 GAF domain; Region: GAF; pfam01590 435998011039 Histidine kinase; Region: His_kinase; pfam06580 435998011040 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998011041 ATP binding site [chemical binding]; other site 435998011042 Mg2+ binding site [ion binding]; other site 435998011043 G-X-G motif; other site 435998011044 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 435998011045 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998011046 active site 435998011047 phosphorylation site [posttranslational modification] 435998011048 intermolecular recognition site; other site 435998011049 dimerization interface [polypeptide binding]; other site 435998011050 LytTr DNA-binding domain; Region: LytTR; pfam04397 435998011051 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 435998011052 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 435998011053 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 435998011054 putative substrate translocation pore; other site 435998011055 glucokinase; Provisional; Region: glk; PRK00292 435998011056 glucokinase, proteobacterial type; Region: glk; TIGR00749 435998011057 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 435998011058 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 435998011059 Cl- selectivity filter; other site 435998011060 Cl- binding residues [ion binding]; other site 435998011061 pore gating glutamate residue; other site 435998011062 dimer interface [polypeptide binding]; other site 435998011063 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 435998011064 aspartate racemase; Region: asp_race; TIGR00035 435998011065 Predicted membrane protein [Function unknown]; Region: COG4125 435998011066 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 435998011067 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 435998011068 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998011069 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998011070 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 435998011071 dimerization interface [polypeptide binding]; other site 435998011072 indolepyruvate decarboxylase, Erwinia family; Region: indolpyr_decarb; TIGR03393 435998011073 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 435998011074 dimer interface [polypeptide binding]; other site 435998011075 PYR/PP interface [polypeptide binding]; other site 435998011076 TPP binding site [chemical binding]; other site 435998011077 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 435998011078 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 435998011079 TPP-binding site [chemical binding]; other site 435998011080 dimer interface [polypeptide binding]; other site 435998011081 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 435998011082 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 435998011083 active site 435998011084 catalytic tetrad [active] 435998011085 manganese transport protein MntH; Reviewed; Region: PRK00701 435998011086 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 435998011087 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 435998011088 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 435998011089 Nucleoside recognition; Region: Gate; pfam07670 435998011090 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 435998011091 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 435998011092 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 435998011093 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 435998011094 active site 435998011095 HIGH motif; other site 435998011096 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 435998011097 active site 435998011098 KMSKS motif; other site 435998011099 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 435998011100 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 435998011101 siderophore binding site; other site 435998011102 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 435998011103 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 435998011104 ABC-ATPase subunit interface; other site 435998011105 dimer interface [polypeptide binding]; other site 435998011106 putative PBP binding regions; other site 435998011107 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 435998011108 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 435998011109 ABC-ATPase subunit interface; other site 435998011110 dimer interface [polypeptide binding]; other site 435998011111 putative PBP binding regions; other site 435998011112 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 435998011113 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 435998011114 Walker A/P-loop; other site 435998011115 ATP binding site [chemical binding]; other site 435998011116 Q-loop/lid; other site 435998011117 ABC transporter signature motif; other site 435998011118 Walker B; other site 435998011119 D-loop; other site 435998011120 H-loop/switch region; other site 435998011121 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 435998011122 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 435998011123 peptide binding site [polypeptide binding]; other site 435998011124 acetolactate synthase; Reviewed; Region: PRK08617 435998011125 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 435998011126 PYR/PP interface [polypeptide binding]; other site 435998011127 dimer interface [polypeptide binding]; other site 435998011128 TPP binding site [chemical binding]; other site 435998011129 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 435998011130 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 435998011131 TPP-binding site [chemical binding]; other site 435998011132 dimer interface [polypeptide binding]; other site 435998011133 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 435998011134 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998011135 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 435998011136 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 435998011137 putative effector binding pocket; other site 435998011138 dimerization interface [polypeptide binding]; other site 435998011139 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 435998011140 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 435998011141 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 435998011142 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 435998011143 FlxA-like protein; Region: FlxA; pfam14282 435998011144 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998011145 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998011146 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 435998011147 putative dimerization interface [polypeptide binding]; other site 435998011148 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 435998011149 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 435998011150 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 435998011151 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 435998011152 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 435998011153 nucleotide binding pocket [chemical binding]; other site 435998011154 K-X-D-G motif; other site 435998011155 catalytic site [active] 435998011156 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 435998011157 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 435998011158 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 435998011159 DNA binding site [nucleotide binding] 435998011160 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 435998011161 Dimer interface [polypeptide binding]; other site 435998011162 BRCT sequence motif; other site 435998011163 cell division protein ZipA; Provisional; Region: PRK03427 435998011164 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; cd00231 435998011165 FtsZ protein binding site [polypeptide binding]; other site 435998011166 putative sulfate transport protein CysZ; Validated; Region: PRK04949 435998011167 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 435998011168 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 435998011169 dimer interface [polypeptide binding]; other site 435998011170 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998011171 catalytic residue [active] 435998011172 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 435998011173 dimerization domain swap beta strand [polypeptide binding]; other site 435998011174 regulatory protein interface [polypeptide binding]; other site 435998011175 active site 435998011176 regulatory phosphorylation site [posttranslational modification]; other site 435998011177 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 435998011178 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 435998011179 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 435998011180 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 435998011181 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 435998011182 HPr interaction site; other site 435998011183 glycerol kinase (GK) interaction site [polypeptide binding]; other site 435998011184 active site 435998011185 phosphorylation site [posttranslational modification] 435998011186 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 435998011187 dimerization interface [polypeptide binding]; other site 435998011188 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 435998011189 dimer interface [polypeptide binding]; other site 435998011190 phosphorylation site [posttranslational modification] 435998011191 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998011192 ATP binding site [chemical binding]; other site 435998011193 Mg2+ binding site [ion binding]; other site 435998011194 G-X-G motif; other site 435998011195 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 435998011196 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998011197 active site 435998011198 phosphorylation site [posttranslational modification] 435998011199 intermolecular recognition site; other site 435998011200 dimerization interface [polypeptide binding]; other site 435998011201 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 435998011202 DNA binding site [nucleotide binding] 435998011203 cysteine synthase B; Region: cysM; TIGR01138 435998011204 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 435998011205 dimer interface [polypeptide binding]; other site 435998011206 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998011207 catalytic residue [active] 435998011208 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 435998011209 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 435998011210 Walker A/P-loop; other site 435998011211 ATP binding site [chemical binding]; other site 435998011212 Q-loop/lid; other site 435998011213 ABC transporter signature motif; other site 435998011214 Walker B; other site 435998011215 D-loop; other site 435998011216 H-loop/switch region; other site 435998011217 TOBE-like domain; Region: TOBE_3; pfam12857 435998011218 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 435998011219 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 435998011220 dimer interface [polypeptide binding]; other site 435998011221 conserved gate region; other site 435998011222 putative PBP binding loops; other site 435998011223 ABC-ATPase subunit interface; other site 435998011224 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 435998011225 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 435998011226 dimer interface [polypeptide binding]; other site 435998011227 conserved gate region; other site 435998011228 putative PBP binding loops; other site 435998011229 ABC-ATPase subunit interface; other site 435998011230 thiosulfate transporter subunit; Provisional; Region: PRK10852 435998011231 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 435998011232 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 435998011233 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 435998011234 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 435998011235 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 435998011236 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 435998011237 putative acetyltransferase; Provisional; Region: PRK03624 435998011238 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998011239 Coenzyme A binding pocket [chemical binding]; other site 435998011240 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 435998011241 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 435998011242 active site 435998011243 metal binding site [ion binding]; metal-binding site 435998011244 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 435998011245 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 435998011246 hypothetical protein; Validated; Region: PRK00124 435998011247 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 435998011248 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 435998011249 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 435998011250 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 435998011251 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 435998011252 Protein of unknown function, DUF399; Region: DUF399; pfam04187 435998011253 S-methylmethionine transporter; Provisional; Region: PRK11387 435998011254 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 435998011255 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 435998011256 Fic/DOC family; Region: Fic; cl00960 435998011257 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 435998011258 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 435998011259 Malic enzyme, N-terminal domain; Region: malic; pfam00390 435998011260 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 435998011261 putative NAD(P) binding site [chemical binding]; other site 435998011262 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 435998011263 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 435998011264 Phage holin family (Lysis protein S); Region: Phage_holin_3; pfam05106 435998011265 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 435998011266 Glyco_18 domain; Region: Glyco_18; smart00636 435998011267 active site 435998011268 Cellulose-binding domain, chitinase and related proteins; Region: CBD_like; cd12204 435998011269 ligand binding site [chemical binding]; other site 435998011270 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 435998011271 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998011272 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 435998011273 dimerization interface [polypeptide binding]; other site 435998011274 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 435998011275 non-specific DNA interactions [nucleotide binding]; other site 435998011276 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 435998011277 DNA binding site [nucleotide binding] 435998011278 sequence specific DNA binding site [nucleotide binding]; other site 435998011279 putative cAMP binding site [chemical binding]; other site 435998011280 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 435998011281 DAK2 domain; Region: Dak2; pfam02734 435998011282 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 435998011283 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 435998011284 short chain dehydrogenase; Provisional; Region: PRK06841 435998011285 classical (c) SDRs; Region: SDR_c; cd05233 435998011286 NAD(P) binding site [chemical binding]; other site 435998011287 active site 435998011288 polyol permease family; Region: 2A0118; TIGR00897 435998011289 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 435998011290 putative substrate translocation pore; other site 435998011291 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 435998011292 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 435998011293 putative NAD(P) binding site [chemical binding]; other site 435998011294 catalytic Zn binding site [ion binding]; other site 435998011295 structural Zn binding site [ion binding]; other site 435998011296 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 435998011297 transaldolase-like protein; Provisional; Region: PTZ00411 435998011298 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 435998011299 active site 435998011300 dimer interface [polypeptide binding]; other site 435998011301 catalytic residue [active] 435998011302 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 435998011303 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 435998011304 dimer interface [polypeptide binding]; other site 435998011305 ADP-ribose binding site [chemical binding]; other site 435998011306 active site 435998011307 nudix motif; other site 435998011308 metal binding site [ion binding]; metal-binding site 435998011309 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 435998011310 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 435998011311 HAMP domain; Region: HAMP; pfam00672 435998011312 Histidine kinase; Region: HisKA_3; pfam07730 435998011313 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998011314 ATP binding site [chemical binding]; other site 435998011315 Mg2+ binding site [ion binding]; other site 435998011316 G-X-G motif; other site 435998011317 transcriptional regulator NarP; Provisional; Region: PRK10403 435998011318 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998011319 active site 435998011320 phosphorylation site [posttranslational modification] 435998011321 intermolecular recognition site; other site 435998011322 dimerization interface [polypeptide binding]; other site 435998011323 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 435998011324 DNA binding residues [nucleotide binding] 435998011325 dimerization interface [polypeptide binding]; other site 435998011326 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 435998011327 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 435998011328 Protein export membrane protein; Region: SecD_SecF; cl14618 435998011329 Tetratrico peptide repeat; Region: TPR_5; pfam12688 435998011330 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 435998011331 binding surface 435998011332 TPR motif; other site 435998011333 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998011334 Coenzyme A binding pocket [chemical binding]; other site 435998011335 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 435998011336 colanic acid capsular biosynthesis activation protein A; Provisional; Region: rcsA; PRK15411 435998011337 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 435998011338 DNA binding residues [nucleotide binding] 435998011339 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 435998011340 ArsC family; Region: ArsC; pfam03960 435998011341 putative catalytic residues [active] 435998011342 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 435998011343 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 435998011344 metal binding site [ion binding]; metal-binding site 435998011345 dimer interface [polypeptide binding]; other site 435998011346 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 435998011347 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 435998011348 Uncharacterized protein family (UPF0370); Region: UPF0370; pfam13980 435998011349 putative hydrolase; Provisional; Region: PRK11460 435998011350 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 435998011351 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 435998011352 Helicase; Region: Helicase_RecD; pfam05127 435998011353 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 435998011354 Predicted metalloprotease [General function prediction only]; Region: COG2321 435998011355 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 435998011356 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 435998011357 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 435998011358 ATP binding site [chemical binding]; other site 435998011359 active site 435998011360 substrate binding site [chemical binding]; other site 435998011361 lipoprotein; Provisional; Region: PRK11679 435998011362 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 435998011363 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 435998011364 dihydrodipicolinate synthase; Region: dapA; TIGR00674 435998011365 dimer interface [polypeptide binding]; other site 435998011366 active site 435998011367 catalytic residue [active] 435998011368 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 435998011369 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 435998011370 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 435998011371 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 435998011372 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 435998011373 catalytic triad [active] 435998011374 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 435998011375 Domain of unknown function DUF20; Region: UPF0118; pfam01594 435998011376 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 435998011377 Cupin domain; Region: Cupin_2; pfam07883 435998011378 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 435998011379 Coenzyme A binding pocket [chemical binding]; other site 435998011380 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 435998011381 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 435998011382 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 435998011383 putative DNA binding site [nucleotide binding]; other site 435998011384 putative Zn2+ binding site [ion binding]; other site 435998011385 AsnC family; Region: AsnC_trans_reg; pfam01037 435998011386 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 435998011387 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 435998011388 Predicted transcriptional regulator [Transcription]; Region: COG1959 435998011389 Transcriptional regulator; Region: Rrf2; pfam02082 435998011390 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 435998011391 Peptidase family M48; Region: Peptidase_M48; pfam01435 435998011392 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 435998011393 ArsC family; Region: ArsC; pfam03960 435998011394 catalytic residues [active] 435998011395 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 435998011396 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 435998011397 hypothetical protein; Provisional; Region: PRK10457 435998011398 uracil transporter; Provisional; Region: PRK10720 435998011399 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 435998011400 active site 435998011401 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 435998011402 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 435998011403 dimerization interface [polypeptide binding]; other site 435998011404 putative ATP binding site [chemical binding]; other site 435998011405 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 435998011406 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 435998011407 active site 435998011408 substrate binding site [chemical binding]; other site 435998011409 cosubstrate binding site; other site 435998011410 catalytic site [active] 435998011411 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 435998011412 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998011413 Coenzyme A binding pocket [chemical binding]; other site 435998011414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3792 435998011415 haemagglutination activity domain; Region: Haemagg_act; pfam05860 435998011416 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 435998011417 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 435998011418 Cortexillin I, coiled coil; Region: Cortex-I_coil; pfam09304 435998011419 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 435998011420 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 435998011421 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 435998011422 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 435998011423 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 435998011424 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 435998011425 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 435998011426 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 435998011427 Walker A/P-loop; other site 435998011428 ATP binding site [chemical binding]; other site 435998011429 Q-loop/lid; other site 435998011430 ABC transporter signature motif; other site 435998011431 Walker B; other site 435998011432 D-loop; other site 435998011433 H-loop/switch region; other site 435998011434 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 435998011435 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 435998011436 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 435998011437 dimer interface [polypeptide binding]; other site 435998011438 conserved gate region; other site 435998011439 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 435998011440 ABC-ATPase subunit interface; other site 435998011441 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 435998011442 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 435998011443 conserved gate region; other site 435998011444 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 435998011445 putative PBP binding loops; other site 435998011446 ABC-ATPase subunit interface; other site 435998011447 polyphosphate kinase; Provisional; Region: PRK05443 435998011448 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 435998011449 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 435998011450 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 435998011451 domain interface [polypeptide binding]; other site 435998011452 active site 435998011453 catalytic site [active] 435998011454 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 435998011455 domain interface [polypeptide binding]; other site 435998011456 active site 435998011457 catalytic site [active] 435998011458 exopolyphosphatase; Provisional; Region: PRK10854 435998011459 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 435998011460 Protein of unknown function (DUF2633); Region: DUF2633; pfam11119 435998011461 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 435998011462 MgtE intracellular N domain; Region: MgtE_N; smart00924 435998011463 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 435998011464 Divalent cation transporter; Region: MgtE; cl00786 435998011465 putative diguanylate cyclase; Provisional; Region: PRK09776 435998011466 MASE1; Region: MASE1; cl17823 435998011467 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 435998011468 putative active site [active] 435998011469 heme pocket [chemical binding]; other site 435998011470 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 435998011471 putative active site [active] 435998011472 heme pocket [chemical binding]; other site 435998011473 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 435998011474 putative active site [active] 435998011475 heme pocket [chemical binding]; other site 435998011476 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 435998011477 metal binding site [ion binding]; metal-binding site 435998011478 active site 435998011479 I-site; other site 435998011480 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 435998011481 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 435998011482 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 435998011483 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 435998011484 AlkA N-terminal domain; Region: AlkA_N; pfam06029 435998011485 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 435998011486 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 435998011487 minor groove reading motif; other site 435998011488 helix-hairpin-helix signature motif; other site 435998011489 substrate binding pocket [chemical binding]; other site 435998011490 active site 435998011491 putative chaperone; Provisional; Region: PRK11678 435998011492 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 435998011493 nucleotide binding site [chemical binding]; other site 435998011494 putative NEF/HSP70 interaction site [polypeptide binding]; other site 435998011495 SBD interface [polypeptide binding]; other site 435998011496 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 435998011497 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 435998011498 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 435998011499 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 435998011500 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 435998011501 active site 435998011502 catalytic tetrad [active] 435998011503 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 435998011504 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435998011505 HlyD family secretion protein; Region: HlyD_3; pfam13437 435998011506 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 435998011507 Protein export membrane protein; Region: SecD_SecF; cl14618 435998011508 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 435998011509 Protein export membrane protein; Region: SecD_SecF; cl14618 435998011510 putative transporter; Provisional; Region: PRK10504 435998011511 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 435998011512 putative substrate translocation pore; other site 435998011513 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 435998011514 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cl00653 435998011515 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 435998011516 dimerization interface [polypeptide binding]; other site 435998011517 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 435998011518 dimer interface [polypeptide binding]; other site 435998011519 phosphorylation site [posttranslational modification] 435998011520 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998011521 ATP binding site [chemical binding]; other site 435998011522 Mg2+ binding site [ion binding]; other site 435998011523 G-X-G motif; other site 435998011524 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 435998011525 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998011526 active site 435998011527 phosphorylation site [posttranslational modification] 435998011528 intermolecular recognition site; other site 435998011529 dimerization interface [polypeptide binding]; other site 435998011530 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 435998011531 DNA binding site [nucleotide binding] 435998011532 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 435998011533 oligomeric interface; other site 435998011534 putative active site [active] 435998011535 homodimer interface [polypeptide binding]; other site 435998011536 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 435998011537 Uncharacterized conserved protein [Function unknown]; Region: COG3422 435998011538 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 435998011539 putative protease; Provisional; Region: PRK15452 435998011540 Peptidase family U32; Region: Peptidase_U32; pfam01136 435998011541 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 435998011542 lipid kinase; Reviewed; Region: PRK13054 435998011543 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 435998011544 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 435998011545 putative active site pocket [active] 435998011546 putative metal binding site [ion binding]; other site 435998011547 putative oxidoreductase; Provisional; Region: PRK10083 435998011548 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 435998011549 putative NAD(P) binding site [chemical binding]; other site 435998011550 catalytic Zn binding site [ion binding]; other site 435998011551 structural Zn binding site [ion binding]; other site 435998011552 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 435998011553 D-galactonate transporter; Region: 2A0114; TIGR00893 435998011554 putative substrate translocation pore; other site 435998011555 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 435998011556 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 435998011557 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 435998011558 shikimate transporter; Provisional; Region: PRK09952 435998011559 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 435998011560 putative substrate translocation pore; other site 435998011561 Transcriptional regulators [Transcription]; Region: GntR; COG1802 435998011562 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998011563 DNA-binding site [nucleotide binding]; DNA binding site 435998011564 FCD domain; Region: FCD; pfam07729 435998011565 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 435998011566 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 435998011567 putative active site; other site 435998011568 catalytic residue [active] 435998011569 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 435998011570 PTS system, glucitol/sorbitol-specific, IIBC component; Region: EIIBC-GUT; TIGR00825 435998011571 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 435998011572 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 435998011573 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 435998011574 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 435998011575 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 435998011576 putative NAD(P) binding site [chemical binding]; other site 435998011577 active site 435998011578 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 435998011579 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 435998011580 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 435998011581 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 435998011582 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 435998011583 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 435998011584 putative active site [active] 435998011585 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 435998011586 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 435998011587 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 435998011588 dimer interface [polypeptide binding]; other site 435998011589 substrate binding site [chemical binding]; other site 435998011590 ATP binding site [chemical binding]; other site 435998011591 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 435998011592 substrate binding site [chemical binding]; other site 435998011593 multimerization interface [polypeptide binding]; other site 435998011594 ATP binding site [chemical binding]; other site 435998011595 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 435998011596 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 435998011597 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 435998011598 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435998011599 HlyD family secretion protein; Region: HlyD_3; pfam13437 435998011600 multidrug efflux system protein MdtO; Provisional; Region: PRK11427 435998011601 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998011602 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 435998011603 Coenzyme A binding pocket [chemical binding]; other site 435998011604 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 435998011605 Predicted transcriptional regulators [Transcription]; Region: COG1733 435998011606 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 435998011607 aminoglycoside resistance protein; Provisional; Region: PRK13746 435998011608 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 435998011609 active site 435998011610 NTP binding site [chemical binding]; other site 435998011611 metal binding triad [ion binding]; metal-binding site 435998011612 antibiotic binding site [chemical binding]; other site 435998011613 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 435998011614 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 435998011615 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 435998011616 RNA binding surface [nucleotide binding]; other site 435998011617 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 435998011618 probable active site [active] 435998011619 Autotransporter beta-domain; Region: Autotransporter; pfam03797 435998011620 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 435998011621 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998011622 active site 435998011623 phosphorylation site [posttranslational modification] 435998011624 intermolecular recognition site; other site 435998011625 dimerization interface [polypeptide binding]; other site 435998011626 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 435998011627 DNA binding residues [nucleotide binding] 435998011628 dimerization interface [polypeptide binding]; other site 435998011629 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435998011630 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 435998011631 dimer interface [polypeptide binding]; other site 435998011632 phosphorylation site [posttranslational modification] 435998011633 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998011634 ATP binding site [chemical binding]; other site 435998011635 Mg2+ binding site [ion binding]; other site 435998011636 G-X-G motif; other site 435998011637 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998011638 Response regulator receiver domain; Region: Response_reg; pfam00072 435998011639 active site 435998011640 phosphorylation site [posttranslational modification] 435998011641 intermolecular recognition site; other site 435998011642 dimerization interface [polypeptide binding]; other site 435998011643 GMP synthase; Reviewed; Region: guaA; PRK00074 435998011644 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 435998011645 AMP/PPi binding site [chemical binding]; other site 435998011646 candidate oxyanion hole; other site 435998011647 catalytic triad [active] 435998011648 potential glutamine specificity residues [chemical binding]; other site 435998011649 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 435998011650 ATP Binding subdomain [chemical binding]; other site 435998011651 Ligand Binding sites [chemical binding]; other site 435998011652 Dimerization subdomain; other site 435998011653 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 435998011654 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 435998011655 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 435998011656 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 435998011657 active site 435998011658 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 435998011659 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 435998011660 generic binding surface II; other site 435998011661 generic binding surface I; other site 435998011662 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 435998011663 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 435998011664 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 435998011665 putative active site [active] 435998011666 putative catalytic site [active] 435998011667 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 435998011668 D-galactonate transporter; Region: 2A0114; TIGR00893 435998011669 putative substrate translocation pore; other site 435998011670 Transcriptional regulators [Transcription]; Region: PurR; COG1609 435998011671 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998011672 DNA binding site [nucleotide binding] 435998011673 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 435998011674 ligand binding site [chemical binding]; other site 435998011675 dimerization interface [polypeptide binding]; other site 435998011676 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 435998011677 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 435998011678 active site 435998011679 Zn binding site [ion binding]; other site 435998011680 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 435998011681 Predicted permeases [General function prediction only]; Region: COG0679 435998011682 GTP-binding protein Der; Reviewed; Region: PRK00093 435998011683 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 435998011684 G1 box; other site 435998011685 GTP/Mg2+ binding site [chemical binding]; other site 435998011686 Switch I region; other site 435998011687 G2 box; other site 435998011688 Switch II region; other site 435998011689 G3 box; other site 435998011690 G4 box; other site 435998011691 G5 box; other site 435998011692 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 435998011693 G1 box; other site 435998011694 GTP/Mg2+ binding site [chemical binding]; other site 435998011695 Switch I region; other site 435998011696 G2 box; other site 435998011697 G3 box; other site 435998011698 Switch II region; other site 435998011699 G4 box; other site 435998011700 G5 box; other site 435998011701 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 435998011702 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 435998011703 Trp docking motif [polypeptide binding]; other site 435998011704 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 435998011705 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 435998011706 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 435998011707 dimer interface [polypeptide binding]; other site 435998011708 motif 1; other site 435998011709 active site 435998011710 motif 2; other site 435998011711 motif 3; other site 435998011712 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 435998011713 anticodon binding site; other site 435998011714 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 435998011715 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 435998011716 cytoskeletal protein RodZ; Provisional; Region: PRK10856 435998011717 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 435998011718 non-specific DNA binding site [nucleotide binding]; other site 435998011719 salt bridge; other site 435998011720 sequence-specific DNA binding site [nucleotide binding]; other site 435998011721 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 435998011722 TPR repeat; Region: TPR_11; pfam13414 435998011723 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 435998011724 binding surface 435998011725 TPR motif; other site 435998011726 Tetratricopeptide repeat; Region: TPR_12; pfam13424 435998011727 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 435998011728 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 435998011729 FeS/SAM binding site; other site 435998011730 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 435998011731 active site 435998011732 multimer interface [polypeptide binding]; other site 435998011733 SseB protein; Region: SseB; pfam07179 435998011734 aminopeptidase B; Provisional; Region: PRK05015 435998011735 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 435998011736 interface (dimer of trimers) [polypeptide binding]; other site 435998011737 Substrate-binding/catalytic site; other site 435998011738 Zn-binding sites [ion binding]; other site 435998011739 hypothetical protein; Provisional; Region: PRK10721 435998011740 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 435998011741 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 435998011742 catalytic loop [active] 435998011743 iron binding site [ion binding]; other site 435998011744 chaperone protein HscA; Provisional; Region: hscA; PRK05183 435998011745 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 435998011746 nucleotide binding site [chemical binding]; other site 435998011747 putative NEF/HSP70 interaction site [polypeptide binding]; other site 435998011748 SBD interface [polypeptide binding]; other site 435998011749 co-chaperone HscB; Provisional; Region: hscB; PRK05014 435998011750 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 435998011751 HSP70 interaction site [polypeptide binding]; other site 435998011752 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 435998011753 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 435998011754 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 435998011755 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 435998011756 trimerization site [polypeptide binding]; other site 435998011757 active site 435998011758 cysteine desulfurase; Provisional; Region: PRK14012 435998011759 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 435998011760 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 435998011761 catalytic residue [active] 435998011762 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 435998011763 Rrf2 family protein; Region: rrf2_super; TIGR00738 435998011764 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 435998011765 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 435998011766 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 435998011767 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 435998011768 active site 435998011769 dimerization interface [polypeptide binding]; other site 435998011770 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 435998011771 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 435998011772 stationary phase inducible protein CsiE; Provisional; Region: PRK11564 435998011773 PRD domain; Region: PRD; pfam00874 435998011774 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 435998011775 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 435998011776 putative substrate translocation pore; other site 435998011777 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 435998011778 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 435998011779 dimer interface [polypeptide binding]; other site 435998011780 active site 435998011781 glycine-pyridoxal phosphate binding site [chemical binding]; other site 435998011782 folate binding site [chemical binding]; other site 435998011783 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 435998011784 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 435998011785 heme-binding site [chemical binding]; other site 435998011786 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 435998011787 FAD binding pocket [chemical binding]; other site 435998011788 FAD binding motif [chemical binding]; other site 435998011789 phosphate binding motif [ion binding]; other site 435998011790 beta-alpha-beta structure motif; other site 435998011791 NAD binding pocket [chemical binding]; other site 435998011792 Heme binding pocket [chemical binding]; other site 435998011793 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 435998011794 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 435998011795 Cytochrome c; Region: Cytochrom_C; pfam00034 435998011796 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 435998011797 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 435998011798 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 435998011799 tetrameric interface [polypeptide binding]; other site 435998011800 NAD binding site [chemical binding]; other site 435998011801 catalytic residues [active] 435998011802 substrate binding site [chemical binding]; other site 435998011803 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 435998011804 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 435998011805 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 435998011806 dimer interface [polypeptide binding]; other site 435998011807 conserved gate region; other site 435998011808 putative PBP binding loops; other site 435998011809 ABC-ATPase subunit interface; other site 435998011810 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 435998011811 dimer interface [polypeptide binding]; other site 435998011812 putative PBP binding loops; other site 435998011813 ABC-ATPase subunit interface; other site 435998011814 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 435998011815 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998011816 Walker A/P-loop; other site 435998011817 ATP binding site [chemical binding]; other site 435998011818 Q-loop/lid; other site 435998011819 ABC transporter signature motif; other site 435998011820 Walker B; other site 435998011821 D-loop; other site 435998011822 H-loop/switch region; other site 435998011823 TOBE domain; Region: TOBE_2; pfam08402 435998011824 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 435998011825 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 435998011826 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 435998011827 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 435998011828 tetrameric interface [polypeptide binding]; other site 435998011829 NAD binding site [chemical binding]; other site 435998011830 catalytic residues [active] 435998011831 substrate binding site [chemical binding]; other site 435998011832 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998011833 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998011834 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 435998011835 putative substrate binding pocket [chemical binding]; other site 435998011836 dimerization interface [polypeptide binding]; other site 435998011837 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 435998011838 Nitrogen regulatory protein P-II; Region: P-II; smart00938 435998011839 NAD synthetase; Provisional; Region: PRK13981 435998011840 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 435998011841 multimer interface [polypeptide binding]; other site 435998011842 active site 435998011843 catalytic triad [active] 435998011844 protein interface 1 [polypeptide binding]; other site 435998011845 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 435998011846 homodimer interface [polypeptide binding]; other site 435998011847 NAD binding pocket [chemical binding]; other site 435998011848 ATP binding pocket [chemical binding]; other site 435998011849 Mg binding site [ion binding]; other site 435998011850 active-site loop [active] 435998011851 response regulator GlrR; Provisional; Region: PRK15115 435998011852 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998011853 active site 435998011854 phosphorylation site [posttranslational modification] 435998011855 intermolecular recognition site; other site 435998011856 dimerization interface [polypeptide binding]; other site 435998011857 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998011858 Walker A motif; other site 435998011859 ATP binding site [chemical binding]; other site 435998011860 Walker B motif; other site 435998011861 arginine finger; other site 435998011862 hypothetical protein; Provisional; Region: PRK10722 435998011863 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435998011864 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 435998011865 dimer interface [polypeptide binding]; other site 435998011866 phosphorylation site [posttranslational modification] 435998011867 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998011868 ATP binding site [chemical binding]; other site 435998011869 Mg2+ binding site [ion binding]; other site 435998011870 G-X-G motif; other site 435998011871 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 435998011872 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 435998011873 dimerization interface [polypeptide binding]; other site 435998011874 ATP binding site [chemical binding]; other site 435998011875 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 435998011876 dimerization interface [polypeptide binding]; other site 435998011877 ATP binding site [chemical binding]; other site 435998011878 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 435998011879 putative active site [active] 435998011880 catalytic triad [active] 435998011881 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 435998011882 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 435998011883 substrate binding pocket [chemical binding]; other site 435998011884 membrane-bound complex binding site; other site 435998011885 hinge residues; other site 435998011886 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 435998011887 N-acetyl-D-glucosamine binding site [chemical binding]; other site 435998011888 catalytic residue [active] 435998011889 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 435998011890 nucleoside/Zn binding site; other site 435998011891 dimer interface [polypeptide binding]; other site 435998011892 catalytic motif [active] 435998011893 hypothetical protein; Provisional; Region: PRK11590 435998011894 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 435998011895 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 435998011896 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 435998011897 active site turn [active] 435998011898 phosphorylation site [posttranslational modification] 435998011899 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 435998011900 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 435998011901 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 435998011902 putative active site [active] 435998011903 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 435998011904 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 435998011905 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 435998011906 putative active site [active] 435998011907 HIRAN domain; Region: HIRAN; pfam08797 435998011908 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 435998011909 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 435998011910 active site 435998011911 hydrophilic channel; other site 435998011912 dimerization interface [polypeptide binding]; other site 435998011913 catalytic residues [active] 435998011914 active site lid [active] 435998011915 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 435998011916 Recombination protein O N terminal; Region: RecO_N; pfam11967 435998011917 Recombination protein O C terminal; Region: RecO_C; pfam02565 435998011918 GTPase Era; Reviewed; Region: era; PRK00089 435998011919 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 435998011920 G1 box; other site 435998011921 GTP/Mg2+ binding site [chemical binding]; other site 435998011922 Switch I region; other site 435998011923 G2 box; other site 435998011924 Switch II region; other site 435998011925 G3 box; other site 435998011926 G4 box; other site 435998011927 G5 box; other site 435998011928 KH domain; Region: KH_2; pfam07650 435998011929 ribonuclease III; Reviewed; Region: rnc; PRK00102 435998011930 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 435998011931 dimerization interface [polypeptide binding]; other site 435998011932 active site 435998011933 metal binding site [ion binding]; metal-binding site 435998011934 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 435998011935 dsRNA binding site [nucleotide binding]; other site 435998011936 signal peptidase I; Provisional; Region: PRK10861 435998011937 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 435998011938 Catalytic site [active] 435998011939 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 435998011940 GTP-binding protein LepA; Provisional; Region: PRK05433 435998011941 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 435998011942 G1 box; other site 435998011943 putative GEF interaction site [polypeptide binding]; other site 435998011944 GTP/Mg2+ binding site [chemical binding]; other site 435998011945 Switch I region; other site 435998011946 G2 box; other site 435998011947 G3 box; other site 435998011948 Switch II region; other site 435998011949 G4 box; other site 435998011950 G5 box; other site 435998011951 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 435998011952 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 435998011953 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 435998011954 SoxR reducing system protein RseC; Provisional; Region: PRK10862 435998011955 anti-sigma E factor; Provisional; Region: rseB; PRK09455 435998011956 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 435998011957 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 435998011958 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 435998011959 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 435998011960 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 435998011961 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435998011962 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 435998011963 DNA binding residues [nucleotide binding] 435998011964 L-aspartate oxidase; Provisional; Region: PRK09077 435998011965 L-aspartate oxidase; Provisional; Region: PRK06175 435998011966 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 435998011967 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 435998011968 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 435998011969 S-adenosylmethionine binding site [chemical binding]; other site 435998011970 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 435998011971 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 435998011972 ATP binding site [chemical binding]; other site 435998011973 Mg++ binding site [ion binding]; other site 435998011974 motif III; other site 435998011975 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 435998011976 nucleotide binding region [chemical binding]; other site 435998011977 ATP-binding site [chemical binding]; other site 435998011978 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 435998011979 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 435998011980 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 435998011981 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 435998011982 ligand binding site [chemical binding]; other site 435998011983 active site 435998011984 UGI interface [polypeptide binding]; other site 435998011985 catalytic site [active] 435998011986 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 435998011987 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 435998011988 dimer interface [polypeptide binding]; other site 435998011989 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 435998011990 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 435998011991 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 435998011992 recombination and repair protein; Provisional; Region: PRK10869 435998011993 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 435998011994 Walker A/P-loop; other site 435998011995 ATP binding site [chemical binding]; other site 435998011996 Q-loop/lid; other site 435998011997 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 435998011998 ABC transporter signature motif; other site 435998011999 Walker B; other site 435998012000 D-loop; other site 435998012001 H-loop/switch region; other site 435998012002 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 435998012003 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 435998012004 hypothetical protein; Validated; Region: PRK01777 435998012005 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 435998012006 putative coenzyme Q binding site [chemical binding]; other site 435998012007 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 435998012008 SmpB-tmRNA interface; other site 435998012009 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 435998012010 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435998012011 HlyD family secretion protein; Region: HlyD_3; pfam13437 435998012012 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 435998012013 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 435998012014 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998012015 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998012016 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 435998012017 dimerization interface [polypeptide binding]; other site 435998012018 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 435998012019 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 435998012020 Protein of unknown function (DUF2534); Region: DUF2534; pfam10749 435998012021 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 435998012022 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 435998012023 DNA binding residues [nucleotide binding] 435998012024 dimerization interface [polypeptide binding]; other site 435998012025 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998012026 Fimbrial protein; Region: Fimbrial; cl01416 435998012027 Fimbrial protein; Region: Fimbrial; pfam00419 435998012028 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998012029 putative fimbrial chaperone protein StfD; Provisional; Region: PRK15285 435998012030 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 435998012031 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 435998012032 Fimbrial protein; Region: Fimbrial; pfam00419 435998012033 Fimbrial protein; Region: Fimbrial; pfam00419 435998012034 putative fimbrial outer membrane usher protein StfC; Provisional; Region: PRK15284 435998012035 PapC N-terminal domain; Region: PapC_N; pfam13954 435998012036 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 435998012037 PapC C-terminal domain; Region: PapC_C; pfam13953 435998012038 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998012039 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998012040 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; cl17355 435998012041 DNA binding site [nucleotide binding] 435998012042 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; cl17355 435998012043 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 435998012044 DNA binding site [nucleotide binding] 435998012045 serine endoprotease; Provisional; Region: PRK10898 435998012046 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 435998012047 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 435998012048 protein binding site [polypeptide binding]; other site 435998012049 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 435998012050 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 435998012051 active site turn [active] 435998012052 phosphorylation site [posttranslational modification] 435998012053 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 435998012054 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 435998012055 Sulfatase; Region: Sulfatase; cl17466 435998012056 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 435998012057 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998012058 DNA-binding site [nucleotide binding]; DNA binding site 435998012059 UTRA domain; Region: UTRA; pfam07702 435998012060 Domain of unknown function (DUF202); Region: DUF202; cl09954 435998012061 Domain of unknown function (DUF202); Region: DUF202; pfam02656 435998012062 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 435998012063 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 435998012064 FeS/SAM binding site; other site 435998012065 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 435998012066 putative fimbrial chaperone protein; Provisional; Region: PRK09918 435998012067 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 435998012068 putative fimbrial outer membrane usher protein; Provisional; Region: PRK15304 435998012069 PapC N-terminal domain; Region: PapC_N; pfam13954 435998012070 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 435998012071 PapC C-terminal domain; Region: PapC_C; pfam13953 435998012072 Protein of unknown function (DUF1120); Region: DUF1120; cl05856 435998012073 Protein of unknown function (DUF1120); Region: DUF1120; cl05856 435998012074 Protein of unknown function (DUF1120); Region: DUF1120; cl05856 435998012075 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998012076 Coenzyme A binding pocket [chemical binding]; other site 435998012077 Methyltransferase domain; Region: Methyltransf_31; pfam13847 435998012078 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 435998012079 S-adenosylmethionine binding site [chemical binding]; other site 435998012080 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 435998012081 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 435998012082 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 435998012083 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998012084 Coenzyme A binding pocket [chemical binding]; other site 435998012085 Uncharacterized conserved protein [Function unknown]; Region: COG3592 435998012086 Predicted membrane protein [Function unknown]; Region: COG2259 435998012087 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 435998012088 Smr domain; Region: Smr; pfam01713 435998012089 Protein of unknown function (DUF1198); Region: DUF1198; pfam06711 435998012090 hypothetical protein; Provisional; Region: PRK10556 435998012091 major facilitator superfamily transporter; Provisional; Region: PRK05122 435998012092 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 435998012093 putative substrate translocation pore; other site 435998012094 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998012095 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998012096 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 435998012097 putative effector binding pocket; other site 435998012098 dimerization interface [polypeptide binding]; other site 435998012099 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 435998012100 putative substrate translocation pore; other site 435998012101 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 435998012102 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 435998012103 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 435998012104 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 435998012105 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998012106 DNA-binding site [nucleotide binding]; DNA binding site 435998012107 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 435998012108 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998012109 homodimer interface [polypeptide binding]; other site 435998012110 catalytic residue [active] 435998012111 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 435998012112 Uncharacterized conserved protein [Function unknown]; Region: COG2128 435998012113 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 435998012114 catalytic residues [active] 435998012115 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 435998012116 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 435998012117 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 435998012118 Class I ribonucleotide reductase; Region: RNR_I; cd01679 435998012119 active site 435998012120 dimer interface [polypeptide binding]; other site 435998012121 catalytic residues [active] 435998012122 effector binding site; other site 435998012123 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 435998012124 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 435998012125 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 435998012126 dimer interface [polypeptide binding]; other site 435998012127 putative radical transfer pathway; other site 435998012128 diiron center [ion binding]; other site 435998012129 tyrosyl radical; other site 435998012130 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 435998012131 short chain dehydrogenase; Provisional; Region: PRK12937 435998012132 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 435998012133 NADP binding site [chemical binding]; other site 435998012134 homodimer interface [polypeptide binding]; other site 435998012135 active site 435998012136 substrate binding site [chemical binding]; other site 435998012137 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 435998012138 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 435998012139 active site 435998012140 nucleophile elbow; other site 435998012141 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 435998012142 sensor histidine kinase DpiB; Provisional; Region: dpiB; PRK15053 435998012143 PAS domain; Region: PAS; smart00091 435998012144 putative active site [active] 435998012145 heme pocket [chemical binding]; other site 435998012146 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998012147 ATP binding site [chemical binding]; other site 435998012148 Mg2+ binding site [ion binding]; other site 435998012149 G-X-G motif; other site 435998012150 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 435998012151 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998012152 active site 435998012153 phosphorylation site [posttranslational modification] 435998012154 intermolecular recognition site; other site 435998012155 dimerization interface [polypeptide binding]; other site 435998012156 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 435998012157 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 435998012158 Walker A/P-loop; other site 435998012159 ATP binding site [chemical binding]; other site 435998012160 Q-loop/lid; other site 435998012161 ABC transporter signature motif; other site 435998012162 Walker B; other site 435998012163 D-loop; other site 435998012164 H-loop/switch region; other site 435998012165 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 435998012166 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 435998012167 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 435998012168 dimer interface [polypeptide binding]; other site 435998012169 conserved gate region; other site 435998012170 putative PBP binding loops; other site 435998012171 ABC-ATPase subunit interface; other site 435998012172 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 435998012173 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 435998012174 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998012175 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998012176 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_3; cd08436 435998012177 putative dimerization interface [polypeptide binding]; other site 435998012178 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 435998012179 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 435998012180 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 435998012181 putative L-valine exporter; Provisional; Region: PRK10408 435998012182 transcriptional repressor MprA; Provisional; Region: PRK10870 435998012183 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 435998012184 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 435998012185 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 435998012186 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435998012187 HlyD family secretion protein; Region: HlyD_3; pfam13437 435998012188 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 435998012189 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 435998012190 putative substrate translocation pore; other site 435998012191 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 435998012192 putative methyltransferase; Provisional; Region: PRK10864 435998012193 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 435998012194 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 435998012195 thioredoxin 2; Provisional; Region: PRK10996 435998012196 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 435998012197 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 435998012198 catalytic residues [active] 435998012199 Uncharacterized conserved protein [Function unknown]; Region: COG3148 435998012200 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 435998012201 CoA binding domain; Region: CoA_binding_2; pfam13380 435998012202 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 435998012203 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 435998012204 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 435998012205 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998012206 Coenzyme A binding pocket [chemical binding]; other site 435998012207 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 435998012208 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 435998012209 domain interface [polypeptide binding]; other site 435998012210 putative active site [active] 435998012211 catalytic site [active] 435998012212 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 435998012213 domain interface [polypeptide binding]; other site 435998012214 putative active site [active] 435998012215 catalytic site [active] 435998012216 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 435998012217 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 435998012218 putative substrate translocation pore; other site 435998012219 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 435998012220 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 435998012221 active site 435998012222 motif I; other site 435998012223 motif II; other site 435998012224 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 435998012225 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 435998012226 Walker A/P-loop; other site 435998012227 ATP binding site [chemical binding]; other site 435998012228 Q-loop/lid; other site 435998012229 ABC transporter signature motif; other site 435998012230 Walker B; other site 435998012231 D-loop; other site 435998012232 H-loop/switch region; other site 435998012233 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 435998012234 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 435998012235 dimer interface [polypeptide binding]; other site 435998012236 conserved gate region; other site 435998012237 ABC-ATPase subunit interface; other site 435998012238 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 435998012239 lipoprotein, YaeC family; Region: TIGR00363 435998012240 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 435998012241 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 435998012242 homodimer interaction site [polypeptide binding]; other site 435998012243 cofactor binding site; other site 435998012244 prolyl-tRNA synthetase; Provisional; Region: PRK09194 435998012245 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 435998012246 dimer interface [polypeptide binding]; other site 435998012247 motif 1; other site 435998012248 active site 435998012249 motif 2; other site 435998012250 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 435998012251 putative deacylase active site [active] 435998012252 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 435998012253 active site 435998012254 motif 3; other site 435998012255 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 435998012256 anticodon binding site; other site 435998012257 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 435998012258 NlpE N-terminal domain; Region: NlpE; pfam04170 435998012259 hypothetical protein; Provisional; Region: PRK09256 435998012260 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 435998012261 YaeQ protein; Region: YaeQ; pfam07152 435998012262 hypothetical protein; Provisional; Region: PRK04964 435998012263 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; cl09210 435998012264 Cytochrome c; Region: Cytochrom_C; cl11414 435998012265 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 435998012266 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 435998012267 Ligand Binding Site [chemical binding]; other site 435998012268 TilS substrate binding domain; Region: TilS; pfam09179 435998012269 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 435998012270 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 435998012271 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 435998012272 putative substrate translocation pore; other site 435998012273 POT family; Region: PTR2; pfam00854 435998012274 lysine decarboxylase CadA; Provisional; Region: PRK15400 435998012275 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 435998012276 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 435998012277 homodimer interface [polypeptide binding]; other site 435998012278 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998012279 catalytic residue [active] 435998012280 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 435998012281 lysine/cadaverine antiporter; Provisional; Region: cadB; PRK10435 435998012282 DNA-binding transcriptional activator CadC; Provisional; Region: PRK10153 435998012283 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 435998012284 DNA binding site [nucleotide binding] 435998012285 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 435998012286 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 435998012287 putative metal binding site [ion binding]; other site 435998012288 lysine decarboxylase LdcC; Provisional; Region: PRK15399 435998012289 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 435998012290 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 435998012291 homodimer interface [polypeptide binding]; other site 435998012292 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998012293 catalytic residue [active] 435998012294 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 435998012295 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 435998012296 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; pfam03255 435998012297 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 435998012298 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 435998012299 putative active site [active] 435998012300 putative PHP Thumb interface [polypeptide binding]; other site 435998012301 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 435998012302 generic binding surface II; other site 435998012303 generic binding surface I; other site 435998012304 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 435998012305 RNA/DNA hybrid binding site [nucleotide binding]; other site 435998012306 active site 435998012307 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 435998012308 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; cd01635 435998012309 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 435998012310 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 435998012311 active site 435998012312 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 435998012313 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 435998012314 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 435998012315 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 435998012316 trimer interface [polypeptide binding]; other site 435998012317 active site 435998012318 UDP-GlcNAc binding site [chemical binding]; other site 435998012319 lipid binding site [chemical binding]; lipid-binding site 435998012320 periplasmic chaperone; Provisional; Region: PRK10780 435998012321 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 435998012322 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 435998012323 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 435998012324 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 435998012325 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 435998012326 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 435998012327 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 435998012328 Surface antigen; Region: Bac_surface_Ag; pfam01103 435998012329 zinc metallopeptidase RseP; Provisional; Region: PRK10779 435998012330 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 435998012331 active site 435998012332 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 435998012333 protein binding site [polypeptide binding]; other site 435998012334 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 435998012335 protein binding site [polypeptide binding]; other site 435998012336 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 435998012337 putative substrate binding region [chemical binding]; other site 435998012338 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 435998012339 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 435998012340 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 435998012341 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 435998012342 catalytic residue [active] 435998012343 putative FPP diphosphate binding site; other site 435998012344 putative FPP binding hydrophobic cleft; other site 435998012345 dimer interface [polypeptide binding]; other site 435998012346 putative IPP diphosphate binding site; other site 435998012347 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 435998012348 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 435998012349 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 435998012350 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 435998012351 ribosome recycling factor; Reviewed; Region: frr; PRK00083 435998012352 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 435998012353 hinge region; other site 435998012354 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 435998012355 putative nucleotide binding site [chemical binding]; other site 435998012356 uridine monophosphate binding site [chemical binding]; other site 435998012357 homohexameric interface [polypeptide binding]; other site 435998012358 elongation factor Ts; Provisional; Region: tsf; PRK09377 435998012359 UBA/TS-N domain; Region: UBA; pfam00627 435998012360 Elongation factor TS; Region: EF_TS; pfam00889 435998012361 Elongation factor TS; Region: EF_TS; pfam00889 435998012362 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 435998012363 rRNA interaction site [nucleotide binding]; other site 435998012364 S8 interaction site; other site 435998012365 putative laminin-1 binding site; other site 435998012366 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 435998012367 active site 435998012368 PII uridylyl-transferase; Provisional; Region: PRK05007 435998012369 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 435998012370 metal binding triad; other site 435998012371 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 435998012372 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 435998012373 Zn2+ binding site [ion binding]; other site 435998012374 Mg2+ binding site [ion binding]; other site 435998012375 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 435998012376 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 435998012377 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 435998012378 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 435998012379 trimer interface [polypeptide binding]; other site 435998012380 active site 435998012381 substrate binding site [chemical binding]; other site 435998012382 CoA binding site [chemical binding]; other site 435998012383 hypothetical protein; Provisional; Region: PRK13677 435998012384 flavodoxin; Provisional; Region: PRK08105 435998012385 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 435998012386 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 435998012387 probable active site [active] 435998012388 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 435998012389 Transglycosylase; Region: Transgly; pfam00912 435998012390 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 435998012391 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 435998012392 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 435998012393 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 435998012394 MG2 domain; Region: A2M_N; pfam01835 435998012395 Alpha-2-macroglobulin family; Region: A2M; pfam00207 435998012396 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 435998012397 surface patch; other site 435998012398 thioester region; other site 435998012399 specificity defining residues; other site 435998012400 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 435998012401 benzoate transport; Region: 2A0115; TIGR00895 435998012402 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 435998012403 putative substrate translocation pore; other site 435998012404 SecY interacting protein Syd; Provisional; Region: PRK04968 435998012405 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 435998012406 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 435998012407 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 435998012408 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 435998012409 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 435998012410 flap endonuclease-like protein; Provisional; Region: PRK09482 435998012411 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 435998012412 active site 435998012413 metal binding site 1 [ion binding]; metal-binding site 435998012414 putative 5' ssDNA interaction site; other site 435998012415 metal binding site 3; metal-binding site 435998012416 metal binding site 2 [ion binding]; metal-binding site 435998012417 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 435998012418 putative DNA binding site [nucleotide binding]; other site 435998012419 putative metal binding site [ion binding]; other site 435998012420 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 435998012421 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 435998012422 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 435998012423 hypothetical protein; Provisional; Region: PRK10873 435998012424 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 435998012425 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998012426 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 435998012427 dimerization interface [polypeptide binding]; other site 435998012428 substrate binding pocket [chemical binding]; other site 435998012429 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 435998012430 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 435998012431 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 435998012432 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 435998012433 catalytic residue [active] 435998012434 Fe-S metabolism associated domain; Region: SufE; cl00951 435998012435 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 435998012436 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 435998012437 putative ATP binding site [chemical binding]; other site 435998012438 putative substrate interface [chemical binding]; other site 435998012439 murein transglycosylase A; Provisional; Region: mltA; PRK11162 435998012440 MltA specific insert domain; Region: MltA; smart00925 435998012441 3D domain; Region: 3D; pfam06725 435998012442 AMIN domain; Region: AMIN; pfam11741 435998012443 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 435998012444 active site 435998012445 metal binding site [ion binding]; metal-binding site 435998012446 N-acetylglutamate synthase; Validated; Region: PRK05279 435998012447 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 435998012448 putative feedback inhibition sensing region; other site 435998012449 putative nucleotide binding site [chemical binding]; other site 435998012450 putative substrate binding site [chemical binding]; other site 435998012451 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998012452 Coenzyme A binding pocket [chemical binding]; other site 435998012453 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 435998012454 AAA domain; Region: AAA_30; pfam13604 435998012455 Family description; Region: UvrD_C_2; pfam13538 435998012456 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 435998012457 protease3; Provisional; Region: PRK15101 435998012458 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 435998012459 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 435998012460 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 435998012461 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 435998012462 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 435998012463 Prepilin peptidase dependent protein C term (DUF3728); Region: DUF3728; pfam12528 435998012464 Protein of unknown function (DUF2509); Region: DUF2509; cl11672 435998012465 hypothetical protein; Provisional; Region: PRK10557 435998012466 hypothetical protein; Provisional; Region: PRK10506 435998012467 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 435998012468 metal binding site [ion binding]; metal-binding site 435998012469 thymidylate synthase; Reviewed; Region: thyA; PRK01827 435998012470 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 435998012471 dimerization interface [polypeptide binding]; other site 435998012472 active site 435998012473 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 435998012474 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 435998012475 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 435998012476 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 435998012477 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 435998012478 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 435998012479 RNA pyrophosphohydrolase; Reviewed; Region: PRK00714 435998012480 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 435998012481 putative DNA-binding cleft [nucleotide binding]; other site 435998012482 putative DNA clevage site; other site 435998012483 molecular lever; other site 435998012484 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 435998012485 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 435998012486 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 435998012487 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 435998012488 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 435998012489 active site 435998012490 catalytic tetrad [active] 435998012491 lysophospholipid transporter LplT; Provisional; Region: PRK11195 435998012492 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 435998012493 putative substrate translocation pore; other site 435998012494 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 435998012495 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 435998012496 putative acyl-acceptor binding pocket; other site 435998012497 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 435998012498 acyl-activating enzyme (AAE) consensus motif; other site 435998012499 putative AMP binding site [chemical binding]; other site 435998012500 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 435998012501 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 435998012502 molybdopterin cofactor binding site [chemical binding]; other site 435998012503 substrate binding site [chemical binding]; other site 435998012504 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 435998012505 molybdopterin cofactor binding site; other site 435998012506 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 435998012507 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998012508 DNA binding site [nucleotide binding] 435998012509 domain linker motif; other site 435998012510 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 435998012511 dimerization interface (closed form) [polypeptide binding]; other site 435998012512 ligand binding site [chemical binding]; other site 435998012513 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 435998012514 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 435998012515 sequence-specific DNA binding site [nucleotide binding]; other site 435998012516 salt bridge; other site 435998012517 diaminopimelate decarboxylase; Provisional; Region: PRK11165 435998012518 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 435998012519 active site 435998012520 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 435998012521 substrate binding site [chemical binding]; other site 435998012522 catalytic residues [active] 435998012523 dimer interface [polypeptide binding]; other site 435998012524 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 435998012525 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998012526 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 435998012527 dimerization interface [polypeptide binding]; other site 435998012528 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998012529 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998012530 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 435998012531 putative effector binding pocket; other site 435998012532 dimerization interface [polypeptide binding]; other site 435998012533 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 435998012534 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 435998012535 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 435998012536 catalytic residues [active] 435998012537 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 435998012538 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 435998012539 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 435998012540 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 435998012541 active pocket/dimerization site; other site 435998012542 active site 435998012543 phosphorylation site [posttranslational modification] 435998012544 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 435998012545 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 435998012546 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 435998012547 active site 435998012548 phosphorylation site [posttranslational modification] 435998012549 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; pfam08013 435998012550 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 435998012551 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 435998012552 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 435998012553 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 435998012554 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 435998012555 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 435998012556 Walker A/P-loop; other site 435998012557 ATP binding site [chemical binding]; other site 435998012558 Q-loop/lid; other site 435998012559 ABC transporter signature motif; other site 435998012560 Walker B; other site 435998012561 D-loop; other site 435998012562 H-loop/switch region; other site 435998012563 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998012564 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998012565 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 435998012566 putative effector binding pocket; other site 435998012567 dimerization interface [polypeptide binding]; other site 435998012568 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 435998012569 L-lactate permease; Region: Lactate_perm; cl00701 435998012570 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 435998012571 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 435998012572 phosphate binding site [ion binding]; other site 435998012573 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 435998012574 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 435998012575 D-galactonate transporter; Region: 2A0114; TIGR00893 435998012576 putative substrate translocation pore; other site 435998012577 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 435998012578 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 435998012579 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 435998012580 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 435998012581 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 435998012582 active site 435998012583 BCCT family transporter; Region: BCCT; pfam02028 435998012584 transcriptional regulator BetI; Validated; Region: PRK00767 435998012585 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 435998012586 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 435998012587 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 435998012588 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 435998012589 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 435998012590 Walker A/P-loop; other site 435998012591 ATP binding site [chemical binding]; other site 435998012592 Q-loop/lid; other site 435998012593 ABC transporter signature motif; other site 435998012594 Walker B; other site 435998012595 D-loop; other site 435998012596 H-loop/switch region; other site 435998012597 Helix-turn-helix domain; Region: HTH_18; pfam12833 435998012598 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998012599 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 435998012600 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 435998012601 Peptidase family M23; Region: Peptidase_M23; pfam01551 435998012602 acid-resistance membrane protein; Provisional; Region: PRK10209 435998012603 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 435998012604 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 435998012605 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 435998012606 ligand binding site [chemical binding]; other site 435998012607 Biofilm formation and stress response factor; Region: BsmA; cl01794 435998012608 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 435998012609 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 435998012610 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 435998012611 catalytic residue [active] 435998012612 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 435998012613 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998012614 DNA binding site [nucleotide binding] 435998012615 domain linker motif; other site 435998012616 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 435998012617 putative dimerization interface [polypeptide binding]; other site 435998012618 putative ligand binding site [chemical binding]; other site 435998012619 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 435998012620 Cytochrome c; Region: Cytochrom_C; pfam00034 435998012621 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 435998012622 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 435998012623 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 435998012624 Domain of unknown function (DUF386); Region: DUF386; cl01047 435998012625 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 435998012626 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 435998012627 putative ligand binding site [chemical binding]; other site 435998012628 NAD binding site [chemical binding]; other site 435998012629 catalytic site [active] 435998012630 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 435998012631 D-galactonate transporter; Region: 2A0114; TIGR00893 435998012632 putative substrate translocation pore; other site 435998012633 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 435998012634 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 435998012635 dimer interface [polypeptide binding]; other site 435998012636 putative anticodon binding site; other site 435998012637 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 435998012638 motif 1; other site 435998012639 active site 435998012640 motif 2; other site 435998012641 motif 3; other site 435998012642 This domain is found in peptide chain release factors; Region: PCRF; smart00937 435998012643 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 435998012644 RF-1 domain; Region: RF-1; pfam00472 435998012645 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 435998012646 DHH family; Region: DHH; pfam01368 435998012647 DHHA1 domain; Region: DHHA1; pfam02272 435998012648 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 435998012649 dimerization domain [polypeptide binding]; other site 435998012650 dimer interface [polypeptide binding]; other site 435998012651 catalytic residues [active] 435998012652 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 435998012653 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 435998012654 active site 435998012655 Int/Topo IB signature motif; other site 435998012656 flavodoxin FldB; Provisional; Region: PRK12359 435998012657 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 435998012658 hypothetical protein; Provisional; Region: PRK10878 435998012659 putative global regulator; Reviewed; Region: PRK09559 435998012660 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 435998012661 Predicted small integral membrane protein (DUF2165); Region: DUF2165; pfam09933 435998012662 hemolysin; Provisional; Region: PRK15087 435998012663 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 435998012664 HD domain; Region: HD_3; pfam13023 435998012665 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 435998012666 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 435998012667 substrate binding site [chemical binding]; other site 435998012668 dimer interface [polypeptide binding]; other site 435998012669 ATP binding site [chemical binding]; other site 435998012670 D-allose kinase; Provisional; Region: PRK09698 435998012671 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 435998012672 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 435998012673 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 435998012674 substrate binding site [chemical binding]; other site 435998012675 hexamer interface [polypeptide binding]; other site 435998012676 metal binding site [ion binding]; metal-binding site 435998012677 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 435998012678 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 435998012679 TM-ABC transporter signature motif; other site 435998012680 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 435998012681 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 435998012682 TM-ABC transporter signature motif; other site 435998012683 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 435998012684 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 435998012685 Walker A/P-loop; other site 435998012686 ATP binding site [chemical binding]; other site 435998012687 Q-loop/lid; other site 435998012688 ABC transporter signature motif; other site 435998012689 Walker B; other site 435998012690 D-loop; other site 435998012691 H-loop/switch region; other site 435998012692 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 435998012693 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 435998012694 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 435998012695 ligand binding site [chemical binding]; other site 435998012696 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 435998012697 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 435998012698 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 435998012699 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 435998012700 Protein of unknown function (DUF497); Region: DUF497; pfam04365 435998012701 putative NAD(P)-binding oxidoreductase; Provisional; Region: PRK09730 435998012702 classical (c) SDRs; Region: SDR_c; cd05233 435998012703 NAD(P) binding site [chemical binding]; other site 435998012704 active site 435998012705 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 435998012706 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998012707 active site 435998012708 phosphorylation site [posttranslational modification] 435998012709 intermolecular recognition site; other site 435998012710 dimerization interface [polypeptide binding]; other site 435998012711 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 435998012712 DNA binding site [nucleotide binding] 435998012713 sensor protein QseC; Provisional; Region: PRK10337 435998012714 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 435998012715 dimer interface [polypeptide binding]; other site 435998012716 phosphorylation site [posttranslational modification] 435998012717 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998012718 ATP binding site [chemical binding]; other site 435998012719 Mg2+ binding site [ion binding]; other site 435998012720 G-X-G motif; other site 435998012721 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998012722 Coenzyme A binding pocket [chemical binding]; other site 435998012723 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 435998012724 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 435998012725 NAD(P) binding site [chemical binding]; other site 435998012726 glycine dehydrogenase; Provisional; Region: PRK05367 435998012727 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 435998012728 tetramer interface [polypeptide binding]; other site 435998012729 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998012730 catalytic residue [active] 435998012731 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 435998012732 tetramer interface [polypeptide binding]; other site 435998012733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998012734 catalytic residue [active] 435998012735 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 435998012736 lipoyl attachment site [posttranslational modification]; other site 435998012737 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 435998012738 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 435998012739 oxidoreductase; Provisional; Region: PRK08013 435998012740 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 435998012741 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 435998012742 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 435998012743 proline aminopeptidase P II; Provisional; Region: PRK10879 435998012744 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 435998012745 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 435998012746 active site 435998012747 hypothetical protein; Reviewed; Region: PRK01736 435998012748 Z-ring-associated protein; Provisional; Region: PRK10972 435998012749 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 435998012750 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 435998012751 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 435998012752 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 435998012753 ligand binding site [chemical binding]; other site 435998012754 NAD binding site [chemical binding]; other site 435998012755 tetramer interface [polypeptide binding]; other site 435998012756 catalytic site [active] 435998012757 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 435998012758 L-serine binding site [chemical binding]; other site 435998012759 ACT domain interface; other site 435998012760 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 435998012761 tetramer (dimer of dimers) interface [polypeptide binding]; other site 435998012762 active site 435998012763 dimer interface [polypeptide binding]; other site 435998012764 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 435998012765 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998012766 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 435998012767 putative dimerization interface [polypeptide binding]; other site 435998012768 Uncharacterized conserved protein [Function unknown]; Region: COG2968 435998012769 oxidative stress defense protein; Provisional; Region: PRK11087 435998012770 LysE type translocator; Region: LysE; cl00565 435998012771 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 435998012772 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 435998012773 active site 435998012774 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 435998012775 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 435998012776 methionine synthase; Provisional; Region: PRK01207 435998012777 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 435998012778 substrate binding site [chemical binding]; other site 435998012779 THF binding site; other site 435998012780 zinc-binding site [ion binding]; other site 435998012781 benzoate transport; Region: 2A0115; TIGR00895 435998012782 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 435998012783 putative substrate translocation pore; other site 435998012784 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 435998012785 mechanosensitive channel MscS; Provisional; Region: PRK10334 435998012786 Mechanosensitive ion channel; Region: MS_channel; pfam00924 435998012787 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 435998012788 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 435998012789 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 435998012790 active site 435998012791 intersubunit interface [polypeptide binding]; other site 435998012792 zinc binding site [ion binding]; other site 435998012793 Na+ binding site [ion binding]; other site 435998012794 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 435998012795 Phosphoglycerate kinase; Region: PGK; pfam00162 435998012796 substrate binding site [chemical binding]; other site 435998012797 hinge regions; other site 435998012798 ADP binding site [chemical binding]; other site 435998012799 catalytic site [active] 435998012800 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 435998012801 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 435998012802 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 435998012803 transcriptional activator TtdR; Provisional; Region: PRK09801 435998012804 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998012805 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 435998012806 putative effector binding pocket; other site 435998012807 putative dimerization interface [polypeptide binding]; other site 435998012808 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 435998012809 tartrate dehydrogenase; Region: TTC; TIGR02089 435998012810 putative transporter; Provisional; Region: PRK09950 435998012811 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 435998012812 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 435998012813 [2Fe-2S] cluster binding site [ion binding]; other site 435998012814 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_2; cd08886 435998012815 putative alpha subunit interface [polypeptide binding]; other site 435998012816 putative active site [active] 435998012817 putative substrate binding site [chemical binding]; other site 435998012818 Fe binding site [ion binding]; other site 435998012819 succinic semialdehyde dehydrogenase; Region: PLN02278 435998012820 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 435998012821 tetramerization interface [polypeptide binding]; other site 435998012822 NAD(P) binding site [chemical binding]; other site 435998012823 catalytic residues [active] 435998012824 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 435998012825 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 435998012826 FMN-binding pocket [chemical binding]; other site 435998012827 flavin binding motif; other site 435998012828 phosphate binding motif [ion binding]; other site 435998012829 beta-alpha-beta structure motif; other site 435998012830 NAD binding pocket [chemical binding]; other site 435998012831 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 435998012832 catalytic loop [active] 435998012833 iron binding site [ion binding]; other site 435998012834 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 435998012835 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998012836 Walker A/P-loop; other site 435998012837 ATP binding site [chemical binding]; other site 435998012838 Q-loop/lid; other site 435998012839 ABC transporter signature motif; other site 435998012840 Walker B; other site 435998012841 D-loop; other site 435998012842 H-loop/switch region; other site 435998012843 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 435998012844 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 435998012845 dimer interface [polypeptide binding]; other site 435998012846 conserved gate region; other site 435998012847 ABC-ATPase subunit interface; other site 435998012848 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 435998012849 dimer interface [polypeptide binding]; other site 435998012850 conserved gate region; other site 435998012851 putative PBP binding loops; other site 435998012852 ABC-ATPase subunit interface; other site 435998012853 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 435998012854 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 435998012855 EamA-like transporter family; Region: EamA; pfam00892 435998012856 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 435998012857 dimer interface [polypeptide binding]; other site 435998012858 putative tRNA-binding site [nucleotide binding]; other site 435998012859 Biofilm formation and stress response factor; Region: BsmA; pfam10014 435998012860 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 435998012861 transketolase; Reviewed; Region: PRK12753 435998012862 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 435998012863 TPP-binding site [chemical binding]; other site 435998012864 dimer interface [polypeptide binding]; other site 435998012865 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 435998012866 PYR/PP interface [polypeptide binding]; other site 435998012867 dimer interface [polypeptide binding]; other site 435998012868 TPP binding site [chemical binding]; other site 435998012869 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 435998012870 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 435998012871 hypothetical protein; Provisional; Region: PRK07064 435998012872 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 435998012873 PYR/PP interface [polypeptide binding]; other site 435998012874 dimer interface [polypeptide binding]; other site 435998012875 TPP binding site [chemical binding]; other site 435998012876 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 435998012877 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 435998012878 TPP-binding site [chemical binding]; other site 435998012879 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 435998012880 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 435998012881 NAD(P) binding site [chemical binding]; other site 435998012882 catalytic residues [active] 435998012883 L-aspartate dehydrogenase; Provisional; Region: PRK13303 435998012884 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 435998012885 Domain of unknown function DUF108; Region: DUF108; pfam01958 435998012886 short chain dehydrogenase; Provisional; Region: PRK07062 435998012887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435998012888 NAD(P) binding site [chemical binding]; other site 435998012889 active site 435998012890 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 435998012891 Cupin domain; Region: Cupin_2; pfam07883 435998012892 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 435998012893 D-galactonate transporter; Region: 2A0114; TIGR00893 435998012894 putative substrate translocation pore; other site 435998012895 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 435998012896 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 435998012897 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 435998012898 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 435998012899 active site 435998012900 metal binding site [ion binding]; metal-binding site 435998012901 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 435998012902 putative active site [active] 435998012903 putative metal binding site [ion binding]; other site 435998012904 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 435998012905 Transcriptional regulator [Transcription]; Region: IclR; COG1414 435998012906 Bacterial transcriptional regulator; Region: IclR; pfam01614 435998012907 short chain dehydrogenase; Provisional; Region: PRK12939 435998012908 classical (c) SDRs; Region: SDR_c; cd05233 435998012909 NAD(P) binding site [chemical binding]; other site 435998012910 active site 435998012911 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 435998012912 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 435998012913 [2Fe-2S] cluster binding site [ion binding]; other site 435998012914 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 435998012915 hydrophobic ligand binding site; other site 435998012916 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 435998012917 [2Fe-2S] cluster binding site [ion binding]; other site 435998012918 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 435998012919 D-galactonate transporter; Region: 2A0114; TIGR00893 435998012920 putative substrate translocation pore; other site 435998012921 Hok/gef family; Region: HOK_GEF; pfam01848 435998012922 Hok/gef family; Region: HOK_GEF; pfam01848 435998012923 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 435998012924 agmatinase; Region: agmatinase; TIGR01230 435998012925 oligomer interface [polypeptide binding]; other site 435998012926 putative active site [active] 435998012927 Mn binding site [ion binding]; other site 435998012928 arginine decarboxylase; Provisional; Region: PRK05354 435998012929 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 435998012930 dimer interface [polypeptide binding]; other site 435998012931 active site 435998012932 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 435998012933 catalytic residues [active] 435998012934 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 435998012935 S-adenosylmethionine synthetase; Validated; Region: PRK05250 435998012936 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 435998012937 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 435998012938 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 435998012939 Hok/gef family; Region: HOK_GEF; pfam01848 435998012940 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 435998012941 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 435998012942 ABC-ATPase subunit interface; other site 435998012943 dimer interface [polypeptide binding]; other site 435998012944 putative PBP binding regions; other site 435998012945 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 435998012946 ABC-ATPase subunit interface; other site 435998012947 dimer interface [polypeptide binding]; other site 435998012948 putative PBP binding regions; other site 435998012949 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 435998012950 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 435998012951 intersubunit interface [polypeptide binding]; other site 435998012952 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 435998012953 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 435998012954 Walker A/P-loop; other site 435998012955 ATP binding site [chemical binding]; other site 435998012956 Q-loop/lid; other site 435998012957 ABC transporter signature motif; other site 435998012958 Walker B; other site 435998012959 D-loop; other site 435998012960 H-loop/switch region; other site 435998012961 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 435998012962 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 435998012963 N-terminal plug; other site 435998012964 ligand-binding site [chemical binding]; other site 435998012965 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 435998012966 Transglycosylase; Region: Transgly; pfam00912 435998012967 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 435998012968 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 435998012969 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 435998012970 ATP binding site [chemical binding]; other site 435998012971 putative Mg++ binding site [ion binding]; other site 435998012972 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 435998012973 nucleotide binding region [chemical binding]; other site 435998012974 ATP-binding site [chemical binding]; other site 435998012975 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 435998012976 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 435998012977 2'-5' RNA ligase; Provisional; Region: PRK15124 435998012978 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 435998012979 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 435998012980 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 435998012981 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 435998012982 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 435998012983 active site 435998012984 nucleotide binding site [chemical binding]; other site 435998012985 HIGH motif; other site 435998012986 KMSKS motif; other site 435998012987 poly(A) polymerase; Region: pcnB; TIGR01942 435998012988 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 435998012989 active site 435998012990 NTP binding site [chemical binding]; other site 435998012991 metal binding triad [ion binding]; metal-binding site 435998012992 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 435998012993 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 435998012994 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 435998012995 catalytic center binding site [active] 435998012996 ATP binding site [chemical binding]; other site 435998012997 sensor protein QseC; Provisional; Region: PRK10337 435998012998 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 435998012999 dimer interface [polypeptide binding]; other site 435998013000 phosphorylation site [posttranslational modification] 435998013001 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998013002 ATP binding site [chemical binding]; other site 435998013003 Mg2+ binding site [ion binding]; other site 435998013004 G-X-G motif; other site 435998013005 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 435998013006 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998013007 active site 435998013008 phosphorylation site [posttranslational modification] 435998013009 intermolecular recognition site; other site 435998013010 dimerization interface [polypeptide binding]; other site 435998013011 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 435998013012 DNA binding site [nucleotide binding] 435998013013 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 435998013014 oligomerization interface [polypeptide binding]; other site 435998013015 active site 435998013016 metal binding site [ion binding]; metal-binding site 435998013017 Pantoate-beta-alanine ligase; Region: PanC; cd00560 435998013018 pantoate--beta-alanine ligase; Region: panC; TIGR00018 435998013019 active site 435998013020 ATP-binding site [chemical binding]; other site 435998013021 pantoate-binding site; other site 435998013022 HXXH motif; other site 435998013023 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 435998013024 tetramerization interface [polypeptide binding]; other site 435998013025 active site 435998013026 Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; Region: CE4_yadE_5s; cd10966 435998013027 putative active site [active] 435998013028 putative metal binding site [ion binding]; other site 435998013029 inner membrane transport permease; Provisional; Region: PRK15066 435998013030 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 435998013031 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 435998013032 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 435998013033 Walker A/P-loop; other site 435998013034 ATP binding site [chemical binding]; other site 435998013035 Q-loop/lid; other site 435998013036 ABC transporter signature motif; other site 435998013037 Walker B; other site 435998013038 D-loop; other site 435998013039 H-loop/switch region; other site 435998013040 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 435998013041 active site clefts [active] 435998013042 zinc binding site [ion binding]; other site 435998013043 dimer interface [polypeptide binding]; other site 435998013044 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 435998013045 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 435998013046 active site 435998013047 multicopper oxidase; Provisional; Region: PRK10965 435998013048 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 435998013049 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 435998013050 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 435998013051 spermidine synthase; Provisional; Region: PRK00811 435998013052 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 435998013053 S-adenosylmethionine binding site [chemical binding]; other site 435998013054 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 435998013055 hypothetical protein; Provisional; Region: PRK05248 435998013056 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 435998013057 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 435998013058 substrate binding site [chemical binding]; other site 435998013059 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 435998013060 substrate binding site [chemical binding]; other site 435998013061 ligand binding site [chemical binding]; other site 435998013062 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 435998013063 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 435998013064 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 435998013065 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 435998013066 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 435998013067 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 435998013068 E3 interaction surface; other site 435998013069 lipoyl attachment site [posttranslational modification]; other site 435998013070 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 435998013071 E3 interaction surface; other site 435998013072 lipoyl attachment site [posttranslational modification]; other site 435998013073 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 435998013074 E3 interaction surface; other site 435998013075 lipoyl attachment site [posttranslational modification]; other site 435998013076 e3 binding domain; Region: E3_binding; pfam02817 435998013077 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 435998013078 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 435998013079 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 435998013080 dimer interface [polypeptide binding]; other site 435998013081 TPP-binding site [chemical binding]; other site 435998013082 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 435998013083 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998013084 DNA-binding site [nucleotide binding]; DNA binding site 435998013085 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 435998013086 aromatic amino acid transporter; Provisional; Region: PRK10238 435998013087 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 435998013088 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 435998013089 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 435998013090 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 435998013091 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 435998013092 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 435998013093 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 435998013094 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 435998013095 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 435998013096 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 435998013097 Ligand binding site; other site 435998013098 metal-binding site 435998013099 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 435998013100 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 435998013101 XdhC Rossmann domain; Region: XdhC_C; pfam13478 435998013102 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 435998013103 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998013104 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 435998013105 fumarate hydratase; Provisional; Region: PRK15389 435998013106 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 435998013107 Fumarase C-terminus; Region: Fumerase_C; pfam05683 435998013108 hypothetical protein; Provisional; Region: PRK04860 435998013109 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 435998013110 DNA-specific endonuclease I; Provisional; Region: PRK15137 435998013111 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 435998013112 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 435998013113 RNA methyltransferase, RsmE family; Region: TIGR00046 435998013114 glutathione synthetase; Provisional; Region: PRK05246 435998013115 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 435998013116 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 435998013117 hypothetical protein; Validated; Region: PRK00228 435998013118 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 435998013119 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 435998013120 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 435998013121 Walker A motif; other site 435998013122 ATP binding site [chemical binding]; other site 435998013123 Walker B motif; other site 435998013124 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 435998013125 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 435998013126 catalytic residue [active] 435998013127 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 435998013128 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 435998013129 YGGT family; Region: YGGT; pfam02325 435998013130 YGGT family; Region: YGGT; pfam02325 435998013131 hypothetical protein; Validated; Region: PRK05090 435998013132 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 435998013133 active site 435998013134 dimerization interface [polypeptide binding]; other site 435998013135 HemN family oxidoreductase; Provisional; Region: PRK05660 435998013136 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 435998013137 FeS/SAM binding site; other site 435998013138 HemN C-terminal domain; Region: HemN_C; pfam06969 435998013139 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 435998013140 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 435998013141 hypothetical protein; Provisional; Region: PRK10626 435998013142 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 435998013143 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 435998013144 glutaminase; Provisional; Region: PRK00971 435998013145 hypothetical protein; Provisional; Region: PRK11702 435998013146 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 435998013147 S-adenosylmethionine binding site [chemical binding]; other site 435998013148 adenine DNA glycosylase; Provisional; Region: PRK10880 435998013149 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 435998013150 minor groove reading motif; other site 435998013151 helix-hairpin-helix signature motif; other site 435998013152 substrate binding pocket [chemical binding]; other site 435998013153 active site 435998013154 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 435998013155 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 435998013156 DNA binding and oxoG recognition site [nucleotide binding] 435998013157 oxidative damage protection protein; Provisional; Region: PRK05408 435998013158 murein transglycosylase C; Provisional; Region: mltC; PRK11671 435998013159 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 435998013160 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 435998013161 N-acetyl-D-glucosamine binding site [chemical binding]; other site 435998013162 catalytic residue [active] 435998013163 ornithine decarboxylase; Provisional; Region: PRK13578 435998013164 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 435998013165 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 435998013166 homodimer interface [polypeptide binding]; other site 435998013167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998013168 catalytic residue [active] 435998013169 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 435998013170 Protein of unknown function (DUF796); Region: DUF796; pfam05638 435998013171 Protein of unknown function (DUF796); Region: DUF796; pfam05638 435998013172 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 435998013173 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 435998013174 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 435998013175 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 435998013176 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998013177 Coenzyme A binding pocket [chemical binding]; other site 435998013178 PAS fold; Region: PAS_4; pfam08448 435998013179 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 435998013180 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 435998013181 DNA binding residues [nucleotide binding] 435998013182 dimerization interface [polypeptide binding]; other site 435998013183 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 435998013184 Na binding site [ion binding]; other site 435998013185 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 435998013186 non-specific DNA binding site [nucleotide binding]; other site 435998013187 salt bridge; other site 435998013188 sequence-specific DNA binding site [nucleotide binding]; other site 435998013189 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 435998013190 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 435998013191 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 435998013192 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 435998013193 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 435998013194 Phosphoesterase family; Region: Phosphoesterase; pfam04185 435998013195 Domain of unknown function (DUF756); Region: DUF756; pfam05506 435998013196 Domain of unknown function (DUF756); Region: DUF756; pfam05506 435998013197 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 435998013198 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 435998013199 putative ligand binding residues [chemical binding]; other site 435998013200 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 435998013201 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 435998013202 N-terminal plug; other site 435998013203 ligand-binding site [chemical binding]; other site 435998013204 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 435998013205 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998013206 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 435998013207 dimerization interface [polypeptide binding]; other site 435998013208 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 435998013209 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 435998013210 putative metal binding site [ion binding]; other site 435998013211 dimer interface [polypeptide binding]; other site 435998013212 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 435998013213 amidohydrolase; Region: amidohydrolases; TIGR01891 435998013214 putative metal binding site [ion binding]; other site 435998013215 putative aminobenzoyl-glutamate transporter; Provisional; Region: abgT; PRK11339 435998013216 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 435998013217 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 435998013218 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 435998013219 putative substrate binding site [chemical binding]; other site 435998013220 putative ATP binding site [chemical binding]; other site 435998013221 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 435998013222 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 435998013223 active site turn [active] 435998013224 phosphorylation site [posttranslational modification] 435998013225 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 435998013226 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 435998013227 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 435998013228 substrate binding [chemical binding]; other site 435998013229 active site 435998013230 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 435998013231 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 435998013232 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998013233 DNA binding site [nucleotide binding] 435998013234 domain linker motif; other site 435998013235 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 435998013236 dimerization interface [polypeptide binding]; other site 435998013237 ligand binding site [chemical binding]; other site 435998013238 biopolymer transport protein ExbD; Provisional; Region: PRK11267 435998013239 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 435998013240 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 435998013241 cystathionine beta-lyase; Provisional; Region: PRK08114 435998013242 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 435998013243 homodimer interface [polypeptide binding]; other site 435998013244 substrate-cofactor binding pocket; other site 435998013245 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998013246 catalytic residue [active] 435998013247 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 435998013248 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 435998013249 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998013250 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998013251 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 435998013252 putative effector binding pocket; other site 435998013253 putative dimerization interface [polypeptide binding]; other site 435998013254 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 435998013255 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 435998013256 putative NAD(P) binding site [chemical binding]; other site 435998013257 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 435998013258 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 435998013259 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998013260 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998013261 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 435998013262 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 435998013263 dimer interface [polypeptide binding]; other site 435998013264 active site 435998013265 metal binding site [ion binding]; metal-binding site 435998013266 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 435998013267 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 435998013268 active site 435998013269 catalytic tetrad [active] 435998013270 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 435998013271 lytic murein endotransglycosylase E; Provisional; Region: emtA; PRK15470 435998013272 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 435998013273 N-acetyl-D-glucosamine binding site [chemical binding]; other site 435998013274 catalytic residue [active] 435998013275 hypothetical protein; Provisional; Region: PRK01254 435998013276 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 435998013277 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 435998013278 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 435998013279 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998013280 DNA-binding site [nucleotide binding]; DNA binding site 435998013281 UTRA domain; Region: UTRA; pfam07702 435998013282 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 435998013283 Na binding site [ion binding]; other site 435998013284 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 435998013285 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 435998013286 substrate binding site [chemical binding]; other site 435998013287 ATP binding site [chemical binding]; other site 435998013288 nucleoside transporter; Region: 2A0110; TIGR00889 435998013289 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 435998013290 purine nucleoside phosphorylase; Provisional; Region: PRK08202 435998013291 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 435998013292 putative DNA binding site [nucleotide binding]; other site 435998013293 dimerization interface [polypeptide binding]; other site 435998013294 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 435998013295 putative Zn2+ binding site [ion binding]; other site 435998013296 The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_XapR; cd08449 435998013297 putative dimerization interface [polypeptide binding]; other site 435998013298 putative substrate binding pocket [chemical binding]; other site 435998013299 FtsI repressor; Provisional; Region: PRK10883 435998013300 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 435998013301 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 435998013302 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 435998013303 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 435998013304 putative acyl-acceptor binding pocket; other site 435998013305 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 435998013306 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 435998013307 CAP-like domain; other site 435998013308 active site 435998013309 primary dimer interface [polypeptide binding]; other site 435998013310 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 435998013311 Uncharacterized conserved protein [Function unknown]; Region: COG1359 435998013312 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998013313 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998013314 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 435998013315 dimerization interface [polypeptide binding]; other site 435998013316 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 435998013317 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998013318 ATP binding site [chemical binding]; other site 435998013319 Mg2+ binding site [ion binding]; other site 435998013320 G-X-G motif; other site 435998013321 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 435998013322 anchoring element; other site 435998013323 dimer interface [polypeptide binding]; other site 435998013324 ATP binding site [chemical binding]; other site 435998013325 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 435998013326 active site 435998013327 metal binding site [ion binding]; metal-binding site 435998013328 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 435998013329 esterase YqiA; Provisional; Region: PRK11071 435998013330 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 435998013331 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 435998013332 active site 435998013333 metal binding site [ion binding]; metal-binding site 435998013334 hexamer interface [polypeptide binding]; other site 435998013335 putative dehydrogenase; Provisional; Region: PRK11039 435998013336 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 435998013337 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 435998013338 dimer interface [polypeptide binding]; other site 435998013339 ADP-ribose binding site [chemical binding]; other site 435998013340 active site 435998013341 nudix motif; other site 435998013342 metal binding site [ion binding]; metal-binding site 435998013343 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 435998013344 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 435998013345 GAF domain; Region: GAF; cl17456 435998013346 PAS domain; Region: PAS; smart00091 435998013347 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998013348 Walker A motif; other site 435998013349 ATP binding site [chemical binding]; other site 435998013350 Walker B motif; other site 435998013351 arginine finger; other site 435998013352 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 435998013353 dihydroxyacetone kinase subunit M; Provisional; Region: PRK11377 435998013354 dihydroxyacetone kinase, phosphotransfer subunit; Region: dha_pts; TIGR02364 435998013355 active pocket/dimerization site; other site 435998013356 active site 435998013357 phosphorylation site [posttranslational modification] 435998013358 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 435998013359 dimerization domain swap beta strand [polypeptide binding]; other site 435998013360 regulatory protein interface [polypeptide binding]; other site 435998013361 active site 435998013362 regulatory phosphorylation site [posttranslational modification]; other site 435998013363 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 435998013364 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 435998013365 dihydroxyacetone kinase subunit DhaL; Provisional; Region: PRK10005 435998013366 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 435998013367 Dak1 domain; Region: Dak1; pfam02733 435998013368 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 435998013369 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 435998013370 dimer interface [polypeptide binding]; other site 435998013371 active site 435998013372 metal binding site [ion binding]; metal-binding site 435998013373 hypothetical protein; Provisional; Region: PRK11653 435998013374 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 435998013375 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 435998013376 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 435998013377 putative active site [active] 435998013378 metal binding site [ion binding]; metal-binding site 435998013379 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 435998013380 dimer interface [polypeptide binding]; other site 435998013381 Alkaline phosphatase homologues; Region: alkPPc; smart00098 435998013382 active site 435998013383 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 435998013384 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 435998013385 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 435998013386 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 435998013387 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 435998013388 putative ribose interaction site [chemical binding]; other site 435998013389 putative ADP binding site [chemical binding]; other site 435998013390 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 435998013391 active site 435998013392 nucleotide binding site [chemical binding]; other site 435998013393 HIGH motif; other site 435998013394 KMSKS motif; other site 435998013395 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 435998013396 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 435998013397 metal binding triad; other site 435998013398 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 435998013399 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 435998013400 metal binding triad; other site 435998013401 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 435998013402 Uncharacterized conserved protein [Function unknown]; Region: COG3025 435998013403 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 435998013404 putative active site [active] 435998013405 putative metal binding residues [ion binding]; other site 435998013406 signature motif; other site 435998013407 putative triphosphate binding site [ion binding]; other site 435998013408 CHAD domain; Region: CHAD; pfam05235 435998013409 SH3 domain-containing protein; Provisional; Region: PRK10884 435998013410 Bacterial SH3 domain homologues; Region: SH3b; smart00287 435998013411 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 435998013412 Poly A polymerase head domain; Region: PolyA_pol; pfam01743 435998013413 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 435998013414 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 435998013415 Zn2+ binding site [ion binding]; other site 435998013416 Mg2+ binding site [ion binding]; other site 435998013417 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 435998013418 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 435998013419 homooctamer interface [polypeptide binding]; other site 435998013420 active site 435998013421 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 435998013422 UGMP family protein; Validated; Region: PRK09604 435998013423 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 435998013424 DNA primase; Validated; Region: dnaG; PRK05667 435998013425 CHC2 zinc finger; Region: zf-CHC2; pfam01807 435998013426 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 435998013427 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 435998013428 active site 435998013429 metal binding site [ion binding]; metal-binding site 435998013430 interdomain interaction site; other site 435998013431 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 435998013432 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 435998013433 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 435998013434 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 435998013435 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 435998013436 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 435998013437 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435998013438 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 435998013439 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 435998013440 DNA binding residues [nucleotide binding] 435998013441 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 435998013442 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 435998013443 active site 435998013444 SUMO-1 interface [polypeptide binding]; other site 435998013445 tail protein; Provisional; Region: D; PHA02561 435998013446 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 435998013447 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 435998013448 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 435998013449 major tail tube protein; Provisional; Region: FII; PHA02600 435998013450 major tail sheath protein; Provisional; Region: FI; PHA02560 435998013451 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 435998013452 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 435998013453 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 435998013454 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 435998013455 baseplate assembly protein; Provisional; Region: J; PHA02568 435998013456 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 435998013457 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 435998013458 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 435998013459 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 435998013460 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 435998013461 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 435998013462 catalytic residues [active] 435998013463 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 435998013464 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 435998013465 terminase endonuclease subunit; Provisional; Region: M; PHA02537 435998013466 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 435998013467 capsid protein; Provisional; Region: N; PHA02538 435998013468 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 435998013469 terminase ATPase subunit; Provisional; Region: P; PHA02535 435998013470 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 435998013471 portal vertex protein; Provisional; Region: Q; PHA02536 435998013472 Phage portal protein; Region: Phage_portal; pfam04860 435998013473 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 435998013474 HicB family; Region: HicB; pfam05534 435998013475 RloB-like protein; Region: RloB; pfam13707 435998013476 AAA domain; Region: AAA_21; pfam13304 435998013477 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 435998013478 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 435998013479 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 435998013480 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 435998013481 Phage HP1 integrase, C-terminal catalytic domain. Bacteriophage HP1 and related integrases are found in eubacteria, plasmids and temperate bacteriophages of the P2 family. They belong to the DNA breaking-rejoining enzyme superfamily, which includes...; Region: HP1_INT_C; cd00797 435998013482 dimer interface [polypeptide binding]; other site 435998013483 active site 435998013484 catalytic residues [active] 435998013485 Int/Topo IB signature motif; other site 435998013486 Predicted transcriptional regulators [Transcription]; Region: COG1733 435998013487 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 435998013488 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 435998013489 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 435998013490 Pirin-related protein [General function prediction only]; Region: COG1741 435998013491 Pirin; Region: Pirin; pfam02678 435998013492 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998013493 Coenzyme A binding pocket [chemical binding]; other site 435998013494 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 435998013495 HPP family; Region: HPP; pfam04982 435998013496 glutathione S-transferase; Provisional; Region: PRK15113 435998013497 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 435998013498 C-terminal domain interface [polypeptide binding]; other site 435998013499 GSH binding site (G-site) [chemical binding]; other site 435998013500 dimer interface [polypeptide binding]; other site 435998013501 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 435998013502 N-terminal domain interface [polypeptide binding]; other site 435998013503 putative dimer interface [polypeptide binding]; other site 435998013504 putative substrate binding pocket (H-site) [chemical binding]; other site 435998013505 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 435998013506 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 435998013507 succinic semialdehyde dehydrogenase; Region: PLN02278 435998013508 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 435998013509 tetramerization interface [polypeptide binding]; other site 435998013510 NAD(P) binding site [chemical binding]; other site 435998013511 catalytic residues [active] 435998013512 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 435998013513 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 435998013514 inhibitor-cofactor binding pocket; inhibition site 435998013515 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998013516 catalytic residue [active] 435998013517 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 435998013518 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998013519 DNA-binding site [nucleotide binding]; DNA binding site 435998013520 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 435998013521 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998013522 homodimer interface [polypeptide binding]; other site 435998013523 catalytic residue [active] 435998013524 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 435998013525 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998013526 Walker A/P-loop; other site 435998013527 ATP binding site [chemical binding]; other site 435998013528 Q-loop/lid; other site 435998013529 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435998013530 ABC transporter signature motif; other site 435998013531 Walker B; other site 435998013532 D-loop; other site 435998013533 ABC transporter; Region: ABC_tran_2; pfam12848 435998013534 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435998013535 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 435998013536 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 435998013537 active site 435998013538 FMN binding site [chemical binding]; other site 435998013539 2,4-decadienoyl-CoA binding site; other site 435998013540 catalytic residue [active] 435998013541 4Fe-4S cluster binding site [ion binding]; other site 435998013542 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 435998013543 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 435998013544 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 435998013545 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 435998013546 S-adenosylmethionine binding site [chemical binding]; other site 435998013547 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 435998013548 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 435998013549 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 435998013550 sequence-specific DNA binding site [nucleotide binding]; other site 435998013551 salt bridge; other site 435998013552 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 435998013553 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435998013554 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435998013555 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 435998013556 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 435998013557 catalytic triad [active] 435998013558 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 435998013559 serine/threonine transporter SstT; Provisional; Region: PRK13628 435998013560 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 435998013561 galactarate dehydratase; Region: galactar-dH20; TIGR03248 435998013562 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 435998013563 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 435998013564 Glucuronate isomerase; Region: UxaC; pfam02614 435998013565 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 435998013566 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 435998013567 D-galactonate transporter; Region: 2A0114; TIGR00893 435998013568 putative substrate translocation pore; other site 435998013569 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 435998013570 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998013571 DNA-binding site [nucleotide binding]; DNA binding site 435998013572 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 435998013573 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 435998013574 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 435998013575 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 435998013576 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 435998013577 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 435998013578 Predicted membrane protein [Function unknown]; Region: COG5393 435998013579 YqjK-like protein; Region: YqjK; pfam13997 435998013580 Predicted membrane protein [Function unknown]; Region: COG2259 435998013581 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 435998013582 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 435998013583 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 435998013584 putative dimer interface [polypeptide binding]; other site 435998013585 N-terminal domain interface [polypeptide binding]; other site 435998013586 putative substrate binding pocket (H-site) [chemical binding]; other site 435998013587 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998013588 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 435998013589 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 435998013590 dimerization interface [polypeptide binding]; other site 435998013591 Pirin-related protein [General function prediction only]; Region: COG1741 435998013592 Pirin; Region: Pirin; pfam02678 435998013593 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 435998013594 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 435998013595 putative SAM binding site [chemical binding]; other site 435998013596 putative homodimer interface [polypeptide binding]; other site 435998013597 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 435998013598 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 435998013599 putative ligand binding site [chemical binding]; other site 435998013600 hypothetical protein; Reviewed; Region: PRK12497 435998013601 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 435998013602 dimer interface [polypeptide binding]; other site 435998013603 active site 435998013604 outer membrane lipoprotein; Provisional; Region: PRK11023 435998013605 bacterial OsmY and nodulation domain; Region: BON; smart00749 435998013606 BON domain; Region: BON; pfam04972 435998013607 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 435998013608 Transglycosylase; Region: Transgly; cl17702 435998013609 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 435998013610 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 435998013611 conserved cys residue [active] 435998013612 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 435998013613 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 435998013614 putative active site [active] 435998013615 heme pocket [chemical binding]; other site 435998013616 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 435998013617 dimer interface [polypeptide binding]; other site 435998013618 phosphorylation site [posttranslational modification] 435998013619 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998013620 ATP binding site [chemical binding]; other site 435998013621 Mg2+ binding site [ion binding]; other site 435998013622 G-X-G motif; other site 435998013623 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998013624 active site 435998013625 phosphorylation site [posttranslational modification] 435998013626 intermolecular recognition site; other site 435998013627 dimerization interface [polypeptide binding]; other site 435998013628 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 435998013629 putative binding surface; other site 435998013630 active site 435998013631 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 435998013632 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 435998013633 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 435998013634 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 435998013635 active site 435998013636 dimer interface [polypeptide binding]; other site 435998013637 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 435998013638 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 435998013639 active site 435998013640 FMN binding site [chemical binding]; other site 435998013641 substrate binding site [chemical binding]; other site 435998013642 3Fe-4S cluster binding site [ion binding]; other site 435998013643 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 435998013644 domain interface; other site 435998013645 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 435998013646 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 435998013647 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 435998013648 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 435998013649 stringent starvation protein A; Provisional; Region: sspA; PRK09481 435998013650 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 435998013651 C-terminal domain interface [polypeptide binding]; other site 435998013652 putative GSH binding site (G-site) [chemical binding]; other site 435998013653 dimer interface [polypeptide binding]; other site 435998013654 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 435998013655 dimer interface [polypeptide binding]; other site 435998013656 N-terminal domain interface [polypeptide binding]; other site 435998013657 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 435998013658 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 435998013659 23S rRNA interface [nucleotide binding]; other site 435998013660 L3 interface [polypeptide binding]; other site 435998013661 Predicted ATPase [General function prediction only]; Region: COG1485 435998013662 hypothetical protein; Provisional; Region: PRK11677 435998013663 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 435998013664 serine endoprotease; Provisional; Region: PRK10139 435998013665 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 435998013666 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 435998013667 protein binding site [polypeptide binding]; other site 435998013668 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 435998013669 serine endoprotease; Provisional; Region: PRK10898 435998013670 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 435998013671 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 435998013672 protein binding site [polypeptide binding]; other site 435998013673 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 435998013674 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 435998013675 hinge; other site 435998013676 active site 435998013677 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 435998013678 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 435998013679 anti sigma factor interaction site; other site 435998013680 regulatory phosphorylation site [posttranslational modification]; other site 435998013681 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 435998013682 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 435998013683 mce related protein; Region: MCE; pfam02470 435998013684 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 435998013685 conserved hypothetical integral membrane protein; Region: TIGR00056 435998013686 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 435998013687 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 435998013688 Walker A/P-loop; other site 435998013689 ATP binding site [chemical binding]; other site 435998013690 Q-loop/lid; other site 435998013691 ABC transporter signature motif; other site 435998013692 Walker B; other site 435998013693 D-loop; other site 435998013694 H-loop/switch region; other site 435998013695 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 435998013696 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 435998013697 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 435998013698 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 435998013699 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 435998013700 putative active site [active] 435998013701 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 435998013702 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 435998013703 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 435998013704 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 435998013705 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 435998013706 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 435998013707 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 435998013708 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 435998013709 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 435998013710 Walker A/P-loop; other site 435998013711 ATP binding site [chemical binding]; other site 435998013712 Q-loop/lid; other site 435998013713 ABC transporter signature motif; other site 435998013714 Walker B; other site 435998013715 D-loop; other site 435998013716 H-loop/switch region; other site 435998013717 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 435998013718 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 435998013719 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 435998013720 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 435998013721 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 435998013722 30S subunit binding site; other site 435998013723 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 435998013724 active site 435998013725 phosphorylation site [posttranslational modification] 435998013726 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 435998013727 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 435998013728 dimerization domain swap beta strand [polypeptide binding]; other site 435998013729 regulatory protein interface [polypeptide binding]; other site 435998013730 active site 435998013731 regulatory phosphorylation site [posttranslational modification]; other site 435998013732 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 435998013733 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 435998013734 non-specific DNA binding site [nucleotide binding]; other site 435998013735 salt bridge; other site 435998013736 sequence-specific DNA binding site [nucleotide binding]; other site 435998013737 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 435998013738 HTH domain; Region: HTH_11; pfam08279 435998013739 Mga helix-turn-helix domain; Region: Mga; pfam05043 435998013740 PRD domain; Region: PRD; pfam00874 435998013741 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 435998013742 active site 435998013743 P-loop; other site 435998013744 phosphorylation site [posttranslational modification] 435998013745 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 435998013746 active site 435998013747 phosphorylation site [posttranslational modification] 435998013748 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 435998013749 Protein of unknown function (DUF1341); Region: DUF1341; pfam07071 435998013750 uncharacterized pyridoxal phosphate-dependent enzyme; Region: selA_rel; TIGR01437 435998013751 dihydroorotase; Provisional; Region: PRK09237 435998013752 Metallo-dependent hydrolases, subgroup B is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_B; cd01307 435998013753 active site 435998013754 conserved hypothetical protein EF_0833/AHA_3914; Region: EF_0833; TIGR03579 435998013755 conserved hypothetical protein EF_0832/AHA_3913; Region: EF_0832; TIGR03580 435998013756 Domain of unknown function (DUF4312); Region: DUF4312; pfam14189 435998013757 Glycine-rich SFCGS; Region: Gly_rich_SFCGS; pfam14272 435998013758 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 435998013759 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 435998013760 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 435998013761 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 435998013762 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 435998013763 active site 435998013764 cosubstrate binding site; other site 435998013765 substrate binding site [chemical binding]; other site 435998013766 catalytic site [active] 435998013767 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 435998013768 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 435998013769 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 435998013770 Helix-turn-helix domain; Region: HTH_18; pfam12833 435998013771 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 435998013772 Cytochrome b562; Region: Cytochrom_B562; cl01546 435998013773 peptidase PmbA; Provisional; Region: PRK11040 435998013774 hypothetical protein; Provisional; Region: PRK05255 435998013775 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell; Region: Barstar; cd05142 435998013776 RNAase interaction site [polypeptide binding]; other site 435998013777 Barnase, a member of the family of homologous microbial ribonucleases, catalyses the cleavage of single-stranded RNA via a two-step mechanism thought to be similar to that of pancreatic ribonuclease. The mechanism involves a transesterification to give a...; Region: barnase; cd00933 435998013778 active site 435998013779 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 435998013780 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 435998013781 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 435998013782 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 435998013783 HlyD family secretion protein; Region: HlyD_3; pfam13437 435998013784 efflux system membrane protein; Provisional; Region: PRK11594 435998013785 transcriptional regulator; Provisional; Region: PRK10632 435998013786 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998013787 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 435998013788 putative effector binding pocket; other site 435998013789 dimerization interface [polypeptide binding]; other site 435998013790 Double zinc ribbon; Region: DZR; pfam12773 435998013791 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 435998013792 active site 435998013793 tetramer interface [polypeptide binding]; other site 435998013794 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 435998013795 O-Antigen ligase; Region: Wzy_C; pfam04932 435998013796 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 435998013797 CDP-diacylglycerol pyrophosphatase; Region: CDH; cl00934 435998013798 protease TldD; Provisional; Region: tldD; PRK10735 435998013799 nitrilase; Region: PLN02798 435998013800 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 435998013801 putative active site [active] 435998013802 catalytic triad [active] 435998013803 dimer interface [polypeptide binding]; other site 435998013804 hypothetical protein; Provisional; Region: PRK10899 435998013805 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 435998013806 ribonuclease G; Provisional; Region: PRK11712 435998013807 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 435998013808 homodimer interface [polypeptide binding]; other site 435998013809 oligonucleotide binding site [chemical binding]; other site 435998013810 Maf-like protein; Region: Maf; pfam02545 435998013811 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 435998013812 active site 435998013813 dimer interface [polypeptide binding]; other site 435998013814 rod shape-determining protein MreD; Provisional; Region: PRK11060 435998013815 rod shape-determining protein MreC; Region: mreC; TIGR00219 435998013816 rod shape-determining protein MreC; Region: MreC; pfam04085 435998013817 rod shape-determining protein MreB; Provisional; Region: PRK13927 435998013818 MreB and similar proteins; Region: MreB_like; cd10225 435998013819 nucleotide binding site [chemical binding]; other site 435998013820 Mg binding site [ion binding]; other site 435998013821 putative protofilament interaction site [polypeptide binding]; other site 435998013822 RodZ interaction site [polypeptide binding]; other site 435998013823 regulatory protein CsrD; Provisional; Region: PRK11059 435998013824 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 435998013825 metal binding site [ion binding]; metal-binding site 435998013826 active site 435998013827 I-site; other site 435998013828 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 435998013829 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 435998013830 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 435998013831 NADP binding site [chemical binding]; other site 435998013832 dimer interface [polypeptide binding]; other site 435998013833 TMAO/DMSO reductase; Reviewed; Region: PRK05363 435998013834 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 435998013835 Moco binding site; other site 435998013836 metal coordination site [ion binding]; other site 435998013837 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 435998013838 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 435998013839 Dehydroquinase class II; Region: DHquinase_II; pfam01220 435998013840 active site 435998013841 trimer interface [polypeptide binding]; other site 435998013842 dimer interface [polypeptide binding]; other site 435998013843 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 435998013844 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 435998013845 carboxyltransferase (CT) interaction site; other site 435998013846 biotinylation site [posttranslational modification]; other site 435998013847 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 435998013848 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 435998013849 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 435998013850 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 435998013851 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 435998013852 Malate/lactate dehydrogenases [Energy production and conversion]; Region: Mdh; COG0039 435998013853 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 435998013854 NAD(P) binding site [chemical binding]; other site 435998013855 LDH/MDH dimer interface [polypeptide binding]; other site 435998013856 substrate binding site [chemical binding]; other site 435998013857 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 435998013858 Major Facilitator Superfamily; Region: MFS_1; pfam07690 435998013859 putative substrate translocation pore; other site 435998013860 hypothetical protein; Provisional; Region: PRK10633 435998013861 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 435998013862 Na binding site [ion binding]; other site 435998013863 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 435998013864 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 435998013865 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 435998013866 FMN binding site [chemical binding]; other site 435998013867 active site 435998013868 catalytic residues [active] 435998013869 substrate binding site [chemical binding]; other site 435998013870 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 435998013871 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 435998013872 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 435998013873 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 435998013874 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 435998013875 putative acyl-acceptor binding pocket; other site 435998013876 hypothetical protein; Validated; Region: PRK06186 435998013877 conserved cys residue [active] 435998013878 Condensation domain; Region: Condensation; pfam00668 435998013879 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 435998013880 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 435998013881 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 435998013882 acyl-activating enzyme (AAE) consensus motif; other site 435998013883 AMP binding site [chemical binding]; other site 435998013884 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 435998013885 Thioesterase domain; Region: Thioesterase; pfam00975 435998013886 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 435998013887 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 435998013888 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998013889 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998013890 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 435998013891 putative dimerization interface [polypeptide binding]; other site 435998013892 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 435998013893 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 435998013894 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 435998013895 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_24; cd09012 435998013896 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 435998013897 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 435998013898 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 435998013899 putative C-terminal domain interface [polypeptide binding]; other site 435998013900 putative GSH binding site (G-site) [chemical binding]; other site 435998013901 putative dimer interface [polypeptide binding]; other site 435998013902 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 435998013903 putative N-terminal domain interface [polypeptide binding]; other site 435998013904 putative dimer interface [polypeptide binding]; other site 435998013905 putative substrate binding pocket (H-site) [chemical binding]; other site 435998013906 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 435998013907 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998013908 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998013909 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 435998013910 putative effector binding pocket; other site 435998013911 dimerization interface [polypeptide binding]; other site 435998013912 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 435998013913 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435998013914 NAD(P) binding site [chemical binding]; other site 435998013915 active site 435998013916 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 435998013917 Putative cyclase; Region: Cyclase; pfam04199 435998013918 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 435998013919 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 435998013920 dimer interface [polypeptide binding]; other site 435998013921 ssDNA binding site [nucleotide binding]; other site 435998013922 tetramer (dimer of dimers) interface [polypeptide binding]; other site 435998013923 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 435998013924 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 435998013925 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 435998013926 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 435998013927 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 435998013928 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 435998013929 putative NAD(P) binding site [chemical binding]; other site 435998013930 putative substrate binding site [chemical binding]; other site 435998013931 catalytic Zn binding site [ion binding]; other site 435998013932 structural Zn binding site [ion binding]; other site 435998013933 dimer interface [polypeptide binding]; other site 435998013934 maltose O-acetyltransferase; Provisional; Region: PRK10092 435998013935 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 435998013936 active site 435998013937 substrate binding site [chemical binding]; other site 435998013938 trimer interface [polypeptide binding]; other site 435998013939 CoA binding site [chemical binding]; other site 435998013940 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 435998013941 Uncharacterized conserved protein [Function unknown]; Region: COG0432 435998013942 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 435998013943 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 435998013944 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998013945 homodimer interface [polypeptide binding]; other site 435998013946 catalytic residue [active] 435998013947 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 435998013948 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 435998013949 putative DNA binding site [nucleotide binding]; other site 435998013950 putative Zn2+ binding site [ion binding]; other site 435998013951 AsnC family; Region: AsnC_trans_reg; pfam01037 435998013952 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 435998013953 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 435998013954 substrate binding pocket [chemical binding]; other site 435998013955 membrane-bound complex binding site; other site 435998013956 hinge residues; other site 435998013957 alanine racemase; Reviewed; Region: alr; PRK00053 435998013958 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 435998013959 active site 435998013960 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 435998013961 substrate binding site [chemical binding]; other site 435998013962 catalytic residues [active] 435998013963 dimer interface [polypeptide binding]; other site 435998013964 replicative DNA helicase; Provisional; Region: PRK08006 435998013965 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 435998013966 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 435998013967 Walker A motif; other site 435998013968 ATP binding site [chemical binding]; other site 435998013969 Walker B motif; other site 435998013970 DNA binding loops [nucleotide binding] 435998013971 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 435998013972 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 435998013973 NADP binding site [chemical binding]; other site 435998013974 dimer interface [polypeptide binding]; other site 435998013975 phage shock protein G; Reviewed; Region: pspG; PRK09459 435998013976 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 435998013977 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 435998013978 FMN binding site [chemical binding]; other site 435998013979 active site 435998013980 catalytic residues [active] 435998013981 substrate binding site [chemical binding]; other site 435998013982 Pectate lyase; Region: Pectate_lyase; pfam03211 435998013983 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 435998013984 binding surface 435998013985 TPR motif; other site 435998013986 Tetratricopeptide repeat; Region: TPR_16; pfam13432 435998013987 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 435998013988 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 435998013989 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 435998013990 DNA binding residues [nucleotide binding] 435998013991 maltose O-acetyltransferase; Provisional; Region: PRK10092 435998013992 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 435998013993 active site 435998013994 substrate binding site [chemical binding]; other site 435998013995 trimer interface [polypeptide binding]; other site 435998013996 CoA binding site [chemical binding]; other site 435998013997 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 435998013998 metal binding site 2 [ion binding]; metal-binding site 435998013999 putative DNA binding helix; other site 435998014000 metal binding site 1 [ion binding]; metal-binding site 435998014001 dimer interface [polypeptide binding]; other site 435998014002 structural Zn2+ binding site [ion binding]; other site 435998014003 hypothetical protein; Provisional; Region: PRK10428 435998014004 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 435998014005 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 435998014006 LexA repressor; Validated; Region: PRK00215 435998014007 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 435998014008 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 435998014009 Catalytic site [active] 435998014010 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 435998014011 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 435998014012 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 435998014013 putative acyl-acceptor binding pocket; other site 435998014014 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 435998014015 UbiA prenyltransferase family; Region: UbiA; pfam01040 435998014016 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 435998014017 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 435998014018 metabolite-proton symporter; Region: 2A0106; TIGR00883 435998014019 putative substrate translocation pore; other site 435998014020 Transcriptional regulators [Transcription]; Region: PurR; COG1609 435998014021 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998014022 DNA binding site [nucleotide binding] 435998014023 domain linker motif; other site 435998014024 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 435998014025 dimerization interface [polypeptide binding]; other site 435998014026 ligand binding site [chemical binding]; other site 435998014027 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cd00455 435998014028 active site 435998014029 maltose regulon periplasmic protein; Provisional; Region: PRK10564 435998014030 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 435998014031 trimer interface; other site 435998014032 sugar binding site [chemical binding]; other site 435998014033 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 435998014034 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 435998014035 Walker A/P-loop; other site 435998014036 ATP binding site [chemical binding]; other site 435998014037 Q-loop/lid; other site 435998014038 ABC transporter signature motif; other site 435998014039 Walker B; other site 435998014040 D-loop; other site 435998014041 H-loop/switch region; other site 435998014042 TOBE domain; Region: TOBE_2; pfam08402 435998014043 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 435998014044 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 435998014045 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 435998014046 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 435998014047 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 435998014048 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 435998014049 dimer interface [polypeptide binding]; other site 435998014050 conserved gate region; other site 435998014051 putative PBP binding loops; other site 435998014052 ABC-ATPase subunit interface; other site 435998014053 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 435998014054 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 435998014055 dimer interface [polypeptide binding]; other site 435998014056 conserved gate region; other site 435998014057 putative PBP binding loops; other site 435998014058 ABC-ATPase subunit interface; other site 435998014059 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 435998014060 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 435998014061 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 435998014062 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 435998014063 active site 435998014064 dimer interface [polypeptide binding]; other site 435998014065 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 435998014066 dimer interface [polypeptide binding]; other site 435998014067 active site 435998014068 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 435998014069 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 435998014070 TrkA-N domain; Region: TrkA_N; pfam02254 435998014071 aspartate kinase III; Validated; Region: PRK09084 435998014072 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 435998014073 nucleotide binding site [chemical binding]; other site 435998014074 substrate binding site [chemical binding]; other site 435998014075 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 435998014076 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 435998014077 dimer interface [polypeptide binding]; other site 435998014078 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 435998014079 Sodium Bile acid symporter family; Region: SBF; pfam01758 435998014080 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 435998014081 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 435998014082 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 435998014083 haemagglutination activity domain; Region: Haemagg_act; pfam05860 435998014084 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 435998014085 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 435998014086 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 435998014087 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 435998014088 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 435998014089 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 435998014090 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 435998014091 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 435998014092 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 435998014093 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998014094 Walker A/P-loop; other site 435998014095 ATP binding site [chemical binding]; other site 435998014096 Q-loop/lid; other site 435998014097 ABC transporter signature motif; other site 435998014098 Walker B; other site 435998014099 D-loop; other site 435998014100 H-loop/switch region; other site 435998014101 TOBE domain; Region: TOBE_2; pfam08402 435998014102 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 435998014103 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 435998014104 dimer interface [polypeptide binding]; other site 435998014105 conserved gate region; other site 435998014106 putative PBP binding loops; other site 435998014107 ABC-ATPase subunit interface; other site 435998014108 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 435998014109 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 435998014110 putative PBP binding loops; other site 435998014111 ABC-ATPase subunit interface; other site 435998014112 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 435998014113 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 435998014114 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 435998014115 transcriptional regulator protein; Region: phnR; TIGR03337 435998014116 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998014117 DNA-binding site [nucleotide binding]; DNA binding site 435998014118 UTRA domain; Region: UTRA; pfam07702 435998014119 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 435998014120 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 435998014121 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 435998014122 substrate binding pocket [chemical binding]; other site 435998014123 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 435998014124 B12 binding site [chemical binding]; other site 435998014125 cobalt ligand [ion binding]; other site 435998014126 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 435998014127 transcriptional repressor IclR; Provisional; Region: PRK11569 435998014128 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 435998014129 Bacterial transcriptional regulator; Region: IclR; pfam01614 435998014130 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 435998014131 low affinity gluconate transporter; Provisional; Region: PRK10472 435998014132 GntP family permease; Region: GntP_permease; pfam02447 435998014133 phosphogluconate dehydratase; Validated; Region: PRK09054 435998014134 6-phosphogluconate dehydratase; Region: edd; TIGR01196 435998014135 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 435998014136 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 435998014137 active site 435998014138 intersubunit interface [polypeptide binding]; other site 435998014139 catalytic residue [active] 435998014140 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 435998014141 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 435998014142 isocitrate lyase; Provisional; Region: PRK15063 435998014143 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 435998014144 tetramer interface [polypeptide binding]; other site 435998014145 active site 435998014146 Mg2+/Mn2+ binding site [ion binding]; other site 435998014147 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 435998014148 malate synthase A; Region: malate_syn_A; TIGR01344 435998014149 active site 435998014150 homoserine O-succinyltransferase; Provisional; Region: PRK05368 435998014151 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 435998014152 proposed active site lysine [active] 435998014153 conserved cys residue [active] 435998014154 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 435998014155 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 435998014156 trimer interface [polypeptide binding]; other site 435998014157 putative metal binding site [ion binding]; other site 435998014158 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 435998014159 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 435998014160 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 435998014161 shikimate binding site; other site 435998014162 NAD(P) binding site [chemical binding]; other site 435998014163 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 435998014164 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 435998014165 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 435998014166 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 435998014167 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 435998014168 hypothetical protein; Validated; Region: PRK03430 435998014169 hypothetical protein; Provisional; Region: PRK10736 435998014170 DNA protecting protein DprA; Region: dprA; TIGR00732 435998014171 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 435998014172 active site 435998014173 catalytic residues [active] 435998014174 metal binding site [ion binding]; metal-binding site 435998014175 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 435998014176 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 435998014177 putative active site [active] 435998014178 substrate binding site [chemical binding]; other site 435998014179 putative cosubstrate binding site; other site 435998014180 catalytic site [active] 435998014181 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 435998014182 substrate binding site [chemical binding]; other site 435998014183 16S rRNA methyltransferase B; Provisional; Region: PRK10901 435998014184 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 435998014185 putative RNA binding site [nucleotide binding]; other site 435998014186 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 435998014187 S-adenosylmethionine binding site [chemical binding]; other site 435998014188 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 435998014189 TrkA-N domain; Region: TrkA_N; pfam02254 435998014190 TrkA-C domain; Region: TrkA_C; pfam02080 435998014191 TrkA-N domain; Region: TrkA_N; pfam02254 435998014192 TrkA-C domain; Region: TrkA_C; pfam02080 435998014193 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 435998014194 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 435998014195 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 435998014196 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 435998014197 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 435998014198 DNA binding residues [nucleotide binding] 435998014199 dimer interface [polypeptide binding]; other site 435998014200 metal binding site [ion binding]; metal-binding site 435998014201 hypothetical protein; Provisional; Region: PRK10203 435998014202 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 435998014203 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 435998014204 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 435998014205 alphaNTD homodimer interface [polypeptide binding]; other site 435998014206 alphaNTD - beta interaction site [polypeptide binding]; other site 435998014207 alphaNTD - beta' interaction site [polypeptide binding]; other site 435998014208 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 435998014209 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 435998014210 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 435998014211 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 435998014212 RNA binding surface [nucleotide binding]; other site 435998014213 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 435998014214 30S ribosomal protein S13; Region: bact_S13; TIGR03631 435998014215 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 435998014216 SecY translocase; Region: SecY; pfam00344 435998014217 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 435998014218 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 435998014219 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 435998014220 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 435998014221 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 435998014222 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 435998014223 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 435998014224 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 435998014225 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 435998014226 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 435998014227 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 435998014228 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 435998014229 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 435998014230 RNA binding site [nucleotide binding]; other site 435998014231 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 435998014232 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 435998014233 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 435998014234 23S rRNA interface [nucleotide binding]; other site 435998014235 putative translocon interaction site; other site 435998014236 signal recognition particle (SRP54) interaction site; other site 435998014237 L23 interface [polypeptide binding]; other site 435998014238 trigger factor interaction site; other site 435998014239 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 435998014240 23S rRNA interface [nucleotide binding]; other site 435998014241 5S rRNA interface [nucleotide binding]; other site 435998014242 putative antibiotic binding site [chemical binding]; other site 435998014243 L25 interface [polypeptide binding]; other site 435998014244 L27 interface [polypeptide binding]; other site 435998014245 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 435998014246 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 435998014247 G-X-X-G motif; other site 435998014248 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 435998014249 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 435998014250 protein-rRNA interface [nucleotide binding]; other site 435998014251 putative translocon binding site; other site 435998014252 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 435998014253 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 435998014254 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 435998014255 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 435998014256 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 435998014257 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 435998014258 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 435998014259 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 435998014260 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 435998014261 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 435998014262 heme binding site [chemical binding]; other site 435998014263 ferroxidase pore; other site 435998014264 ferroxidase diiron center [ion binding]; other site 435998014265 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 435998014266 elongation factor Tu; Reviewed; Region: PRK00049 435998014267 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 435998014268 G1 box; other site 435998014269 GEF interaction site [polypeptide binding]; other site 435998014270 GTP/Mg2+ binding site [chemical binding]; other site 435998014271 Switch I region; other site 435998014272 G2 box; other site 435998014273 G3 box; other site 435998014274 Switch II region; other site 435998014275 G4 box; other site 435998014276 G5 box; other site 435998014277 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 435998014278 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 435998014279 Antibiotic Binding Site [chemical binding]; other site 435998014280 elongation factor G; Reviewed; Region: PRK00007 435998014281 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 435998014282 G1 box; other site 435998014283 putative GEF interaction site [polypeptide binding]; other site 435998014284 GTP/Mg2+ binding site [chemical binding]; other site 435998014285 Switch I region; other site 435998014286 G2 box; other site 435998014287 G3 box; other site 435998014288 Switch II region; other site 435998014289 G4 box; other site 435998014290 G5 box; other site 435998014291 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 435998014292 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 435998014293 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 435998014294 30S ribosomal protein S7; Validated; Region: PRK05302 435998014295 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 435998014296 S17 interaction site [polypeptide binding]; other site 435998014297 S8 interaction site; other site 435998014298 16S rRNA interaction site [nucleotide binding]; other site 435998014299 streptomycin interaction site [chemical binding]; other site 435998014300 23S rRNA interaction site [nucleotide binding]; other site 435998014301 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 435998014302 DsrH like protein; Region: DsrH; cl17347 435998014303 sulfur relay protein TusC; Validated; Region: PRK00211 435998014304 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 435998014305 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 435998014306 YheO-like PAS domain; Region: PAS_6; pfam08348 435998014307 HTH domain; Region: HTH_22; pfam13309 435998014308 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 435998014309 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 435998014310 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 435998014311 phi X174 lysis protein; Provisional; Region: PRK02793 435998014312 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 435998014313 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 435998014314 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998014315 homodimer interface [polypeptide binding]; other site 435998014316 catalytic residue [active] 435998014317 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 435998014318 Transcriptional regulators [Transcription]; Region: PurR; COG1609 435998014319 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998014320 DNA binding site [nucleotide binding] 435998014321 domain linker motif; other site 435998014322 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 435998014323 dimerization interface (closed form) [polypeptide binding]; other site 435998014324 ligand binding site [chemical binding]; other site 435998014325 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 435998014326 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 435998014327 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 435998014328 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 435998014329 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 435998014330 TrkA-N domain; Region: TrkA_N; pfam02254 435998014331 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 435998014332 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 435998014333 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 435998014334 Walker A/P-loop; other site 435998014335 ATP binding site [chemical binding]; other site 435998014336 Q-loop/lid; other site 435998014337 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435998014338 ABC transporter signature motif; other site 435998014339 Walker B; other site 435998014340 D-loop; other site 435998014341 ABC transporter; Region: ABC_tran_2; pfam12848 435998014342 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 435998014343 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 435998014344 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 435998014345 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 435998014346 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 435998014347 dimer interface [polypeptide binding]; other site 435998014348 conserved gate region; other site 435998014349 putative PBP binding loops; other site 435998014350 ABC-ATPase subunit interface; other site 435998014351 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 435998014352 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 435998014353 Walker A/P-loop; other site 435998014354 ATP binding site [chemical binding]; other site 435998014355 Q-loop/lid; other site 435998014356 ABC transporter signature motif; other site 435998014357 Walker B; other site 435998014358 D-loop; other site 435998014359 H-loop/switch region; other site 435998014360 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 435998014361 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 435998014362 substrate binding pocket [chemical binding]; other site 435998014363 membrane-bound complex binding site; other site 435998014364 hinge residues; other site 435998014365 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 435998014366 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 435998014367 putative hydrolase; Provisional; Region: PRK10985 435998014368 hypothetical protein; Provisional; Region: PRK04966 435998014369 phosphoribulokinase; Provisional; Region: PRK15453 435998014370 hypothetical protein; Provisional; Region: PRK10738 435998014371 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 435998014372 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 435998014373 ligand binding site [chemical binding]; other site 435998014374 flexible hinge region; other site 435998014375 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 435998014376 putative switch regulator; other site 435998014377 non-specific DNA interactions [nucleotide binding]; other site 435998014378 DNA binding site [nucleotide binding] 435998014379 sequence specific DNA binding site [nucleotide binding]; other site 435998014380 putative cAMP binding site [chemical binding]; other site 435998014381 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 435998014382 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 435998014383 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 435998014384 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 435998014385 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 435998014386 inhibitor-cofactor binding pocket; inhibition site 435998014387 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998014388 catalytic residue [active] 435998014389 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 435998014390 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 435998014391 glutamine binding [chemical binding]; other site 435998014392 catalytic triad [active] 435998014393 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 435998014394 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 435998014395 Walker A motif; other site 435998014396 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 435998014397 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 435998014398 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998014399 active site 435998014400 phosphorylation site [posttranslational modification] 435998014401 intermolecular recognition site; other site 435998014402 dimerization interface [polypeptide binding]; other site 435998014403 LytTr DNA-binding domain; Region: LytTR; pfam04397 435998014404 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 435998014405 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 435998014406 Histidine kinase; Region: His_kinase; pfam06580 435998014407 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998014408 ATP binding site [chemical binding]; other site 435998014409 Mg2+ binding site [ion binding]; other site 435998014410 G-X-G motif; other site 435998014411 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 435998014412 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 435998014413 active site 435998014414 PTS system, Lactose/Cellobiose specific IIA subunit; Region: PTS_IIA; pfam02255 435998014415 active site 435998014416 methionine cluster; other site 435998014417 phosphorylation site [posttranslational modification] 435998014418 metal binding site [ion binding]; metal-binding site 435998014419 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 435998014420 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 435998014421 NAD binding site [chemical binding]; other site 435998014422 sugar binding site [chemical binding]; other site 435998014423 divalent metal binding site [ion binding]; other site 435998014424 tetramer (dimer of dimers) interface [polypeptide binding]; other site 435998014425 dimer interface [polypeptide binding]; other site 435998014426 Transcriptional regulators [Transcription]; Region: PurR; COG1609 435998014427 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998014428 DNA binding site [nucleotide binding] 435998014429 domain linker motif; other site 435998014430 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 435998014431 dimerization interface (closed form) [polypeptide binding]; other site 435998014432 ligand binding site [chemical binding]; other site 435998014433 putative transporter; Provisional; Region: PRK03699 435998014434 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 435998014435 putative substrate translocation pore; other site 435998014436 cytosine deaminase; Provisional; Region: PRK09230 435998014437 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 435998014438 active site 435998014439 nitrite reductase subunit NirD; Provisional; Region: PRK14989 435998014440 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 435998014441 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 435998014442 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 435998014443 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 435998014444 siroheme synthase; Provisional; Region: cysG; PRK10637 435998014445 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 435998014446 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 435998014447 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 435998014448 active site 435998014449 SAM binding site [chemical binding]; other site 435998014450 homodimer interface [polypeptide binding]; other site 435998014451 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 435998014452 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 435998014453 active site 435998014454 HIGH motif; other site 435998014455 dimer interface [polypeptide binding]; other site 435998014456 KMSKS motif; other site 435998014457 phosphoglycolate phosphatase; Provisional; Region: PRK13222 435998014458 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 435998014459 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 435998014460 motif II; other site 435998014461 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 435998014462 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 435998014463 substrate binding site [chemical binding]; other site 435998014464 hexamer interface [polypeptide binding]; other site 435998014465 metal binding site [ion binding]; metal-binding site 435998014466 DNA adenine methylase; Provisional; Region: PRK10904 435998014467 hypothetical protein; Reviewed; Region: PRK11901 435998014468 cell division protein DamX; Validated; Region: PRK10905 435998014469 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 435998014470 active site 435998014471 dimer interface [polypeptide binding]; other site 435998014472 metal binding site [ion binding]; metal-binding site 435998014473 shikimate kinase; Reviewed; Region: aroK; PRK00131 435998014474 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 435998014475 ADP binding site [chemical binding]; other site 435998014476 magnesium binding site [ion binding]; other site 435998014477 putative shikimate binding site; other site 435998014478 putative outer membrane porin HofQ; Provisional; Region: hofQ; PRK13568 435998014479 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 435998014480 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 435998014481 Protein of unknown function (DUF2531); Region: DUF2531; pfam10748 435998014482 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 435998014483 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 435998014484 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 435998014485 Transglycosylase; Region: Transgly; pfam00912 435998014486 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 435998014487 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 435998014488 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 435998014489 ADP-ribose binding site [chemical binding]; other site 435998014490 dimer interface [polypeptide binding]; other site 435998014491 active site 435998014492 nudix motif; other site 435998014493 metal binding site [ion binding]; metal-binding site 435998014494 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 435998014495 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 435998014496 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 435998014497 motif II; other site 435998014498 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 435998014499 RNA binding surface [nucleotide binding]; other site 435998014500 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 435998014501 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 435998014502 dimerization interface [polypeptide binding]; other site 435998014503 domain crossover interface; other site 435998014504 redox-dependent activation switch; other site 435998014505 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 435998014506 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 435998014507 active site 435998014508 substrate-binding site [chemical binding]; other site 435998014509 metal-binding site [ion binding] 435998014510 ATP binding site [chemical binding]; other site 435998014511 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 435998014512 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 435998014513 oligomeric interface; other site 435998014514 putative active site [active] 435998014515 homodimer interface [polypeptide binding]; other site 435998014516 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 435998014517 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 435998014518 dimerization interface [polypeptide binding]; other site 435998014519 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 435998014520 dimer interface [polypeptide binding]; other site 435998014521 phosphorylation site [posttranslational modification] 435998014522 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998014523 ATP binding site [chemical binding]; other site 435998014524 G-X-G motif; other site 435998014525 osmolarity response regulator; Provisional; Region: ompR; PRK09468 435998014526 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998014527 active site 435998014528 phosphorylation site [posttranslational modification] 435998014529 intermolecular recognition site; other site 435998014530 dimerization interface [polypeptide binding]; other site 435998014531 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 435998014532 DNA binding site [nucleotide binding] 435998014533 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 435998014534 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 435998014535 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 435998014536 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 435998014537 HSP70 interaction site [polypeptide binding]; other site 435998014538 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 435998014539 substrate binding site [polypeptide binding]; other site 435998014540 dimer interface [polypeptide binding]; other site 435998014541 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 435998014542 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 435998014543 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 435998014544 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 435998014545 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 435998014546 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 435998014547 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 435998014548 RNA binding site [nucleotide binding]; other site 435998014549 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 435998014550 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 435998014551 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 435998014552 G1 box; other site 435998014553 GTP/Mg2+ binding site [chemical binding]; other site 435998014554 Switch I region; other site 435998014555 G2 box; other site 435998014556 G3 box; other site 435998014557 Switch II region; other site 435998014558 G4 box; other site 435998014559 G5 box; other site 435998014560 Nucleoside recognition; Region: Gate; pfam07670 435998014561 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 435998014562 Nucleoside recognition; Region: Gate; pfam07670 435998014563 FeoC like transcriptional regulator; Region: FeoC; cl17677 435998014564 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 435998014565 carboxylesterase BioH; Provisional; Region: PRK10349 435998014566 DNA utilization protein GntX; Provisional; Region: PRK11595 435998014567 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 435998014568 active site 435998014569 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 435998014570 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 435998014571 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 435998014572 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 435998014573 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 435998014574 maltodextrin phosphorylase; Provisional; Region: PRK14985 435998014575 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 435998014576 active site pocket [active] 435998014577 transcriptional regulator MalT; Provisional; Region: PRK04841 435998014578 AAA ATPase domain; Region: AAA_16; pfam13191 435998014579 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 435998014580 DNA binding residues [nucleotide binding] 435998014581 dimerization interface [polypeptide binding]; other site 435998014582 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 435998014583 active site residue [active] 435998014584 intramembrane serine protease GlpG; Provisional; Region: PRK10907 435998014585 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 435998014586 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 435998014587 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 435998014588 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 435998014589 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 435998014590 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 435998014591 glycogen phosphorylase; Provisional; Region: PRK14986 435998014592 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 435998014593 homodimer interface [polypeptide binding]; other site 435998014594 active site pocket [active] 435998014595 glycogen synthase; Provisional; Region: glgA; PRK00654 435998014596 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 435998014597 ADP-binding pocket [chemical binding]; other site 435998014598 homodimer interface [polypeptide binding]; other site 435998014599 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 435998014600 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 435998014601 ligand binding site; other site 435998014602 oligomer interface; other site 435998014603 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 435998014604 sulfate 1 binding site; other site 435998014605 glycogen debranching enzyme; Provisional; Region: PRK03705 435998014606 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 435998014607 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 435998014608 active site 435998014609 catalytic site [active] 435998014610 glycogen branching enzyme; Provisional; Region: PRK05402 435998014611 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 435998014612 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 435998014613 active site 435998014614 catalytic site [active] 435998014615 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 435998014616 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 435998014617 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 435998014618 putative antibiotic transporter; Provisional; Region: PRK10739 435998014619 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 435998014620 high-affinity gluconate transporter; Provisional; Region: PRK14984 435998014621 gluconate transporter; Region: gntP; TIGR00791 435998014622 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 435998014623 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998014624 DNA binding site [nucleotide binding] 435998014625 domain linker motif; other site 435998014626 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 435998014627 putative ligand binding site [chemical binding]; other site 435998014628 putative dimerization interface [polypeptide binding]; other site 435998014629 Pirin-related protein [General function prediction only]; Region: COG1741 435998014630 Pirin; Region: Pirin; pfam02678 435998014631 putative acetyltransferase YhhY; Provisional; Region: PRK10140 435998014632 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998014633 Coenzyme A binding pocket [chemical binding]; other site 435998014634 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 435998014635 putative active site pocket [active] 435998014636 cleavage site 435998014637 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 435998014638 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 435998014639 Metal-binding active site; metal-binding site 435998014640 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 435998014641 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 435998014642 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 435998014643 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 435998014644 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 435998014645 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 435998014646 PYR/PP interface [polypeptide binding]; other site 435998014647 dimer interface [polypeptide binding]; other site 435998014648 TPP binding site [chemical binding]; other site 435998014649 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 435998014650 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 435998014651 TPP-binding site; other site 435998014652 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 435998014653 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 435998014654 substrate binding site [chemical binding]; other site 435998014655 ATP binding site [chemical binding]; other site 435998014656 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 435998014657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 435998014658 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 435998014659 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 435998014660 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 435998014661 putative active site [active] 435998014662 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 435998014663 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 435998014664 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 435998014665 tetrameric interface [polypeptide binding]; other site 435998014666 NAD binding site [chemical binding]; other site 435998014667 catalytic residues [active] 435998014668 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 435998014669 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 435998014670 putative substrate translocation pore; other site 435998014671 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 435998014672 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 435998014673 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 435998014674 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 435998014675 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 435998014676 Walker A/P-loop; other site 435998014677 ATP binding site [chemical binding]; other site 435998014678 Q-loop/lid; other site 435998014679 ABC transporter signature motif; other site 435998014680 Walker B; other site 435998014681 D-loop; other site 435998014682 H-loop/switch region; other site 435998014683 FaeA-like protein; Region: FaeA; pfam04703 435998014684 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 435998014685 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 435998014686 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 435998014687 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998014688 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998014689 putative fimbrial outer membrane usher protein StfC; Provisional; Region: PRK15284 435998014690 PapC N-terminal domain; Region: PapC_N; pfam13954 435998014691 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 435998014692 PapC C-terminal domain; Region: PapC_C; pfam13953 435998014693 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 435998014694 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 435998014695 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 435998014696 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998014697 Fimbrial protein; Region: Fimbrial; cl01416 435998014698 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 435998014699 fimbriae regulatory protein FimW; Provisional; Region: PRK15201 435998014700 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 435998014701 DNA binding residues [nucleotide binding] 435998014702 dimerization interface [polypeptide binding]; other site 435998014703 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 435998014704 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998014705 DNA-binding site [nucleotide binding]; DNA binding site 435998014706 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 435998014707 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998014708 homodimer interface [polypeptide binding]; other site 435998014709 catalytic residue [active] 435998014710 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 435998014711 Virulence factor SrfB; Region: SrfB; pfam07520 435998014712 Uncharacterized protein conserved in bacteria, putative virulence factor [Function unknown]; Region: SrfC; COG4458 435998014713 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 435998014714 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998014715 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 435998014716 dimerization interface [polypeptide binding]; other site 435998014717 substrate binding pocket [chemical binding]; other site 435998014718 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 435998014719 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 435998014720 active site 435998014721 catalytic tetrad [active] 435998014722 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 435998014723 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435998014724 NAD(P) binding site [chemical binding]; other site 435998014725 active site 435998014726 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 435998014727 putative hydrophobic ligand binding site [chemical binding]; other site 435998014728 protein interface [polypeptide binding]; other site 435998014729 gate; other site 435998014730 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 435998014731 dimer interface [polypeptide binding]; other site 435998014732 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 435998014733 metal binding site [ion binding]; metal-binding site 435998014734 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 435998014735 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 435998014736 ligand binding site [chemical binding]; other site 435998014737 nuc_hydro_CeIAG: Nucleoside hydrolases similar to the inosine-adenosine-guanosine-preferring nucleoside hydrolase from Caenorhabditis elegans. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base; Region: nuc_hydro_CeIAG; cd02649 435998014738 active site 435998014739 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 435998014740 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 435998014741 active site 435998014742 Predicted flavoproteins [General function prediction only]; Region: COG2081 435998014743 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 435998014744 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 435998014745 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 435998014746 universal stress protein UspB; Provisional; Region: PRK04960 435998014747 short chain dehydrogenase; Provisional; Region: PRK12744 435998014748 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 435998014749 NAD(P) binding site [chemical binding]; other site 435998014750 active site 435998014751 Transcriptional regulator [Transcription]; Region: LysR; COG0583 435998014752 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998014753 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 435998014754 putative effector binding pocket; other site 435998014755 putative dimerization interface [polypeptide binding]; other site 435998014756 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 435998014757 Ligand Binding Site [chemical binding]; other site 435998014758 glutamate dehydrogenase; Provisional; Region: PRK09414 435998014759 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 435998014760 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 435998014761 NAD(P) binding site [chemical binding]; other site 435998014762 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 435998014763 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 435998014764 ligand binding site [chemical binding]; other site 435998014765 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 435998014766 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 435998014767 Walker A/P-loop; other site 435998014768 ATP binding site [chemical binding]; other site 435998014769 Q-loop/lid; other site 435998014770 ABC transporter signature motif; other site 435998014771 Walker B; other site 435998014772 D-loop; other site 435998014773 H-loop/switch region; other site 435998014774 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 435998014775 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 435998014776 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 435998014777 TM-ABC transporter signature motif; other site 435998014778 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 435998014779 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 435998014780 TM-ABC transporter signature motif; other site 435998014781 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 435998014782 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 435998014783 N- and C-terminal domain interface [polypeptide binding]; other site 435998014784 active site 435998014785 MgATP binding site [chemical binding]; other site 435998014786 catalytic site [active] 435998014787 metal binding site [ion binding]; metal-binding site 435998014788 carbohydrate binding site [chemical binding]; other site 435998014789 putative homodimer interface [polypeptide binding]; other site 435998014790 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 435998014791 putative active site [active] 435998014792 putative methyltransferase; Provisional; Region: PRK10742 435998014793 oligopeptidase A; Provisional; Region: PRK10911 435998014794 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 435998014795 active site 435998014796 Zn binding site [ion binding]; other site 435998014797 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 435998014798 nucleotide binding site/active site [active] 435998014799 HIT family signature motif; other site 435998014800 catalytic residue [active] 435998014801 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 435998014802 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 435998014803 glutathione reductase; Validated; Region: PRK06116 435998014804 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 435998014805 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 435998014806 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 435998014807 DinB family; Region: DinB; cl17821 435998014808 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 435998014809 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 435998014810 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 435998014811 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998014812 DNA-binding site [nucleotide binding]; DNA binding site 435998014813 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 435998014814 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998014815 homodimer interface [polypeptide binding]; other site 435998014816 catalytic residue [active] 435998014817 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 435998014818 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 435998014819 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 435998014820 dimer interface [polypeptide binding]; other site 435998014821 phosphorylation site [posttranslational modification] 435998014822 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998014823 ATP binding site [chemical binding]; other site 435998014824 Mg2+ binding site [ion binding]; other site 435998014825 G-X-G motif; other site 435998014826 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998014827 Response regulator receiver domain; Region: Response_reg; pfam00072 435998014828 active site 435998014829 phosphorylation site [posttranslational modification] 435998014830 intermolecular recognition site; other site 435998014831 dimerization interface [polypeptide binding]; other site 435998014832 BetR domain; Region: BetR; pfam08667 435998014833 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 435998014834 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 435998014835 active site 435998014836 phosphorylation site [posttranslational modification] 435998014837 intermolecular recognition site; other site 435998014838 dimerization interface [polypeptide binding]; other site 435998014839 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 435998014840 catalytic triad [active] 435998014841 putative active site [active] 435998014842 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 435998014843 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 435998014844 Autotransporter beta-domain; Region: Autotransporter; pfam03797 435998014845 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 435998014846 catalytic triad [active] 435998014847 putative active site [active] 435998014848 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 435998014849 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 435998014850 Autotransporter beta-domain; Region: Autotransporter; pfam03797 435998014851 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 435998014852 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 435998014853 hypothetical protein; Provisional; Region: PRK02399 435998014854 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 435998014855 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 435998014856 dimer interface [polypeptide binding]; other site 435998014857 RNase II stability modulator; Provisional; Region: PRK10060 435998014858 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 435998014859 putative active site [active] 435998014860 heme pocket [chemical binding]; other site 435998014861 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 435998014862 metal binding site [ion binding]; metal-binding site 435998014863 active site 435998014864 I-site; other site 435998014865 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 435998014866 enoyl-CoA hydratase; Validated; Region: PRK08788 435998014867 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 435998014868 substrate binding site [chemical binding]; other site 435998014869 oxyanion hole (OAH) forming residues; other site 435998014870 trimer interface [polypeptide binding]; other site 435998014871 inner membrane protein YhjD; Region: TIGR00766 435998014872 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 435998014873 metabolite-proton symporter; Region: 2A0106; TIGR00883 435998014874 putative substrate translocation pore; other site 435998014875 CDP-diacylglycerol pyrophosphatase; Provisional; Region: PRK05471 435998014876 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 435998014877 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 435998014878 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 435998014879 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 435998014880 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 435998014881 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 435998014882 substrate binding site [chemical binding]; other site 435998014883 ATP binding site [chemical binding]; other site 435998014884 Autoinducer binding domain; Region: Autoind_bind; pfam03472 435998014885 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 435998014886 DNA binding residues [nucleotide binding] 435998014887 dimerization interface [polypeptide binding]; other site 435998014888 ketol-acid reductoisomerase; Validated; Region: PRK05225 435998014889 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 435998014890 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 435998014891 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 435998014892 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998014893 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 435998014894 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 435998014895 putative dimerization interface [polypeptide binding]; other site 435998014896 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 435998014897 threonine dehydratase; Reviewed; Region: PRK09224 435998014898 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 435998014899 tetramer interface [polypeptide binding]; other site 435998014900 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998014901 catalytic residue [active] 435998014902 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 435998014903 putative Ile/Val binding site [chemical binding]; other site 435998014904 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 435998014905 putative Ile/Val binding site [chemical binding]; other site 435998014906 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 435998014907 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 435998014908 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 435998014909 homodimer interface [polypeptide binding]; other site 435998014910 substrate-cofactor binding pocket; other site 435998014911 catalytic residue [active] 435998014912 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 435998014913 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 435998014914 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 435998014915 PYR/PP interface [polypeptide binding]; other site 435998014916 dimer interface [polypeptide binding]; other site 435998014917 TPP binding site [chemical binding]; other site 435998014918 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 435998014919 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 435998014920 TPP-binding site [chemical binding]; other site 435998014921 dimer interface [polypeptide binding]; other site 435998014922 putative sialic acid transporter; Region: 2A0112; TIGR00891 435998014923 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 435998014924 putative substrate translocation pore; other site 435998014925 putative ATP-dependent protease; Provisional; Region: PRK09862 435998014926 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 435998014927 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998014928 Walker A motif; other site 435998014929 ATP binding site [chemical binding]; other site 435998014930 Walker B motif; other site 435998014931 arginine finger; other site 435998014932 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 435998014933 hypothetical protein; Provisional; Region: PRK11027 435998014934 transcriptional regulator HdfR; Provisional; Region: PRK03601 435998014935 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998014936 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 435998014937 dimerization interface [polypeptide binding]; other site 435998014938 glutamate racemase; Provisional; Region: PRK00865 435998014939 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 435998014940 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 435998014941 N-terminal plug; other site 435998014942 ligand-binding site [chemical binding]; other site 435998014943 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 435998014944 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 435998014945 S-adenosylmethionine binding site [chemical binding]; other site 435998014946 hypothetical protein; Provisional; Region: PRK11056 435998014947 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 435998014948 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 435998014949 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 435998014950 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 435998014951 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 435998014952 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 435998014953 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 435998014954 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 435998014955 dimerization interface [polypeptide binding]; other site 435998014956 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 435998014957 catalytic triad [active] 435998014958 dimer interface [polypeptide binding]; other site 435998014959 Glutaredoxin (GRX) family, PRX5 hybrid subfamily; composed of hybrid proteins containing peroxiredoxin (PRX) and GRX domains, which is found in some pathogenic bacteria and cyanobacteria. PRXs are thiol-specific antioxidant (TSA) proteins that confer a...; Region: GRX_hybridPRX5; cd03029 435998014960 GSH binding site [chemical binding]; other site 435998014961 catalytic residues [active] 435998014962 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 435998014963 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 435998014964 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 435998014965 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 435998014966 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 435998014967 HicB family; Region: HicB; pfam05534 435998014968 argininosuccinate lyase; Provisional; Region: PRK04833 435998014969 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 435998014970 active sites [active] 435998014971 tetramer interface [polypeptide binding]; other site 435998014972 argininosuccinate synthase; Provisional; Region: PRK13820 435998014973 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 435998014974 ANP binding site [chemical binding]; other site 435998014975 Substrate Binding Site II [chemical binding]; other site 435998014976 Substrate Binding Site I [chemical binding]; other site 435998014977 AAK_NAGK-NC: N-Acetyl-L-glutamate kinase - noncyclic (NAGK-NC) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of microbial arginine biosynthesis using the acetylated, noncyclic route of...; Region: AAK_NAGK-NC; cd04249 435998014978 nucleotide binding site [chemical binding]; other site 435998014979 N-acetyl-L-glutamate binding site [chemical binding]; other site 435998014980 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 435998014981 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 435998014982 acetylornithine deacetylase; Provisional; Region: PRK05111 435998014983 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 435998014984 metal binding site [ion binding]; metal-binding site 435998014985 putative dimer interface [polypeptide binding]; other site 435998014986 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 435998014987 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 435998014988 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 435998014989 FAD binding site [chemical binding]; other site 435998014990 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 435998014991 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 435998014992 putative catalytic residues [active] 435998014993 putative nucleotide binding site [chemical binding]; other site 435998014994 putative aspartate binding site [chemical binding]; other site 435998014995 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 435998014996 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 435998014997 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 435998014998 cystathionine gamma-synthase; Provisional; Region: PRK08045 435998014999 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 435998015000 homodimer interface [polypeptide binding]; other site 435998015001 substrate-cofactor binding pocket; other site 435998015002 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998015003 catalytic residue [active] 435998015004 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 435998015005 dimerization interface [polypeptide binding]; other site 435998015006 DNA binding site [nucleotide binding] 435998015007 corepressor binding sites; other site 435998015008 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 435998015009 primosome assembly protein PriA; Validated; Region: PRK05580 435998015010 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 435998015011 ATP binding site [chemical binding]; other site 435998015012 putative Mg++ binding site [ion binding]; other site 435998015013 helicase superfamily c-terminal domain; Region: HELICc; smart00490 435998015014 ATP-binding site [chemical binding]; other site 435998015015 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998015016 DNA binding site [nucleotide binding] 435998015017 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 435998015018 domain linker motif; other site 435998015019 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 435998015020 dimerization interface [polypeptide binding]; other site 435998015021 ligand binding site [chemical binding]; other site 435998015022 cell division protein FtsN; Provisional; Region: PRK12757 435998015023 Sporulation related domain; Region: SPOR; cl10051 435998015024 Sporulation related domain; Region: SPOR; cl10051 435998015025 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 435998015026 active site 435998015027 HslU subunit interaction site [polypeptide binding]; other site 435998015028 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 435998015029 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998015030 Walker A motif; other site 435998015031 ATP binding site [chemical binding]; other site 435998015032 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 435998015033 Walker B motif; other site 435998015034 arginine finger; other site 435998015035 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 435998015036 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 435998015037 UbiA prenyltransferase family; Region: UbiA; pfam01040 435998015038 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 435998015039 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3074 435998015040 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 435998015041 amphipathic channel; other site 435998015042 Asn-Pro-Ala signature motifs; other site 435998015043 glycerol kinase; Provisional; Region: glpK; PRK00047 435998015044 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 435998015045 N- and C-terminal domain interface [polypeptide binding]; other site 435998015046 active site 435998015047 MgATP binding site [chemical binding]; other site 435998015048 catalytic site [active] 435998015049 metal binding site [ion binding]; metal-binding site 435998015050 glycerol binding site [chemical binding]; other site 435998015051 homotetramer interface [polypeptide binding]; other site 435998015052 homodimer interface [polypeptide binding]; other site 435998015053 FBP binding site [chemical binding]; other site 435998015054 protein IIAGlc interface [polypeptide binding]; other site 435998015055 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 435998015056 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 435998015057 putative active site [active] 435998015058 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 435998015059 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 435998015060 putative substrate translocation pore; other site 435998015061 Predicted transcriptional regulator [Transcription]; Region: COG2345 435998015062 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 435998015063 dimerization interface [polypeptide binding]; other site 435998015064 putative Zn2+ binding site [ion binding]; other site 435998015065 putative DNA binding site [nucleotide binding]; other site 435998015066 ferredoxin-NADP reductase; Provisional; Region: PRK10926 435998015067 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 435998015068 FAD binding pocket [chemical binding]; other site 435998015069 FAD binding motif [chemical binding]; other site 435998015070 phosphate binding motif [ion binding]; other site 435998015071 beta-alpha-beta structure motif; other site 435998015072 NAD binding pocket [chemical binding]; other site 435998015073 Predicted membrane protein [Function unknown]; Region: COG3152 435998015074 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 435998015075 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 435998015076 triosephosphate isomerase; Provisional; Region: PRK14567 435998015077 substrate binding site [chemical binding]; other site 435998015078 dimer interface [polypeptide binding]; other site 435998015079 catalytic triad [active] 435998015080 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 435998015081 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 435998015082 substrate binding pocket [chemical binding]; other site 435998015083 membrane-bound complex binding site; other site 435998015084 hinge residues; other site 435998015085 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 435998015086 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 435998015087 active site 435998015088 ADP/pyrophosphate binding site [chemical binding]; other site 435998015089 dimerization interface [polypeptide binding]; other site 435998015090 allosteric effector site; other site 435998015091 fructose-1,6-bisphosphate binding site; other site 435998015092 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 435998015093 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 435998015094 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 435998015095 dimer interface [polypeptide binding]; other site 435998015096 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 435998015097 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998015098 active site 435998015099 intermolecular recognition site; other site 435998015100 dimerization interface [polypeptide binding]; other site 435998015101 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 435998015102 DNA binding site [nucleotide binding] 435998015103 two-component sensor protein; Provisional; Region: cpxA; PRK09470 435998015104 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 435998015105 dimerization interface [polypeptide binding]; other site 435998015106 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 435998015107 dimer interface [polypeptide binding]; other site 435998015108 phosphorylation site [posttranslational modification] 435998015109 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998015110 ATP binding site [chemical binding]; other site 435998015111 Mg2+ binding site [ion binding]; other site 435998015112 G-X-G motif; other site 435998015113 putative rRNA methylase; Provisional; Region: PRK10358 435998015114 CHAD domain; Region: CHAD; pfam05235 435998015115 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 435998015116 serine acetyltransferase; Provisional; Region: cysE; PRK11132 435998015117 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 435998015118 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 435998015119 trimer interface [polypeptide binding]; other site 435998015120 active site 435998015121 substrate binding site [chemical binding]; other site 435998015122 CoA binding site [chemical binding]; other site 435998015123 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 435998015124 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 435998015125 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 435998015126 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 435998015127 SecA binding site; other site 435998015128 Preprotein binding site; other site 435998015129 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 435998015130 GSH binding site [chemical binding]; other site 435998015131 catalytic residues [active] 435998015132 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 435998015133 active site residue [active] 435998015134 phosphoglyceromutase; Provisional; Region: PRK05434 435998015135 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 435998015136 AmiB activator; Provisional; Region: PRK11637 435998015137 Peptidase family M23; Region: Peptidase_M23; pfam01551 435998015138 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 435998015139 NodB motif; other site 435998015140 putative active site [active] 435998015141 putative catalytic site [active] 435998015142 Zn binding site [ion binding]; other site 435998015143 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 435998015144 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 435998015145 NAD(P) binding site [chemical binding]; other site 435998015146 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 435998015147 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 435998015148 substrate-cofactor binding pocket; other site 435998015149 pyridoxal 5'-phosphate binding site [chemical binding]; other site 435998015150 catalytic residue [active] 435998015151 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 435998015152 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 435998015153 NADP binding site [chemical binding]; other site 435998015154 homopentamer interface [polypeptide binding]; other site 435998015155 substrate binding site [chemical binding]; other site 435998015156 active site 435998015157 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 435998015158 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 435998015159 putative active site [active] 435998015160 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 435998015161 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 435998015162 putative active site [active] 435998015163 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435998015164 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 435998015165 putative glycosyl transferase; Provisional; Region: PRK10073 435998015166 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 435998015167 active site 435998015168 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 435998015169 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 435998015170 putative active site [active] 435998015171 Putative catalytic domain of lipopolysaccharide biosynthesis protein WalW and its bacterial homologs; Region: CE4_WalW; cd10935 435998015172 putative active site [active] 435998015173 putative catalytic site [active] 435998015174 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 435998015175 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 435998015176 putative active site [active] 435998015177 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435998015178 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 435998015179 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 435998015180 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 435998015181 putative ADP-binding pocket [chemical binding]; other site 435998015182 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 435998015183 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 435998015184 putative active site [active] 435998015185 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 435998015186 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 435998015187 Glycosyl transferases group 1; Region: Glycos_transf_1; pfam00534 435998015188 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 435998015189 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 435998015190 putative metal binding site; other site 435998015191 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 435998015192 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 435998015193 active site 435998015194 (T/H)XGH motif; other site 435998015195 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 435998015196 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 435998015197 DNA binding site [nucleotide binding] 435998015198 catalytic residue [active] 435998015199 H2TH interface [polypeptide binding]; other site 435998015200 putative catalytic residues [active] 435998015201 turnover-facilitating residue; other site 435998015202 intercalation triad [nucleotide binding]; other site 435998015203 8OG recognition residue [nucleotide binding]; other site 435998015204 putative reading head residues; other site 435998015205 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 435998015206 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 435998015207 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 435998015208 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 435998015209 hypothetical protein; Reviewed; Region: PRK00024 435998015210 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 435998015211 MPN+ (JAMM) motif; other site 435998015212 Zinc-binding site [ion binding]; other site 435998015213 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 435998015214 Flavoprotein; Region: Flavoprotein; pfam02441 435998015215 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 435998015216 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 435998015217 trimer interface [polypeptide binding]; other site 435998015218 active site 435998015219 division inhibitor protein; Provisional; Region: slmA; PRK09480 435998015220 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 435998015221 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 435998015222 active site 435998015223 ribonuclease PH; Reviewed; Region: rph; PRK00173 435998015224 Ribonuclease PH; Region: RNase_PH_bact; cd11362 435998015225 hexamer interface [polypeptide binding]; other site 435998015226 active site 435998015227 hypothetical protein; Provisional; Region: PRK11820 435998015228 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 435998015229 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 435998015230 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 435998015231 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 435998015232 Nucleoside recognition; Region: Gate; pfam07670 435998015233 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 435998015234 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 435998015235 Predicted membrane protein [Function unknown]; Region: COG2860 435998015236 UPF0126 domain; Region: UPF0126; pfam03458 435998015237 UPF0126 domain; Region: UPF0126; pfam03458 435998015238 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 435998015239 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 435998015240 catalytic site [active] 435998015241 G-X2-G-X-G-K; other site 435998015242 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 435998015243 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 435998015244 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 435998015245 Zn2+ binding site [ion binding]; other site 435998015246 Mg2+ binding site [ion binding]; other site 435998015247 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 435998015248 synthetase active site [active] 435998015249 NTP binding site [chemical binding]; other site 435998015250 metal binding site [ion binding]; metal-binding site 435998015251 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 435998015252 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 435998015253 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 435998015254 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 435998015255 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 435998015256 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 435998015257 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 435998015258 generic binding surface II; other site 435998015259 ssDNA binding site; other site 435998015260 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 435998015261 ATP binding site [chemical binding]; other site 435998015262 putative Mg++ binding site [ion binding]; other site 435998015263 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 435998015264 nucleotide binding region [chemical binding]; other site 435998015265 ATP-binding site [chemical binding]; other site 435998015266 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 435998015267 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 435998015268 AsmA family; Region: AsmA; pfam05170 435998015269 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 435998015270 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 435998015271 Coenzyme A binding pocket [chemical binding]; other site 435998015272 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 435998015273 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 435998015274 putative active site [active] 435998015275 dimerization interface [polypeptide binding]; other site 435998015276 putative tRNAtyr binding site [nucleotide binding]; other site 435998015277 hypothetical protein; Reviewed; Region: PRK01637 435998015278 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 435998015279 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 435998015280 motif II; other site 435998015281 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 435998015282 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 435998015283 G1 box; other site 435998015284 putative GEF interaction site [polypeptide binding]; other site 435998015285 GTP/Mg2+ binding site [chemical binding]; other site 435998015286 Switch I region; other site 435998015287 G2 box; other site 435998015288 G3 box; other site 435998015289 Switch II region; other site 435998015290 G4 box; other site 435998015291 G5 box; other site 435998015292 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 435998015293 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 435998015294 glutamine synthetase; Provisional; Region: glnA; PRK09469 435998015295 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 435998015296 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 435998015297 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 435998015298 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 435998015299 dimer interface [polypeptide binding]; other site 435998015300 phosphorylation site [posttranslational modification] 435998015301 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 435998015302 ATP binding site [chemical binding]; other site 435998015303 Mg2+ binding site [ion binding]; other site 435998015304 G-X-G motif; other site 435998015305 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 435998015306 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 435998015307 active site 435998015308 phosphorylation site [posttranslational modification] 435998015309 intermolecular recognition site; other site 435998015310 dimerization interface [polypeptide binding]; other site 435998015311 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998015312 Walker A motif; other site 435998015313 ATP binding site [chemical binding]; other site 435998015314 Walker B motif; other site 435998015315 arginine finger; other site 435998015316 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 435998015317 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 435998015318 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 435998015319 FeS/SAM binding site; other site 435998015320 HemN C-terminal domain; Region: HemN_C; pfam06969 435998015321 Der GTPase activator; Provisional; Region: PRK05244 435998015322 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 435998015323 G1 box; other site 435998015324 GTP/Mg2+ binding site [chemical binding]; other site 435998015325 Switch I region; other site 435998015326 G2 box; other site 435998015327 G3 box; other site 435998015328 Switch II region; other site 435998015329 G4 box; other site 435998015330 G5 box; other site 435998015331 DNA polymerase I; Provisional; Region: PRK05755 435998015332 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 435998015333 active site 435998015334 metal binding site 1 [ion binding]; metal-binding site 435998015335 putative 5' ssDNA interaction site; other site 435998015336 metal binding site 3; metal-binding site 435998015337 metal binding site 2 [ion binding]; metal-binding site 435998015338 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 435998015339 putative DNA binding site [nucleotide binding]; other site 435998015340 putative metal binding site [ion binding]; other site 435998015341 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 435998015342 active site 435998015343 catalytic site [active] 435998015344 substrate binding site [chemical binding]; other site 435998015345 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 435998015346 active site 435998015347 DNA binding site [nucleotide binding] 435998015348 catalytic site [active] 435998015349 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 435998015350 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 435998015351 putative acyl-acceptor binding pocket; other site 435998015352 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 435998015353 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 435998015354 catalytic residues [active] 435998015355 hinge region; other site 435998015356 alpha helical domain; other site 435998015357 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 435998015358 serine/threonine protein kinase; Provisional; Region: PRK11768 435998015359 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 435998015360 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 435998015361 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 435998015362 GTP binding site; other site 435998015363 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 435998015364 Walker A motif; other site 435998015365 Transcriptional regulators [Transcription]; Region: FadR; COG2186 435998015366 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 435998015367 DNA-binding site [nucleotide binding]; DNA binding site 435998015368 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 435998015369 putative transporter; Provisional; Region: PRK10504 435998015370 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 435998015371 putative substrate translocation pore; other site 435998015372 transcriptional repressor RbsR; Provisional; Region: PRK10423 435998015373 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 435998015374 DNA binding site [nucleotide binding] 435998015375 domain linker motif; other site 435998015376 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 435998015377 dimerization interface [polypeptide binding]; other site 435998015378 ligand binding site [chemical binding]; other site 435998015379 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 435998015380 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 435998015381 substrate binding site [chemical binding]; other site 435998015382 dimer interface [polypeptide binding]; other site 435998015383 ATP binding site [chemical binding]; other site 435998015384 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 435998015385 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 435998015386 ligand binding site [chemical binding]; other site 435998015387 dimerization interface [polypeptide binding]; other site 435998015388 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 435998015389 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 435998015390 TM-ABC transporter signature motif; other site 435998015391 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 435998015392 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 435998015393 Walker A/P-loop; other site 435998015394 ATP binding site [chemical binding]; other site 435998015395 Q-loop/lid; other site 435998015396 ABC transporter signature motif; other site 435998015397 Walker B; other site 435998015398 D-loop; other site 435998015399 H-loop/switch region; other site 435998015400 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 435998015401 D-ribose pyranase; Provisional; Region: PRK11797 435998015402 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 435998015403 potassium uptake protein; Region: kup; TIGR00794 435998015404 regulatory ATPase RavA; Provisional; Region: PRK13531 435998015405 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 435998015406 Walker A motif; other site 435998015407 ATP binding site [chemical binding]; other site 435998015408 Walker B motif; other site 435998015409 arginine finger; other site 435998015410 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 435998015411 hypothetical protein; Provisional; Region: yieM; PRK10997 435998015412 VWA YIEM 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_YIEM_type; cd01462 435998015413 metal ion-dependent adhesion site (MIDAS); other site 435998015414 Asparagine synthetase A [Amino acid transport and metabolism]; Region: AsnA; COG2502 435998015415 motif 1; other site 435998015416 dimer interface [polypeptide binding]; other site 435998015417 active site 435998015418 motif 2; other site 435998015419 motif 3; other site 435998015420 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 435998015421 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 435998015422 putative DNA binding site [nucleotide binding]; other site 435998015423 putative Zn2+ binding site [ion binding]; other site 435998015424 AsnC family; Region: AsnC_trans_reg; pfam01037 435998015425 FMN-binding protein MioC; Provisional; Region: PRK09004 435998015426 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 435998015427 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 435998015428 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 435998015429 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 435998015430 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 435998015431 S-adenosylmethionine binding site [chemical binding]; other site 435998015432 Abi-like protein; Region: Abi_2; pfam07751