-- dump date 20140619_101333 -- class Genbank::misc_feature -- table misc_feature_note -- id note 235909000001 Initiator Replication protein; Region: Rep_3; pfam01051 235909000002 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 235909000003 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 235909000004 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 235909000005 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 235909000006 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 235909000007 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 235909000008 Domain of unknown function (DUF955); Region: DUF955; pfam06114 235909000009 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467; cl01853 235909000010 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 235909000011 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 235909000012 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 235909000013 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 235909000014 active site 235909000015 DNA binding site [nucleotide binding] 235909000016 Int/Topo IB signature motif; other site 235909000017 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 235909000018 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 235909000019 FeS/SAM binding site; other site 235909000020 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 235909000021 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 235909000022 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 235909000023 dimer interface [polypeptide binding]; other site 235909000024 conserved gate region; other site 235909000025 putative PBP binding loops; other site 235909000026 ABC-ATPase subunit interface; other site 235909000027 enoyl-CoA hydratase; Provisional; Region: PRK06688 235909000028 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 235909000029 substrate binding site [chemical binding]; other site 235909000030 oxyanion hole (OAH) forming residues; other site 235909000031 trimer interface [polypeptide binding]; other site 235909000032 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 235909000033 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 235909000034 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 235909000035 acyl-activating enzyme (AAE) consensus motif; other site 235909000036 AMP binding site [chemical binding]; other site 235909000037 active site 235909000038 CoA binding site [chemical binding]; other site 235909000039 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 235909000040 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 235909000041 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 235909000042 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 235909000043 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 235909000044 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 235909000045 putative hydrophobic ligand binding site [chemical binding]; other site 235909000046 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 235909000047 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 235909000048 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 235909000049 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 235909000050 Ligand binding site; other site 235909000051 metal-binding site 235909000052 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 235909000053 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 235909000054 XdhC Rossmann domain; Region: XdhC_C; pfam13478 235909000055 Response regulator receiver domain; Region: Response_reg; pfam00072 235909000056 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909000057 active site 235909000058 phosphorylation site [posttranslational modification] 235909000059 intermolecular recognition site; other site 235909000060 dimerization interface [polypeptide binding]; other site 235909000061 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 235909000062 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 235909000063 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 235909000064 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 235909000065 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 235909000066 acyl-activating enzyme (AAE) consensus motif; other site 235909000067 AMP binding site [chemical binding]; other site 235909000068 active site 235909000069 CoA binding site [chemical binding]; other site 235909000070 ribonucleotide-diphosphate reductase subunit beta; Validated; Region: PRK08326 235909000071 dinuclear metal binding motif [ion binding]; other site 235909000072 metabolite-proton symporter; Region: 2A0106; TIGR00883 235909000073 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 235909000074 putative substrate translocation pore; other site 235909000075 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 235909000076 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 235909000077 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 235909000078 active site 235909000079 NAD binding site [chemical binding]; other site 235909000080 metal binding site [ion binding]; metal-binding site 235909000081 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 235909000082 Pseudomonas putida aldehyde dehydrogenase PsfA (ACA09737)-like; Region: ALDH_PsfA-ACA09737; cd07120 235909000083 NAD(P) binding site [chemical binding]; other site 235909000084 catalytic residues [active] 235909000085 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 235909000086 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 235909000087 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 235909000088 Flavoprotein; Region: Flavoprotein; pfam02441 235909000089 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 235909000090 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 235909000091 P-loop; other site 235909000092 Magnesium ion binding site [ion binding]; other site 235909000093 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 235909000094 Magnesium ion binding site [ion binding]; other site 235909000095 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 235909000096 YvrJ protein family; Region: YvrJ; pfam12841 235909000097 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 235909000098 INT_SG3, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 3, catalytic domain. The CD contains various predicted bacterial and phage integrase/recombinase sequences for which not much experimental characterization is available; Region: INT_SG3_C; cd01186 235909000099 Int/Topo IB signature motif; other site 235909000100 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 235909000101 DnaA N-terminal domain; Region: DnaA_N; pfam11638 235909000102 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 235909000103 Walker A motif; other site 235909000104 ATP binding site [chemical binding]; other site 235909000105 Walker B motif; other site 235909000106 arginine finger; other site 235909000107 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 235909000108 DnaA box-binding interface [nucleotide binding]; other site 235909000109 DNA polymerase III subunit beta; Validated; Region: PRK05643 235909000110 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 235909000111 putative DNA binding surface [nucleotide binding]; other site 235909000112 dimer interface [polypeptide binding]; other site 235909000113 beta-clamp/clamp loader binding surface; other site 235909000114 beta-clamp/translesion DNA polymerase binding surface; other site 235909000115 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 235909000116 recombination protein F; Reviewed; Region: recF; PRK00064 235909000117 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 235909000118 Walker A/P-loop; other site 235909000119 ATP binding site [chemical binding]; other site 235909000120 Q-loop/lid; other site 235909000121 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 235909000122 ABC transporter signature motif; other site 235909000123 Walker B; other site 235909000124 D-loop; other site 235909000125 H-loop/switch region; other site 235909000126 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 235909000127 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909000128 Mg2+ binding site [ion binding]; other site 235909000129 G-X-G motif; other site 235909000130 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 235909000131 anchoring element; other site 235909000132 dimer interface [polypeptide binding]; other site 235909000133 ATP binding site [chemical binding]; other site 235909000134 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 235909000135 active site 235909000136 putative metal-binding site [ion binding]; other site 235909000137 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 235909000138 DNA gyrase subunit A; Validated; Region: PRK05560 235909000139 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 235909000140 CAP-like domain; other site 235909000141 active site 235909000142 primary dimer interface [polypeptide binding]; other site 235909000143 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 235909000144 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 235909000145 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 235909000146 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 235909000147 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 235909000148 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 235909000149 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 235909000150 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 235909000151 Zn2+ binding site [ion binding]; other site 235909000152 Mg2+ binding site [ion binding]; other site 235909000153 YaaC-like Protein; Region: YaaC; pfam14175 235909000154 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 235909000155 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 235909000156 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 235909000157 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 235909000158 active site 235909000159 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 235909000160 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 235909000161 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 235909000162 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 235909000163 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 235909000164 active site 235909000165 multimer interface [polypeptide binding]; other site 235909000166 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 235909000167 Glutamine amidotransferase [Amino acid transport and metabolism]; Region: HisH; COG0118 235909000168 predicted active site [active] 235909000169 catalytic triad [active] 235909000170 seryl-tRNA synthetase; Provisional; Region: PRK05431 235909000171 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 235909000172 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 235909000173 dimer interface [polypeptide binding]; other site 235909000174 active site 235909000175 motif 1; other site 235909000176 motif 2; other site 235909000177 motif 3; other site 235909000178 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 235909000179 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 235909000180 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 235909000181 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 235909000182 active site 235909000183 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 235909000184 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 235909000185 nucleoside/Zn binding site; other site 235909000186 dimer interface [polypeptide binding]; other site 235909000187 catalytic motif [active] 235909000188 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 235909000189 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 235909000190 Walker A motif; other site 235909000191 ATP binding site [chemical binding]; other site 235909000192 Walker B motif; other site 235909000193 arginine finger; other site 235909000194 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 235909000195 hypothetical protein; Validated; Region: PRK00153 235909000196 recombination protein RecR; Reviewed; Region: recR; PRK00076 235909000197 RecR protein; Region: RecR; pfam02132 235909000198 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 235909000199 putative active site [active] 235909000200 putative metal-binding site [ion binding]; other site 235909000201 tetramer interface [polypeptide binding]; other site 235909000202 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 235909000203 pro-sigmaK processing inhibitor BofA; Region: spore_BofA; TIGR02862 235909000204 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 235909000205 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 235909000206 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 235909000207 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 235909000208 catalytic residue [active] 235909000209 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 235909000210 thymidylate kinase; Validated; Region: tmk; PRK00698 235909000211 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 235909000212 TMP-binding site; other site 235909000213 ATP-binding site [chemical binding]; other site 235909000214 DNA polymerase III subunit delta'; Validated; Region: PRK08058 235909000215 DNA polymerase III subunit delta'; Validated; Region: PRK08485 235909000216 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 235909000217 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 235909000218 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 235909000219 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 235909000220 S-adenosylmethionine binding site [chemical binding]; other site 235909000221 Predicted methyltransferases [General function prediction only]; Region: COG0313 235909000222 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 235909000223 putative SAM binding site [chemical binding]; other site 235909000224 putative homodimer interface [polypeptide binding]; other site 235909000225 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 235909000226 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 235909000227 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 235909000228 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 235909000229 active site 235909000230 HIGH motif; other site 235909000231 KMSKS motif; other site 235909000232 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 235909000233 tRNA binding surface [nucleotide binding]; other site 235909000234 anticodon binding site; other site 235909000235 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 235909000236 dimer interface [polypeptide binding]; other site 235909000237 putative tRNA-binding site [nucleotide binding]; other site 235909000238 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 235909000239 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 235909000240 active site 235909000241 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 235909000242 Domain of unknown function (DUF348); Region: DUF348; pfam03990 235909000243 Domain of unknown function (DUF348); Region: DUF348; pfam03990 235909000244 Domain of unknown function (DUF348); Region: DUF348; pfam03990 235909000245 G5 domain; Region: G5; pfam07501 235909000246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 235909000247 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 235909000248 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 235909000249 putative active site [active] 235909000250 putative metal binding site [ion binding]; other site 235909000251 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 235909000252 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 235909000253 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 235909000254 S-adenosylmethionine binding site [chemical binding]; other site 235909000255 sporulation peptidase YabG; Region: spore_yabG; TIGR02855 235909000256 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 235909000257 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 235909000258 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 235909000259 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 235909000260 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 235909000261 pur operon repressor; Provisional; Region: PRK09213 235909000262 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 235909000263 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 235909000264 active site 235909000265 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 235909000266 homotrimer interaction site [polypeptide binding]; other site 235909000267 putative active site [active] 235909000268 regulatory protein SpoVG; Reviewed; Region: PRK13259 235909000269 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 235909000270 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 235909000271 Substrate binding site; other site 235909000272 Mg++ binding site; other site 235909000273 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 235909000274 active site 235909000275 substrate binding site [chemical binding]; other site 235909000276 CoA binding site [chemical binding]; other site 235909000277 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 235909000278 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 235909000279 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 235909000280 active site 235909000281 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 235909000282 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 235909000283 5S rRNA interface [nucleotide binding]; other site 235909000284 CTC domain interface [polypeptide binding]; other site 235909000285 L16 interface [polypeptide binding]; other site 235909000286 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 235909000287 putative active site [active] 235909000288 catalytic residue [active] 235909000289 Protein of unknown function (DUF2757); Region: DUF2757; pfam10955 235909000290 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 235909000291 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 235909000292 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 235909000293 ATP binding site [chemical binding]; other site 235909000294 putative Mg++ binding site [ion binding]; other site 235909000295 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 235909000296 nucleotide binding region [chemical binding]; other site 235909000297 ATP-binding site [chemical binding]; other site 235909000298 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 235909000299 stage V sporulation protein T; Region: spore_V_T; TIGR02851 235909000300 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 235909000301 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 235909000302 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 235909000303 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 235909000304 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 235909000305 putative SAM binding site [chemical binding]; other site 235909000306 putative homodimer interface [polypeptide binding]; other site 235909000307 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 235909000308 homodimer interface [polypeptide binding]; other site 235909000309 metal binding site [ion binding]; metal-binding site 235909000310 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 235909000311 homodimer interface [polypeptide binding]; other site 235909000312 active site 235909000313 putative chemical substrate binding site [chemical binding]; other site 235909000314 metal binding site [ion binding]; metal-binding site 235909000315 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 235909000316 RNA binding surface [nucleotide binding]; other site 235909000317 sporulation protein YabP; Region: spore_yabP; TIGR02892 235909000318 spore cortex biosynthesis protein YabQ; Region: spore_yabQ; TIGR02893 235909000319 Septum formation initiator; Region: DivIC; pfam04977 235909000320 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 235909000321 hypothetical protein; Provisional; Region: PRK08582 235909000322 S1_RPS1_repeat_hs4: 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_hs4; cd05692 235909000323 RNA binding site [nucleotide binding]; other site 235909000324 stage II sporulation protein E; Region: spore_II_E; TIGR02865 235909000325 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 235909000326 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 235909000327 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 235909000328 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 235909000329 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 235909000330 metal ion-dependent adhesion site (MIDAS); other site 235909000331 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 235909000332 Catalytic domain of Protein Kinases; Region: PKc; cd00180 235909000333 active site 235909000334 ATP binding site [chemical binding]; other site 235909000335 substrate binding site [chemical binding]; other site 235909000336 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 235909000337 active site 235909000338 ATP binding site [chemical binding]; other site 235909000339 substrate binding site [chemical binding]; other site 235909000340 activation loop (A-loop); other site 235909000341 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 235909000342 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 235909000343 Ligand Binding Site [chemical binding]; other site 235909000344 TilS substrate C-terminal domain; Region: TilS_C; smart00977 235909000345 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 235909000346 active site 235909000347 FtsH Extracellular; Region: FtsH_ext; pfam06480 235909000348 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 235909000349 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 235909000350 Walker A motif; other site 235909000351 ATP binding site [chemical binding]; other site 235909000352 Walker B motif; other site 235909000353 arginine finger; other site 235909000354 Peptidase family M41; Region: Peptidase_M41; pfam01434 235909000355 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 235909000356 nucleotide binding site [chemical binding]; other site 235909000357 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 235909000358 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 235909000359 dimerization interface [polypeptide binding]; other site 235909000360 domain crossover interface; other site 235909000361 redox-dependent activation switch; other site 235909000362 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 235909000363 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 235909000364 dimer interface [polypeptide binding]; other site 235909000365 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909000366 catalytic residue [active] 235909000367 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 235909000368 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 235909000369 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 235909000370 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 235909000371 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 235909000372 glutamine binding [chemical binding]; other site 235909000373 catalytic triad [active] 235909000374 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 235909000375 4-amino-4-deoxychorismate lyase; Provisional; Region: PRK07650 235909000376 homodimer interface [polypeptide binding]; other site 235909000377 substrate-cofactor binding pocket; other site 235909000378 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909000379 catalytic residue [active] 235909000380 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 235909000381 dihydropteroate synthase; Region: DHPS; TIGR01496 235909000382 substrate binding pocket [chemical binding]; other site 235909000383 dimer interface [polypeptide binding]; other site 235909000384 inhibitor binding site; inhibition site 235909000385 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 235909000386 homooctamer interface [polypeptide binding]; other site 235909000387 active site 235909000388 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 235909000389 catalytic center binding site [active] 235909000390 ATP binding site [chemical binding]; other site 235909000391 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 235909000392 non-specific DNA binding site [nucleotide binding]; other site 235909000393 salt bridge; other site 235909000394 sequence-specific DNA binding site [nucleotide binding]; other site 235909000395 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 235909000396 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 235909000397 FMN binding site [chemical binding]; other site 235909000398 active site 235909000399 catalytic residues [active] 235909000400 substrate binding site [chemical binding]; other site 235909000401 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 235909000402 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 235909000403 dimer interface [polypeptide binding]; other site 235909000404 putative anticodon binding site; other site 235909000405 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 235909000406 motif 1; other site 235909000407 active site 235909000408 motif 2; other site 235909000409 motif 3; other site 235909000410 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 235909000411 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 235909000412 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 235909000413 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 235909000414 ADP binding site [chemical binding]; other site 235909000415 phosphagen binding site; other site 235909000416 substrate specificity loop; other site 235909000417 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 235909000418 Clp amino terminal domain; Region: Clp_N; pfam02861 235909000419 Clp amino terminal domain; Region: Clp_N; pfam02861 235909000420 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 235909000421 Walker A motif; other site 235909000422 ATP binding site [chemical binding]; other site 235909000423 Walker B motif; other site 235909000424 arginine finger; other site 235909000425 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 235909000426 Walker A motif; other site 235909000427 ATP binding site [chemical binding]; other site 235909000428 Walker B motif; other site 235909000429 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 235909000430 DNA repair protein RadA; Provisional; Region: PRK11823 235909000431 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 235909000432 Walker A motif/ATP binding site; other site 235909000433 ATP binding site [chemical binding]; other site 235909000434 Walker B motif; other site 235909000435 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 235909000436 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 235909000437 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 235909000438 putative active site [active] 235909000439 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 235909000440 substrate binding site; other site 235909000441 dimer interface; other site 235909000442 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 235909000443 homotrimer interaction site [polypeptide binding]; other site 235909000444 zinc binding site [ion binding]; other site 235909000445 CDP-binding sites; other site 235909000446 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 235909000447 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 235909000448 HIGH motif; other site 235909000449 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 235909000450 active site 235909000451 KMSKS motif; other site 235909000452 serine O-acetyltransferase; Region: cysE; TIGR01172 235909000453 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 235909000454 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 235909000455 trimer interface [polypeptide binding]; other site 235909000456 active site 235909000457 substrate binding site [chemical binding]; other site 235909000458 CoA binding site [chemical binding]; other site 235909000459 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 235909000460 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 235909000461 active site 235909000462 HIGH motif; other site 235909000463 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 235909000464 KMSKS motif; other site 235909000465 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 235909000466 tRNA binding surface [nucleotide binding]; other site 235909000467 anticodon binding site; other site 235909000468 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 235909000469 active site 235909000470 metal binding site [ion binding]; metal-binding site 235909000471 dimerization interface [polypeptide binding]; other site 235909000472 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 235909000473 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 235909000474 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 235909000475 YacP-like NYN domain; Region: NYN_YacP; cl01491 235909000476 RNA polymerase factor sigma-70; Validated; Region: PRK08295 235909000477 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 235909000478 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 235909000479 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 235909000480 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 235909000481 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 235909000482 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 235909000483 putative homodimer interface [polypeptide binding]; other site 235909000484 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 235909000485 heterodimer interface [polypeptide binding]; other site 235909000486 homodimer interface [polypeptide binding]; other site 235909000487 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 235909000488 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 235909000489 23S rRNA interface [nucleotide binding]; other site 235909000490 L7/L12 interface [polypeptide binding]; other site 235909000491 putative thiostrepton binding site; other site 235909000492 L25 interface [polypeptide binding]; other site 235909000493 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 235909000494 mRNA/rRNA interface [nucleotide binding]; other site 235909000495 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 235909000496 23S rRNA interface [nucleotide binding]; other site 235909000497 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 235909000498 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 235909000499 core dimer interface [polypeptide binding]; other site 235909000500 peripheral dimer interface [polypeptide binding]; other site 235909000501 L10 interface [polypeptide binding]; other site 235909000502 L11 interface [polypeptide binding]; other site 235909000503 putative EF-Tu interaction site [polypeptide binding]; other site 235909000504 putative EF-G interaction site [polypeptide binding]; other site 235909000505 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 235909000506 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 235909000507 S-adenosylmethionine binding site [chemical binding]; other site 235909000508 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 235909000509 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 235909000510 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 235909000511 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 235909000512 RPB1 interaction site [polypeptide binding]; other site 235909000513 RPB10 interaction site [polypeptide binding]; other site 235909000514 RPB11 interaction site [polypeptide binding]; other site 235909000515 RPB3 interaction site [polypeptide binding]; other site 235909000516 RPB12 interaction site [polypeptide binding]; other site 235909000517 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 235909000518 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 235909000519 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 235909000520 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 235909000521 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 235909000522 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 235909000523 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 235909000524 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 235909000525 G-loop; other site 235909000526 DNA binding site [nucleotide binding] 235909000527 putative ribosomal protein L7Ae-like; Provisional; Region: PRK13602 235909000528 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 235909000529 S17 interaction site [polypeptide binding]; other site 235909000530 S8 interaction site; other site 235909000531 16S rRNA interaction site [nucleotide binding]; other site 235909000532 streptomycin interaction site [chemical binding]; other site 235909000533 23S rRNA interaction site [nucleotide binding]; other site 235909000534 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 235909000535 30S ribosomal protein S7; Validated; Region: PRK05302 235909000536 elongation factor G; Reviewed; Region: PRK00007 235909000537 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 235909000538 G1 box; other site 235909000539 putative GEF interaction site [polypeptide binding]; other site 235909000540 GTP/Mg2+ binding site [chemical binding]; other site 235909000541 Switch I region; other site 235909000542 G2 box; other site 235909000543 G3 box; other site 235909000544 Switch II region; other site 235909000545 G4 box; other site 235909000546 G5 box; other site 235909000547 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 235909000548 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 235909000549 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 235909000550 elongation factor Tu; Reviewed; Region: PRK00049 235909000551 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 235909000552 G1 box; other site 235909000553 GEF interaction site [polypeptide binding]; other site 235909000554 GTP/Mg2+ binding site [chemical binding]; other site 235909000555 Switch I region; other site 235909000556 G2 box; other site 235909000557 G3 box; other site 235909000558 Switch II region; other site 235909000559 G4 box; other site 235909000560 G5 box; other site 235909000561 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 235909000562 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 235909000563 Antibiotic Binding Site [chemical binding]; other site 235909000564 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 235909000565 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 235909000566 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 235909000567 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 235909000568 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 235909000569 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 235909000570 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 235909000571 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 235909000572 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 235909000573 putative translocon binding site; other site 235909000574 protein-rRNA interface [nucleotide binding]; other site 235909000575 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 235909000576 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 235909000577 G-X-X-G motif; other site 235909000578 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 235909000579 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 235909000580 23S rRNA interface [nucleotide binding]; other site 235909000581 5S rRNA interface [nucleotide binding]; other site 235909000582 putative antibiotic binding site [chemical binding]; other site 235909000583 L25 interface [polypeptide binding]; other site 235909000584 L27 interface [polypeptide binding]; other site 235909000585 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 235909000586 23S rRNA interface [nucleotide binding]; other site 235909000587 putative translocon interaction site; other site 235909000588 signal recognition particle (SRP54) interaction site; other site 235909000589 L23 interface [polypeptide binding]; other site 235909000590 trigger factor interaction site; other site 235909000591 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 235909000592 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 235909000593 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 235909000594 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 235909000595 RNA binding site [nucleotide binding]; other site 235909000596 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 235909000597 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 235909000598 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 235909000599 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 235909000600 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 235909000601 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 235909000602 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 235909000603 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 235909000604 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 235909000605 5S rRNA interface [nucleotide binding]; other site 235909000606 L27 interface [polypeptide binding]; other site 235909000607 23S rRNA interface [nucleotide binding]; other site 235909000608 L5 interface [polypeptide binding]; other site 235909000609 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 235909000610 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 235909000611 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 235909000612 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 235909000613 23S rRNA binding site [nucleotide binding]; other site 235909000614 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 235909000615 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 235909000616 SecY translocase; Region: SecY; pfam00344 235909000617 adenylate kinase; Reviewed; Region: adk; PRK00279 235909000618 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 235909000619 AMP-binding site [chemical binding]; other site 235909000620 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 235909000621 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 235909000622 active site 235909000623 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 235909000624 rRNA binding site [nucleotide binding]; other site 235909000625 predicted 30S ribosome binding site; other site 235909000626 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 235909000627 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 235909000628 30S ribosomal protein S13; Region: bact_S13; TIGR03631 235909000629 30S ribosomal protein S11; Validated; Region: PRK05309 235909000630 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 235909000631 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 235909000632 alphaNTD - beta interaction site [polypeptide binding]; other site 235909000633 alphaNTD homodimer interface [polypeptide binding]; other site 235909000634 alphaNTD - beta' interaction site [polypeptide binding]; other site 235909000635 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 235909000636 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 235909000637 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 235909000638 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 235909000639 Walker A/P-loop; other site 235909000640 ATP binding site [chemical binding]; other site 235909000641 Q-loop/lid; other site 235909000642 ABC transporter signature motif; other site 235909000643 Walker B; other site 235909000644 D-loop; other site 235909000645 H-loop/switch region; other site 235909000646 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 235909000647 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 235909000648 Walker A/P-loop; other site 235909000649 ATP binding site [chemical binding]; other site 235909000650 Q-loop/lid; other site 235909000651 ABC transporter signature motif; other site 235909000652 Walker B; other site 235909000653 D-loop; other site 235909000654 H-loop/switch region; other site 235909000655 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 235909000656 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 235909000657 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 235909000658 dimerization interface 3.5A [polypeptide binding]; other site 235909000659 active site 235909000660 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 235909000661 23S rRNA interface [nucleotide binding]; other site 235909000662 L3 interface [polypeptide binding]; other site 235909000663 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 235909000664 Protein of unknown function (DUF2521); Region: DUF2521; pfam10730 235909000665 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 235909000666 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 235909000667 active site 235909000668 Domain of unknown function DUF59; Region: DUF59; cl00941 235909000669 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 235909000670 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 235909000671 Walker A motif; other site 235909000672 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 235909000673 Transposase [DNA replication, recombination, and repair]; Region: COG5421 235909000674 KinB-signalling pathway activation in sporulation; Region: KbaA; pfam14089 235909000675 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 235909000676 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 235909000677 Arginase family; Region: Arginase; cd09989 235909000678 agmatinase; Region: agmatinase; TIGR01230 235909000679 active site 235909000680 Mn binding site [ion binding]; other site 235909000681 oligomer interface [polypeptide binding]; other site 235909000682 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 235909000683 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 235909000684 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 235909000685 DNA binding residues [nucleotide binding] 235909000686 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 235909000687 Putative zinc-finger; Region: zf-HC2; pfam13490 235909000688 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 235909000689 Uncharacterized conserved protein [Function unknown]; Region: COG1624 235909000690 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 235909000691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 235909000692 YbbR-like protein; Region: YbbR; pfam07949 235909000693 YbbR-like protein; Region: YbbR; pfam07949 235909000694 YbbR-like protein; Region: YbbR; pfam07949 235909000695 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 235909000696 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 235909000697 active site 235909000698 substrate binding site [chemical binding]; other site 235909000699 metal binding site [ion binding]; metal-binding site 235909000700 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 235909000701 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 235909000702 glutaminase active site [active] 235909000703 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 235909000704 dimer interface [polypeptide binding]; other site 235909000705 active site 235909000706 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 235909000707 dimer interface [polypeptide binding]; other site 235909000708 active site 235909000709 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 235909000710 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 235909000711 Walker A motif; other site 235909000712 ATP binding site [chemical binding]; other site 235909000713 Walker B motif; other site 235909000714 arginine finger; other site 235909000715 Integrase core domain; Region: rve; pfam00665 235909000716 Integrase core domain; Region: rve_3; pfam13683 235909000717 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 235909000718 putative transposase OrfB; Reviewed; Region: PHA02517 235909000719 HTH-like domain; Region: HTH_21; pfam13276 235909000720 Integrase core domain; Region: rve; pfam00665 235909000721 Integrase core domain; Region: rve_2; pfam13333 235909000722 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 235909000723 Transposase; Region: HTH_Tnp_1; pfam01527 235909000724 Winged helix-turn helix; Region: HTH_29; pfam13551 235909000725 Homeodomain-like domain; Region: HTH_32; pfam13565 235909000726 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 235909000727 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 235909000728 Major royal jelly protein; Region: MRJP; pfam03022 235909000729 Transposase; Region: DEDD_Tnp_IS110; pfam01548 235909000730 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 235909000731 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 235909000732 Helix-turn-helix domain; Region: HTH_28; pfam13518 235909000733 Homeodomain-like domain; Region: HTH_32; pfam13565 235909000734 Winged helix-turn helix; Region: HTH_33; pfam13592 235909000735 DDE superfamily endonuclease; Region: DDE_3; pfam13358 235909000736 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 235909000737 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 235909000738 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 235909000739 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 235909000740 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 235909000741 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 235909000742 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 235909000743 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 235909000744 active site 235909000745 CrcB-like protein; Region: CRCB; cl09114 235909000746 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 235909000747 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 235909000748 Transposase [DNA replication, recombination, and repair]; Region: COG5421 235909000749 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 235909000750 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 235909000751 dimer interface [polypeptide binding]; other site 235909000752 conserved gate region; other site 235909000753 putative PBP binding loops; other site 235909000754 ABC-ATPase subunit interface; other site 235909000755 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 235909000756 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 235909000757 dimer interface [polypeptide binding]; other site 235909000758 conserved gate region; other site 235909000759 ABC-ATPase subunit interface; other site 235909000760 uridine kinase; Provisional; Region: PRK07667 235909000761 active site 235909000762 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 235909000763 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 235909000764 salt bridge; other site 235909000765 non-specific DNA binding site [nucleotide binding]; other site 235909000766 sequence-specific DNA binding site [nucleotide binding]; other site 235909000767 Protein of unknown function (DUF817); Region: DUF817; pfam05675 235909000768 metal-dependent hydrolase; Provisional; Region: PRK13291 235909000769 DinB superfamily; Region: DinB_2; pfam12867 235909000770 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 235909000771 active site 235909000772 PAS fold; Region: PAS; pfam00989 235909000773 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 235909000774 putative active site [active] 235909000775 heme pocket [chemical binding]; other site 235909000776 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 235909000777 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 235909000778 Walker A motif; other site 235909000779 ATP binding site [chemical binding]; other site 235909000780 Walker B motif; other site 235909000781 arginine finger; other site 235909000782 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 235909000783 S-methylmethionine transporter; Provisional; Region: PRK11387 235909000784 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 235909000785 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 235909000786 Glutamate binding site [chemical binding]; other site 235909000787 homodimer interface [polypeptide binding]; other site 235909000788 NAD binding site [chemical binding]; other site 235909000789 catalytic residues [active] 235909000790 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 235909000791 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 235909000792 inhibitor-cofactor binding pocket; inhibition site 235909000793 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909000794 catalytic residue [active] 235909000795 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 235909000796 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 235909000797 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 235909000798 NAD(P) binding site [chemical binding]; other site 235909000799 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 235909000800 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 235909000801 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 235909000802 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 235909000803 dimer interface [polypeptide binding]; other site 235909000804 putative PBP binding regions; other site 235909000805 ABC-ATPase subunit interface; other site 235909000806 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 235909000807 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 235909000808 ABC-ATPase subunit interface; other site 235909000809 dimer interface [polypeptide binding]; other site 235909000810 putative PBP binding regions; other site 235909000811 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 235909000812 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 235909000813 putative ligand binding residues [chemical binding]; other site 235909000814 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 235909000815 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 235909000816 Walker A/P-loop; other site 235909000817 ATP binding site [chemical binding]; other site 235909000818 Q-loop/lid; other site 235909000819 ABC transporter signature motif; other site 235909000820 Walker B; other site 235909000821 D-loop; other site 235909000822 H-loop/switch region; other site 235909000823 FOG: CBS domain [General function prediction only]; Region: COG0517 235909000824 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 235909000825 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 235909000826 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 235909000827 putative active site [active] 235909000828 heme pocket [chemical binding]; other site 235909000829 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 235909000830 Walker A motif; other site 235909000831 ATP binding site [chemical binding]; other site 235909000832 Walker B motif; other site 235909000833 arginine finger; other site 235909000834 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 235909000835 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 235909000836 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 235909000837 active site 235909000838 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 235909000839 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 235909000840 NAD(P) binding site [chemical binding]; other site 235909000841 catalytic residues [active] 235909000842 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 235909000843 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 235909000844 active site 235909000845 metal binding site [ion binding]; metal-binding site 235909000846 Predicted membrane protein [Function unknown]; Region: COG2259 235909000847 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 235909000848 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 235909000849 catalytic residues [active] 235909000850 DinB family; Region: DinB; cl17821 235909000851 DinB superfamily; Region: DinB_2; pfam12867 235909000852 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 235909000853 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909000854 active site 235909000855 phosphorylation site [posttranslational modification] 235909000856 intermolecular recognition site; other site 235909000857 dimerization interface [polypeptide binding]; other site 235909000858 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 235909000859 DNA binding residues [nucleotide binding] 235909000860 dimerization interface [polypeptide binding]; other site 235909000861 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 235909000862 Histidine kinase; Region: HisKA_3; pfam07730 235909000863 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 235909000864 H-loop/switch region; other site 235909000865 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 235909000866 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 235909000867 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 235909000868 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 235909000869 active site 235909000870 metal binding site [ion binding]; metal-binding site 235909000871 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 235909000872 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 235909000873 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 235909000874 active site 235909000875 catalytic triad [active] 235909000876 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 235909000877 Sulfatase; Region: Sulfatase; pfam00884 235909000878 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 235909000879 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 235909000880 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 235909000881 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 235909000882 Domain of unknown function DUF; Region: DUF204; pfam02659 235909000883 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 235909000884 SpoOM protein; Region: Spo0M; pfam07070 235909000885 Spore coat protein [Cell envelope biogenesis, outer membrane]; Region: COG5577 235909000886 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 235909000887 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 235909000888 nucleotide binding site [chemical binding]; other site 235909000889 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 235909000890 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 235909000891 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 235909000892 active site 235909000893 homodimer interface [polypeptide binding]; other site 235909000894 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 235909000895 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 235909000896 NodB motif; other site 235909000897 putative active site [active] 235909000898 putative catalytic site [active] 235909000899 putative Zn binding site [ion binding]; other site 235909000900 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 235909000901 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 235909000902 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 235909000903 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 235909000904 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 235909000905 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 235909000906 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 235909000907 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 235909000908 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 235909000909 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 235909000910 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 235909000911 Esterase/lipase [General function prediction only]; Region: COG1647 235909000912 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 235909000913 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 235909000914 ATP binding site [chemical binding]; other site 235909000915 Mg++ binding site [ion binding]; other site 235909000916 motif III; other site 235909000917 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 235909000918 nucleotide binding region [chemical binding]; other site 235909000919 ATP-binding site [chemical binding]; other site 235909000920 Rhomboid family; Region: Rhomboid; pfam01694 235909000921 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 235909000922 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 235909000923 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 235909000924 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 235909000925 active site 235909000926 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 235909000927 dimer interface [polypeptide binding]; other site 235909000928 substrate binding site [chemical binding]; other site 235909000929 catalytic residues [active] 235909000930 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 235909000931 PemK-like protein; Region: PemK; pfam02452 235909000932 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 235909000933 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 235909000934 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 235909000935 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 235909000936 RNA binding site [nucleotide binding]; other site 235909000937 hypothetical protein; Provisional; Region: PRK04351 235909000938 SprT homologues; Region: SprT; cl01182 235909000939 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 235909000940 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 235909000941 Glycoprotease family; Region: Peptidase_M22; pfam00814 235909000942 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 235909000943 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 235909000944 Coenzyme A binding pocket [chemical binding]; other site 235909000945 UGMP family protein; Validated; Region: PRK09604 235909000946 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 235909000947 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 235909000948 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 235909000949 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 235909000950 ABC transporter; Region: ABC_tran_2; pfam12848 235909000951 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 235909000952 ABC transporter; Region: ABC_tran_2; pfam12848 235909000953 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 235909000954 trimer interface [polypeptide binding]; other site 235909000955 dimer interface [polypeptide binding]; other site 235909000956 putative active site [active] 235909000957 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 235909000958 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 235909000959 CoA binding domain; Region: CoA_binding; pfam02629 235909000960 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 235909000961 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 235909000962 Domain of unknown function (DUF4305); Region: DUF4305; pfam14146 235909000963 CAAX protease self-immunity; Region: Abi; pfam02517 235909000964 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 235909000965 oligomerisation interface [polypeptide binding]; other site 235909000966 mobile loop; other site 235909000967 roof hairpin; other site 235909000968 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 235909000969 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 235909000970 ring oligomerisation interface [polypeptide binding]; other site 235909000971 ATP/Mg binding site [chemical binding]; other site 235909000972 stacking interactions; other site 235909000973 hinge regions; other site 235909000974 fumarate hydratase; Reviewed; Region: fumC; PRK00485 235909000975 Class II fumarases; Region: Fumarase_classII; cd01362 235909000976 active site 235909000977 tetramer interface [polypeptide binding]; other site 235909000978 MoxR-like ATPases [General function prediction only]; Region: COG0714 235909000979 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 235909000980 Walker A motif; other site 235909000981 ATP binding site [chemical binding]; other site 235909000982 Walker B motif; other site 235909000983 arginine finger; other site 235909000984 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 235909000985 Protein of unknown function DUF58; Region: DUF58; pfam01882 235909000986 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 235909000987 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 235909000988 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 235909000989 GMP synthase; Reviewed; Region: guaA; PRK00074 235909000990 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 235909000991 AMP/PPi binding site [chemical binding]; other site 235909000992 candidate oxyanion hole; other site 235909000993 catalytic triad [active] 235909000994 potential glutamine specificity residues [chemical binding]; other site 235909000995 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 235909000996 ATP Binding subdomain [chemical binding]; other site 235909000997 Ligand Binding sites [chemical binding]; other site 235909000998 Dimerization subdomain; other site 235909000999 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 235909001000 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 235909001001 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 235909001002 putative dimer interface [polypeptide binding]; other site 235909001003 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 235909001004 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 235909001005 ATP-grasp domain; Region: ATP-grasp; pfam02222 235909001006 adenylosuccinate lyase; Provisional; Region: PRK07492 235909001007 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 235909001008 tetramer interface [polypeptide binding]; other site 235909001009 active site 235909001010 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 235909001011 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 235909001012 ATP binding site [chemical binding]; other site 235909001013 active site 235909001014 substrate binding site [chemical binding]; other site 235909001015 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 235909001016 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 235909001017 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 235909001018 putative active site [active] 235909001019 catalytic triad [active] 235909001020 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 235909001021 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 235909001022 dimerization interface [polypeptide binding]; other site 235909001023 ATP binding site [chemical binding]; other site 235909001024 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 235909001025 dimerization interface [polypeptide binding]; other site 235909001026 ATP binding site [chemical binding]; other site 235909001027 amidophosphoribosyltransferase; Provisional; Region: PRK07631 235909001028 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 235909001029 active site 235909001030 tetramer interface [polypeptide binding]; other site 235909001031 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 235909001032 active site 235909001033 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 235909001034 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 235909001035 dimerization interface [polypeptide binding]; other site 235909001036 putative ATP binding site [chemical binding]; other site 235909001037 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 235909001038 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 235909001039 active site 235909001040 substrate binding site [chemical binding]; other site 235909001041 cosubstrate binding site; other site 235909001042 catalytic site [active] 235909001043 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 235909001044 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 235909001045 purine monophosphate binding site [chemical binding]; other site 235909001046 dimer interface [polypeptide binding]; other site 235909001047 putative catalytic residues [active] 235909001048 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 235909001049 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 235909001050 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 235909001051 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 235909001052 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 235909001053 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 235909001054 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 235909001055 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 235909001056 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 235909001057 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 235909001058 active site 235909001059 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 235909001060 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 235909001061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4496 235909001062 PcrB family; Region: PcrB; pfam01884 235909001063 PcrB_like proteins. One member of this family, a protein from Archaeoglobus fulgidus, has been characterized as a (S)-3-O-geranylgeranylglyceryl phosphate synthase (AfGGGPS). AfGGGPS catalyzes the formation of an ether linkage between...; Region: PcrB_like; cd02812 235909001064 substrate binding site [chemical binding]; other site 235909001065 putative active site [active] 235909001066 dimer interface [polypeptide binding]; other site 235909001067 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 235909001068 Part of AAA domain; Region: AAA_19; pfam13245 235909001069 AAA domain; Region: AAA_12; pfam13087 235909001070 Family description; Region: UvrD_C_2; pfam13538 235909001071 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 235909001072 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 235909001073 nucleotide binding pocket [chemical binding]; other site 235909001074 K-X-D-G motif; other site 235909001075 catalytic site [active] 235909001076 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 235909001077 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 235909001078 Helix-hairpin-helix motif; Region: HHH; pfam00633 235909001079 helix-hairpin-helix signature motif; other site 235909001080 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 235909001081 Dimer interface [polypeptide binding]; other site 235909001082 Protein involved in sex pheromone biosynthesis [General function prediction only]; Region: CamS; COG4851 235909001083 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 235909001084 putative dimer interface [polypeptide binding]; other site 235909001085 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 235909001086 putative dimer interface [polypeptide binding]; other site 235909001087 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 235909001088 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 235909001089 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 235909001090 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 235909001091 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 235909001092 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 235909001093 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 235909001094 GatB domain; Region: GatB_Yqey; pfam02637 235909001095 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08248 235909001096 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 235909001097 homodimer interface [polypeptide binding]; other site 235909001098 substrate-cofactor binding pocket; other site 235909001099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909001100 catalytic residue [active] 235909001101 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 235909001102 Transposase; Region: DDE_Tnp_ISL3; pfam01610 235909001103 lantibiotic, gallidermin/nisin family; Region: lantibio_gallid; TIGR03731 235909001104 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 235909001105 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 235909001106 Walker A/P-loop; other site 235909001107 ATP binding site [chemical binding]; other site 235909001108 Q-loop/lid; other site 235909001109 ABC transporter signature motif; other site 235909001110 Walker B; other site 235909001111 D-loop; other site 235909001112 H-loop/switch region; other site 235909001113 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 235909001114 lantibiotic, gallidermin/nisin family; Region: lantibio_gallid; TIGR03731 235909001115 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467; cl01853 235909001116 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 235909001117 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 235909001118 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 235909001119 Homeodomain-like domain; Region: HTH_23; pfam13384 235909001120 Winged helix-turn helix; Region: HTH_29; pfam13551 235909001121 DDE superfamily endonuclease; Region: DDE_3; pfam13358 235909001122 Lantibiotic dehydratase, N terminus; Region: Lant_dehyd_N; pfam04737 235909001123 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 235909001124 Transposase [DNA replication, recombination, and repair]; Region: COG5421 235909001125 DDE superfamily endonuclease; Region: DDE_5; cl17874 235909001126 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 235909001127 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 235909001128 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 235909001129 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 235909001130 Walker A/P-loop; other site 235909001131 ATP binding site [chemical binding]; other site 235909001132 Q-loop/lid; other site 235909001133 ABC transporter signature motif; other site 235909001134 Walker B; other site 235909001135 D-loop; other site 235909001136 H-loop/switch region; other site 235909001137 Lanthionine synthetase C-like protein; Region: LANC_like; pfam05147 235909001138 LanC is the cyclase enzyme of the lanthionine synthetase. Lanthinoine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as precursor peptides and then post-translationally modified to contain thioether cross-links...; Region: LanC; cd04793 235909001139 active site 235909001140 zinc binding site [ion binding]; other site 235909001141 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 235909001142 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909001143 active site 235909001144 phosphorylation site [posttranslational modification] 235909001145 intermolecular recognition site; other site 235909001146 dimerization interface [polypeptide binding]; other site 235909001147 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 235909001148 DNA binding site [nucleotide binding] 235909001149 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 235909001150 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 235909001151 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 235909001152 dimer interface [polypeptide binding]; other site 235909001153 phosphorylation site [posttranslational modification] 235909001154 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909001155 ATP binding site [chemical binding]; other site 235909001156 Mg2+ binding site [ion binding]; other site 235909001157 G-X-G motif; other site 235909001158 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 235909001159 Transposase; Region: DDE_Tnp_ISL3; pfam01610 235909001160 lantibiotic protection ABC transporter permease subunit, MutG family; Region: lanti_perm_MutG; TIGR03733 235909001161 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 235909001162 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 235909001163 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 235909001164 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 235909001165 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 235909001166 Walker A/P-loop; other site 235909001167 ATP binding site [chemical binding]; other site 235909001168 Q-loop/lid; other site 235909001169 ABC transporter signature motif; other site 235909001170 Walker B; other site 235909001171 D-loop; other site 235909001172 H-loop/switch region; other site 235909001173 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 235909001174 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 235909001175 ABC-ATPase subunit interface; other site 235909001176 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 235909001177 glycine betaine/L-proline transport ATP binding subunit; Region: proV; TIGR01186 235909001178 Walker A/P-loop; other site 235909001179 ATP binding site [chemical binding]; other site 235909001180 Q-loop/lid; other site 235909001181 ABC transporter signature motif; other site 235909001182 Walker B; other site 235909001183 D-loop; other site 235909001184 H-loop/switch region; other site 235909001185 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 235909001186 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 235909001187 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 235909001188 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 235909001189 TIGR02677 family protein; Region: TIGR02677 235909001190 Protein of unknown function (DUF2397); Region: DUF2397; pfam09660 235909001191 TIGR02678 family protein; Region: TIGR02678 235909001192 TIGR02680 family protein; Region: TIGR02680 235909001193 P-loop containing region of AAA domain; Region: AAA_29; cl17516 235909001194 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 235909001195 TIGR02679 family protein; Region: TIGR02679 235909001196 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; cd00188 235909001197 active site 235909001198 metal binding site [ion binding]; metal-binding site 235909001199 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 235909001200 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 235909001201 homodimer interface [polypeptide binding]; other site 235909001202 homotetramer interface [polypeptide binding]; other site 235909001203 active site pocket [active] 235909001204 cleavage site 235909001205 drug efflux system protein MdtG; Provisional; Region: PRK09874 235909001206 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 235909001207 putative substrate translocation pore; other site 235909001208 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 235909001209 Predicted membrane protein [Function unknown]; Region: COG1511 235909001210 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 235909001211 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 235909001212 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 235909001213 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 235909001214 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 235909001215 dimer interface [polypeptide binding]; other site 235909001216 phosphorylation site [posttranslational modification] 235909001217 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909001218 ATP binding site [chemical binding]; other site 235909001219 Mg2+ binding site [ion binding]; other site 235909001220 G-X-G motif; other site 235909001221 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 235909001222 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909001223 active site 235909001224 phosphorylation site [posttranslational modification] 235909001225 intermolecular recognition site; other site 235909001226 dimerization interface [polypeptide binding]; other site 235909001227 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 235909001228 DNA binding site [nucleotide binding] 235909001229 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 235909001230 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 235909001231 protein binding site [polypeptide binding]; other site 235909001232 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 235909001233 Transposase; Region: DEDD_Tnp_IS110; pfam01548 235909001234 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 235909001235 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 235909001236 Protein of unknown function (DUF962); Region: DUF962; pfam06127 235909001237 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 235909001238 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 235909001239 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 235909001240 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 235909001241 putative lipid kinase; Reviewed; Region: PRK13337 235909001242 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 235909001243 TRAM domain; Region: TRAM; pfam01938 235909001244 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 235909001245 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 235909001246 S-adenosylmethionine binding site [chemical binding]; other site 235909001247 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 235909001248 HsdM N-terminal domain; Region: HsdM_N; pfam12161 235909001249 Methyltransferase domain; Region: Methyltransf_26; pfam13659 235909001250 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 235909001251 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 235909001252 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 235909001253 Transposase, Mutator family; Region: Transposase_mut; pfam00872 235909001254 MULE transposase domain; Region: MULE; pfam10551 235909001255 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 235909001256 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 235909001257 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 235909001258 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 235909001259 ATP binding site [chemical binding]; other site 235909001260 putative Mg++ binding site [ion binding]; other site 235909001261 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 235909001262 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 235909001263 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 235909001264 Winged helix-turn helix; Region: HTH_29; pfam13551 235909001265 Homeodomain-like domain; Region: HTH_32; pfam13565 235909001266 Integrase core domain; Region: rve; pfam00665 235909001267 Integrase core domain; Region: rve_3; pfam13683 235909001268 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 235909001269 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 235909001270 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 235909001271 Walker A motif; other site 235909001272 ATP binding site [chemical binding]; other site 235909001273 Walker B motif; other site 235909001274 arginine finger; other site 235909001275 Period protein 2/3C-terminal region; Region: Period_C; pfam12114 235909001276 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 235909001277 dimerization interface [polypeptide binding]; other site 235909001278 putative DNA binding site [nucleotide binding]; other site 235909001279 putative Zn2+ binding site [ion binding]; other site 235909001280 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 235909001281 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 235909001282 metal-binding site [ion binding] 235909001283 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 235909001284 Soluble P-type ATPase [General function prediction only]; Region: COG4087 235909001285 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 235909001286 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 235909001287 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 235909001288 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 235909001289 NADP binding site [chemical binding]; other site 235909001290 Predicted transcriptional regulator [Transcription]; Region: COG1959 235909001291 Transcriptional regulator; Region: Rrf2; pfam02082 235909001292 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 235909001293 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 235909001294 S-adenosylmethionine binding site [chemical binding]; other site 235909001295 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 235909001296 SpoOM protein; Region: Spo0M; pfam07070 235909001297 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 235909001298 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 235909001299 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 235909001300 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 235909001301 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 235909001302 active site 235909001303 Substrate binding site; other site 235909001304 Mg++ binding site; other site 235909001305 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 235909001306 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 235909001307 putative trimer interface [polypeptide binding]; other site 235909001308 putative CoA binding site [chemical binding]; other site 235909001309 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 235909001310 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 235909001311 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 235909001312 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 235909001313 active site 235909001314 substrate binding site [chemical binding]; other site 235909001315 metal binding site [ion binding]; metal-binding site 235909001316 Sensory domain found in PocR; Region: PocR; pfam10114 235909001317 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 235909001318 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 235909001319 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 235909001320 DNA binding residues [nucleotide binding] 235909001321 dimerization interface [polypeptide binding]; other site 235909001322 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 235909001323 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 235909001324 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 235909001325 anti sigma factor interaction site; other site 235909001326 regulatory phosphorylation site [posttranslational modification]; other site 235909001327 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 235909001328 PAS fold; Region: PAS_3; pfam08447 235909001329 putative active site [active] 235909001330 heme pocket [chemical binding]; other site 235909001331 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 235909001332 PAS domain; Region: PAS_9; pfam13426 235909001333 putative active site [active] 235909001334 heme pocket [chemical binding]; other site 235909001335 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 235909001336 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 235909001337 RDD family; Region: RDD; pfam06271 235909001338 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 235909001339 dimerization interface [polypeptide binding]; other site 235909001340 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 235909001341 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 235909001342 dimer interface [polypeptide binding]; other site 235909001343 putative CheW interface [polypeptide binding]; other site 235909001344 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 235909001345 ThiC-associated domain; Region: ThiC-associated; pfam13667 235909001346 ThiC family; Region: ThiC; pfam01964 235909001347 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 235909001348 Probable transposase; Region: OrfB_IS605; pfam01385 235909001349 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 235909001350 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 235909001351 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 235909001352 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909001353 homodimer interface [polypeptide binding]; other site 235909001354 catalytic residue [active] 235909001355 thiamine pyrophosphate protein; Validated; Region: PRK08199 235909001356 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 235909001357 PYR/PP interface [polypeptide binding]; other site 235909001358 dimer interface [polypeptide binding]; other site 235909001359 TPP binding site [chemical binding]; other site 235909001360 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 235909001361 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 235909001362 TPP-binding site [chemical binding]; other site 235909001363 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 235909001364 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 235909001365 NAD(P) binding site [chemical binding]; other site 235909001366 catalytic residues [active] 235909001367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 235909001368 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 235909001369 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 235909001370 putative substrate translocation pore; other site 235909001371 Major Facilitator Superfamily; Region: MFS_1; pfam07690 235909001372 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 235909001373 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 235909001374 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 235909001375 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 235909001376 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 235909001377 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 235909001378 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 235909001379 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 235909001380 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 235909001381 Ligand binding site; other site 235909001382 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 235909001383 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 235909001384 XdhC Rossmann domain; Region: XdhC_C; pfam13478 235909001385 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 235909001386 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 235909001387 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 235909001388 anti-terminator HutP; Provisional; Region: hutP; PRK03065 235909001389 RNA binding site [nucleotide binding]; other site 235909001390 hexamer interface [polypeptide binding]; other site 235909001391 Histidine-zinc binding site [chemical binding]; other site 235909001392 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 235909001393 active sites [active] 235909001394 tetramer interface [polypeptide binding]; other site 235909001395 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 235909001396 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 235909001397 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 235909001398 NAD binding site [chemical binding]; other site 235909001399 ligand binding site [chemical binding]; other site 235909001400 catalytic site [active] 235909001401 DDE superfamily endonuclease; Region: DDE_5; cl17874 235909001402 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 235909001403 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 235909001404 Putative amidase domain; Region: Amidase_6; pfam12671 235909001405 Uncharacterized conserved protein [Function unknown]; Region: COG1556 235909001406 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 235909001407 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 235909001408 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 235909001409 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 235909001410 Cysteine-rich domain; Region: CCG; pfam02754 235909001411 Cysteine-rich domain; Region: CCG; pfam02754 235909001412 Transcriptional regulators [Transcription]; Region: FadR; COG2186 235909001413 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 235909001414 DNA-binding site [nucleotide binding]; DNA binding site 235909001415 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 235909001416 L-lactate permease; Region: Lactate_perm; cl00701 235909001417 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 235909001418 rod shape-determining protein MreB; Provisional; Region: PRK13930 235909001419 MreB and similar proteins; Region: MreB_like; cd10225 235909001420 nucleotide binding site [chemical binding]; other site 235909001421 Mg binding site [ion binding]; other site 235909001422 putative protofilament interaction site [polypeptide binding]; other site 235909001423 RodZ interaction site [polypeptide binding]; other site 235909001424 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 235909001425 NlpC/P60 family; Region: NLPC_P60; pfam00877 235909001426 PAS domain S-box; Region: sensory_box; TIGR00229 235909001427 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 235909001428 putative active site [active] 235909001429 heme pocket [chemical binding]; other site 235909001430 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 235909001431 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 235909001432 metal binding site [ion binding]; metal-binding site 235909001433 active site 235909001434 I-site; other site 235909001435 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 235909001436 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 235909001437 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 235909001438 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 235909001439 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 235909001440 Probable transposase; Region: OrfB_IS605; pfam01385 235909001441 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 235909001442 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 235909001443 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 235909001444 bacillithiol biosynthesis deacetylase BshB2; Region: thiol_BshB2; TIGR04000 235909001445 Protein of unknown function (DUF1806); Region: DUF1806; pfam08830 235909001446 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 235909001447 active site 235909001448 metal binding site [ion binding]; metal-binding site 235909001449 acylphosphatase; Provisional; Region: PRK14420 235909001450 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 235909001451 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 235909001452 putative active site [active] 235909001453 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 235909001454 putative active site [active] 235909001455 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 235909001456 active site 235909001457 SAM binding site [chemical binding]; other site 235909001458 homodimer interface [polypeptide binding]; other site 235909001459 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 235909001460 ligand-binding site [chemical binding]; other site 235909001461 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 235909001462 ATP-sulfurylase; Region: ATPS; cd00517 235909001463 active site 235909001464 HXXH motif; other site 235909001465 flexible loop; other site 235909001466 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 235909001467 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 235909001468 Active Sites [active] 235909001469 Protein of unknown function (DUF1128); Region: DUF1128; pfam06569 235909001470 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 235909001471 Low molecular weight phosphatase family; Region: LMWPc; cd00115 235909001472 active site 235909001473 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 235909001474 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 235909001475 Major Facilitator Superfamily; Region: MFS_1; pfam07690 235909001476 putative substrate translocation pore; other site 235909001477 calcium/proton exchanger (cax); Region: cax; TIGR00378 235909001478 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 235909001479 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 235909001480 YfkD-like protein; Region: YfkD; pfam14167 235909001481 Radical SAM superfamily; Region: Radical_SAM; pfam04055 235909001482 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 235909001483 FeS/SAM binding site; other site 235909001484 YfkB-like domain; Region: YfkB; pfam08756 235909001485 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 235909001486 Fumarase C-terminus; Region: Fumerase_C; pfam05683 235909001487 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 235909001488 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 235909001489 NodB motif; other site 235909001490 active site 235909001491 catalytic site [active] 235909001492 Cd binding site [ion binding]; other site 235909001493 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 235909001494 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 235909001495 minor groove reading motif; other site 235909001496 helix-hairpin-helix signature motif; other site 235909001497 substrate binding pocket [chemical binding]; other site 235909001498 active site 235909001499 TRAM domain; Region: TRAM; pfam01938 235909001500 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 235909001501 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 235909001502 S-adenosylmethionine binding site [chemical binding]; other site 235909001503 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 235909001504 Predicted membrane protein [Function unknown]; Region: COG4758 235909001505 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 235909001506 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 235909001507 Histidine kinase; Region: HisKA_3; pfam07730 235909001508 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909001509 ATP binding site [chemical binding]; other site 235909001510 Mg2+ binding site [ion binding]; other site 235909001511 G-X-G motif; other site 235909001512 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 235909001513 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909001514 active site 235909001515 phosphorylation site [posttranslational modification] 235909001516 intermolecular recognition site; other site 235909001517 dimerization interface [polypeptide binding]; other site 235909001518 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 235909001519 DNA binding residues [nucleotide binding] 235909001520 dimerization interface [polypeptide binding]; other site 235909001521 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 235909001522 hypothetical protein; Validated; Region: PRK00029 235909001523 Uncharacterized conserved protein [Function unknown]; Region: COG0397 235909001524 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 235909001525 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 235909001526 DNA binding residues [nucleotide binding] 235909001527 dimer interface [polypeptide binding]; other site 235909001528 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 235909001529 Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818 235909001530 Uncharacterized conserved protein (DUF2294); Region: DUF2294; pfam10057 235909001531 NADH dehydrogenase subunit 5; Validated; Region: PRK08601 235909001532 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 235909001533 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 235909001534 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 235909001535 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 235909001536 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 235909001537 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 235909001538 active site 235909001539 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 235909001540 CoA-transferase family III; Region: CoA_transf_3; pfam02515 235909001541 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 235909001542 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 235909001543 Ligand binding site; other site 235909001544 metal-binding site 235909001545 YfhD-like protein; Region: YfhD; pfam14151 235909001546 YfhE-like protein; Region: YfhE; pfam14152 235909001547 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 235909001548 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 235909001549 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 235909001550 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 235909001551 putative NAD(P) binding site [chemical binding]; other site 235909001552 putative active site [active] 235909001553 recombination regulator RecX; Provisional; Region: recX; PRK14135 235909001554 Protein of unknown function (DUF1811); Region: DUF1811; pfam08838 235909001555 YpzG-like protein; Region: YpzG; pfam14139 235909001556 acid-soluble spore protein K; Provisional; Region: sspK; PRK03081 235909001557 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 235909001558 Uncharacterized conserved protein [Function unknown]; Region: COG2427 235909001559 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 235909001560 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 235909001561 catalytic loop [active] 235909001562 iron binding site [ion binding]; other site 235909001563 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 235909001564 4Fe-4S binding domain; Region: Fer4; pfam00037 235909001565 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 235909001566 [4Fe-4S] binding site [ion binding]; other site 235909001567 molybdopterin cofactor binding site; other site 235909001568 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 235909001569 molybdopterin cofactor binding site; other site 235909001570 Uncharacterized conserved protein (DUF2294); Region: DUF2294; pfam10057 235909001571 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 235909001572 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 235909001573 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 235909001574 putative substrate translocation pore; other site 235909001575 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 235909001576 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 235909001577 minor groove reading motif; other site 235909001578 helix-hairpin-helix signature motif; other site 235909001579 substrate binding pocket [chemical binding]; other site 235909001580 active site 235909001581 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 235909001582 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 235909001583 DNA binding and oxoG recognition site [nucleotide binding] 235909001584 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 235909001585 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 235909001586 putative NAD(P) binding site [chemical binding]; other site 235909001587 active site 235909001588 YgaB-like protein; Region: YgaB; pfam14182 235909001589 hypothetical protein; Provisional; Region: PRK13662 235909001590 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 235909001591 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 235909001592 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 235909001593 dimer interface [polypeptide binding]; other site 235909001594 conserved gate region; other site 235909001595 ABC-ATPase subunit interface; other site 235909001596 Predicted membrane protein [Function unknown]; Region: COG4129 235909001597 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 235909001598 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 235909001599 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 235909001600 inhibitor-cofactor binding pocket; inhibition site 235909001601 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909001602 catalytic residue [active] 235909001603 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 235909001604 ATP-binding cassette domain of an uncharacterized transporter similar in sequence to NatA; Region: ABC_NatA_like; cd03267 235909001605 Walker A/P-loop; other site 235909001606 ATP binding site [chemical binding]; other site 235909001607 Q-loop/lid; other site 235909001608 ABC transporter signature motif; other site 235909001609 Walker B; other site 235909001610 D-loop; other site 235909001611 H-loop/switch region; other site 235909001612 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 235909001613 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 235909001614 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 235909001615 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 235909001616 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 235909001617 tetramer (dimer of dimers) interface [polypeptide binding]; other site 235909001618 NAD binding site [chemical binding]; other site 235909001619 dimer interface [polypeptide binding]; other site 235909001620 substrate binding site [chemical binding]; other site 235909001621 Ion channel; Region: Ion_trans_2; pfam07885 235909001622 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 235909001623 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 235909001624 catalytic triad [active] 235909001625 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 235909001626 metal binding site 2 [ion binding]; metal-binding site 235909001627 putative DNA binding helix; other site 235909001628 metal binding site 1 [ion binding]; metal-binding site 235909001629 dimer interface [polypeptide binding]; other site 235909001630 structural Zn2+ binding site [ion binding]; other site 235909001631 Protein of unknown function (DUF2614); Region: DUF2614; pfam11023 235909001632 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 235909001633 B3/4 domain; Region: B3_4; pfam03483 235909001634 epoxyqueuosine reductase; Region: TIGR00276 235909001635 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 235909001636 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cl02500 235909001637 protein binding surface [polypeptide binding]; other site 235909001638 Putative amidase domain; Region: Amidase_6; pfam12671 235909001639 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 235909001640 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 235909001641 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 235909001642 sporulation protein YhbH; Region: spore_yhbH; TIGR02877 235909001643 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 235909001644 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 235909001645 catalytic residues [active] 235909001646 catalytic nucleophile [active] 235909001647 Recombinase; Region: Recombinase; pfam07508 235909001648 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 235909001649 Domain of unknown function (DUF955); Region: DUF955; pfam06114 235909001650 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 235909001651 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 235909001652 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 235909001653 non-specific DNA binding site [nucleotide binding]; other site 235909001654 salt bridge; other site 235909001655 sequence-specific DNA binding site [nucleotide binding]; other site 235909001656 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 235909001657 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 235909001658 non-specific DNA binding site [nucleotide binding]; other site 235909001659 salt bridge; other site 235909001660 sequence-specific DNA binding site [nucleotide binding]; other site 235909001661 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 235909001662 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 235909001663 non-specific DNA binding site [nucleotide binding]; other site 235909001664 salt bridge; other site 235909001665 sequence-specific DNA binding site [nucleotide binding]; other site 235909001666 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 235909001667 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 235909001668 non-specific DNA binding site [nucleotide binding]; other site 235909001669 salt bridge; other site 235909001670 sequence-specific DNA binding site [nucleotide binding]; other site 235909001671 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 235909001672 non-specific DNA binding site [nucleotide binding]; other site 235909001673 salt bridge; other site 235909001674 sequence-specific DNA binding site [nucleotide binding]; other site 235909001675 Predicted transcriptional regulator [Transcription]; Region: COG3355 235909001676 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 235909001677 Protein of unknown function (DUF3940); Region: DUF3940; pfam13076 235909001678 dUTPase; Region: dUTPase_2; pfam08761 235909001679 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 235909001680 active site 235909001681 homodimer interface [polypeptide binding]; other site 235909001682 metal binding site [ion binding]; metal-binding site 235909001683 Prophage antirepressor [Transcription]; Region: COG3617 235909001684 BRO family, N-terminal domain; Region: Bro-N; smart01040 235909001685 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 235909001686 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 235909001687 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 235909001688 active site 235909001689 DNA binding site [nucleotide binding] 235909001690 Int/Topo IB signature motif; other site 235909001691 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 235909001692 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 235909001693 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 235909001694 active site 235909001695 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 235909001696 Phage-related protein [Function unknown]; Region: COG4695 235909001697 Phage portal protein; Region: Phage_portal; pfam04860 235909001698 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 235909001699 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 235909001700 oligomer interface [polypeptide binding]; other site 235909001701 active site residues [active] 235909001702 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 235909001703 Phage capsid family; Region: Phage_capsid; pfam05065 235909001704 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 235909001705 oligomerization interface [polypeptide binding]; other site 235909001706 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 235909001707 phage protein, HK97 gp10 family; Region: phge_HK97_gp10; TIGR01725 235909001708 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 235909001709 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 235909001710 Phage tail protein; Region: Sipho_tail; pfam05709 235909001711 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 235909001712 FOG: WD40 repeat [General function prediction only]; Region: COG2319 235909001713 Holin family; Region: Phage_holin_4; pfam05105 235909001714 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 235909001715 amidase catalytic site [active] 235909001716 Zn binding residues [ion binding]; other site 235909001717 substrate binding site [chemical binding]; other site 235909001718 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 235909001719 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 235909001720 non-specific DNA binding site [nucleotide binding]; other site 235909001721 salt bridge; other site 235909001722 sequence-specific DNA binding site [nucleotide binding]; other site 235909001723 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 235909001724 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 235909001725 Replication-relaxation; Region: Replic_Relax; pfam13814 235909001726 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 235909001727 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 235909001728 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 235909001729 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909001730 active site 235909001731 phosphorylation site [posttranslational modification] 235909001732 intermolecular recognition site; other site 235909001733 dimerization interface [polypeptide binding]; other site 235909001734 HTH domain; Region: HTH_11; pfam08279 235909001735 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 235909001736 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 235909001737 putative active site [active] 235909001738 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909001739 ATP binding site [chemical binding]; other site 235909001740 Mg2+ binding site [ion binding]; other site 235909001741 G-X-G motif; other site 235909001742 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 235909001743 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 235909001744 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 235909001745 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 235909001746 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 235909001747 active site 235909001748 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 235909001749 catalytic tetrad [active] 235909001750 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 235909001751 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 235909001752 Domain of unknown function DUF21; Region: DUF21; pfam01595 235909001753 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 235909001754 Transporter associated domain; Region: CorC_HlyC; smart01091 235909001755 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 235909001756 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 235909001757 active site 235909001758 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 235909001759 catalytic residues [active] 235909001760 putative disulfide oxidoreductase; Provisional; Region: PRK03113 235909001761 FOG: CBS domain [General function prediction only]; Region: COG0517 235909001762 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 235909001763 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 235909001764 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 235909001765 active site 235909001766 substrate binding site [chemical binding]; other site 235909001767 metal binding site [ion binding]; metal-binding site 235909001768 YhdB-like protein; Region: YhdB; pfam14148 235909001769 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 235909001770 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 235909001771 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 235909001772 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 235909001773 Divergent AAA domain; Region: AAA_4; pfam04326 235909001774 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 235909001775 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 235909001776 Protein of unknown function with PCYCGC motif; Region: PCYCGC; pfam13798 235909001777 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 235909001778 Transposase; Region: DEDD_Tnp_IS110; pfam01548 235909001779 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 235909001780 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 235909001781 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 235909001782 dimerization interface [polypeptide binding]; other site 235909001783 putative DNA binding site [nucleotide binding]; other site 235909001784 putative Zn2+ binding site [ion binding]; other site 235909001785 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 235909001786 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 235909001787 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 235909001788 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 235909001789 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 235909001790 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 235909001791 dimerization interface [polypeptide binding]; other site 235909001792 putative DNA binding site [nucleotide binding]; other site 235909001793 putative Zn2+ binding site [ion binding]; other site 235909001794 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 235909001795 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 235909001796 metal-binding site [ion binding] 235909001797 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 235909001798 Soluble P-type ATPase [General function prediction only]; Region: COG4087 235909001799 Helix-turn-helix domain; Region: HTH_17; pfam12728 235909001800 Protein of unknown function (DUF972); Region: DUF972; pfam06156 235909001801 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 235909001802 dimerization interface [polypeptide binding]; other site 235909001803 putative DNA binding site [nucleotide binding]; other site 235909001804 putative Zn2+ binding site [ion binding]; other site 235909001805 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 235909001806 arsenical-resistance protein; Region: acr3; TIGR00832 235909001807 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 235909001808 Low molecular weight phosphatase family; Region: LMWPc; cd00115 235909001809 active site 235909001810 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 235909001811 MarR family; Region: MarR_2; pfam12802 235909001812 Predicted permease; Region: DUF318; cl17795 235909001813 Predicted permease; Region: DUF318; cl17795 235909001814 Methyltransferase domain; Region: Methyltransf_31; pfam13847 235909001815 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 235909001816 S-adenosylmethionine binding site [chemical binding]; other site 235909001817 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 235909001818 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 235909001819 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 235909001820 DHH family; Region: DHH; pfam01368 235909001821 DHHA1 domain; Region: DHHA1; pfam02272 235909001822 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 235909001823 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 235909001824 catalytic residues [active] 235909001825 catalytic nucleophile [active] 235909001826 Presynaptic Site I dimer interface [polypeptide binding]; other site 235909001827 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 235909001828 Synaptic Flat tetramer interface [polypeptide binding]; other site 235909001829 Recombinase; Region: Recombinase; pfam07508 235909001830 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 235909001831 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 235909001832 non-specific DNA binding site [nucleotide binding]; other site 235909001833 salt bridge; other site 235909001834 sequence-specific DNA binding site [nucleotide binding]; other site 235909001835 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 235909001836 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 235909001837 catalytic residues [active] 235909001838 catalytic nucleophile [active] 235909001839 Recombinase; Region: Recombinase; pfam07508 235909001840 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 235909001841 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 235909001842 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 235909001843 catalytic residues [active] 235909001844 catalytic nucleophile [active] 235909001845 Recombinase; Region: Recombinase; pfam07508 235909001846 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 235909001847 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 235909001848 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 235909001849 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 235909001850 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 235909001851 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 235909001852 carbon starvation protein A; Provisional; Region: PRK15015 235909001853 Carbon starvation protein CstA; Region: CstA; pfam02554 235909001854 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 235909001855 Protein of unknown function (DUF466); Region: DUF466; pfam04328 235909001856 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 235909001857 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 235909001858 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 235909001859 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 235909001860 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 235909001861 Ca binding site [ion binding]; other site 235909001862 active site 235909001863 catalytic site [active] 235909001864 metal-dependent hydrolase; Provisional; Region: PRK13291 235909001865 DinB superfamily; Region: DinB_2; pfam12867 235909001866 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 235909001867 major facilitator superfamily transporter; Provisional; Region: PRK05122 235909001868 putative substrate translocation pore; other site 235909001869 Putative transcription activator [Transcription]; Region: TenA; COG0819 235909001870 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 235909001871 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 235909001872 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 235909001873 Walker A/P-loop; other site 235909001874 ATP binding site [chemical binding]; other site 235909001875 Q-loop/lid; other site 235909001876 ABC transporter signature motif; other site 235909001877 Walker B; other site 235909001878 D-loop; other site 235909001879 H-loop/switch region; other site 235909001880 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 235909001881 Walker A/P-loop; other site 235909001882 ATP binding site [chemical binding]; other site 235909001883 Q-loop/lid; other site 235909001884 ABC transporter signature motif; other site 235909001885 Walker B; other site 235909001886 D-loop; other site 235909001887 H-loop/switch region; other site 235909001888 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 235909001889 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 235909001890 thiamine phosphate binding site [chemical binding]; other site 235909001891 active site 235909001892 pyrophosphate binding site [ion binding]; other site 235909001893 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 235909001894 hydroxyglutarate oxidase; Provisional; Region: PRK11728 235909001895 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 235909001896 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 235909001897 thiS-thiF/thiG interaction site; other site 235909001898 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 235909001899 ThiS interaction site; other site 235909001900 putative active site [active] 235909001901 tetramer interface [polypeptide binding]; other site 235909001902 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 235909001903 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 235909001904 ATP binding site [chemical binding]; other site 235909001905 substrate interface [chemical binding]; other site 235909001906 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 235909001907 Domain of unknown function DUF21; Region: DUF21; pfam01595 235909001908 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 235909001909 Transporter associated domain; Region: CorC_HlyC; smart01091 235909001910 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 235909001911 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 235909001912 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 235909001913 Walker A/P-loop; other site 235909001914 ATP binding site [chemical binding]; other site 235909001915 Q-loop/lid; other site 235909001916 ABC transporter signature motif; other site 235909001917 Walker B; other site 235909001918 D-loop; other site 235909001919 H-loop/switch region; other site 235909001920 TOBE domain; Region: TOBE; pfam03459 235909001921 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 235909001922 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 235909001923 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 235909001924 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 235909001925 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 235909001926 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 235909001927 hypothetical protein; Provisional; Region: PRK13676 235909001928 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 235909001929 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 235909001930 active site 235909001931 motif I; other site 235909001932 motif II; other site 235909001933 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 235909001934 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 235909001935 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 235909001936 FeS/SAM binding site; other site 235909001937 YhzD-like protein; Region: YhzD; pfam14120 235909001938 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 235909001939 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 235909001940 Walker A/P-loop; other site 235909001941 ATP binding site [chemical binding]; other site 235909001942 Q-loop/lid; other site 235909001943 ABC transporter signature motif; other site 235909001944 Walker B; other site 235909001945 D-loop; other site 235909001946 H-loop/switch region; other site 235909001947 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 235909001948 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 235909001949 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 235909001950 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 235909001951 generic binding surface II; other site 235909001952 generic binding surface I; other site 235909001953 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 235909001954 Zn2+ binding site [ion binding]; other site 235909001955 Mg2+ binding site [ion binding]; other site 235909001956 Sporulation protein YhaL; Region: Spore_YhaL; pfam14147 235909001957 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 235909001958 homodimer interface [polypeptide binding]; other site 235909001959 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 235909001960 substrate-cofactor binding pocket; other site 235909001961 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909001962 catalytic residue [active] 235909001963 transcriptional regulator Hpr; Provisional; Region: PRK13777 235909001964 MarR family; Region: MarR; pfam01047 235909001965 Protein of unknown function (DUF1878); Region: DUF1878; pfam08963 235909001966 similar to hypothetical protein 235909001967 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK02998 235909001968 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 235909001969 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 235909001970 HIT family signature motif; other site 235909001971 catalytic residue [active] 235909001972 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 235909001973 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 235909001974 Walker A/P-loop; other site 235909001975 ATP binding site [chemical binding]; other site 235909001976 Q-loop/lid; other site 235909001977 ABC transporter signature motif; other site 235909001978 Walker B; other site 235909001979 D-loop; other site 235909001980 H-loop/switch region; other site 235909001981 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 235909001982 Citrate transporter; Region: CitMHS; pfam03600 235909001983 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 235909001984 substrate binding site [chemical binding]; other site 235909001985 active site 235909001986 ferrochelatase; Provisional; Region: PRK12435 235909001987 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 235909001988 C-terminal domain interface [polypeptide binding]; other site 235909001989 active site 235909001990 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 235909001991 active site 235909001992 N-terminal domain interface [polypeptide binding]; other site 235909001993 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 235909001994 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 235909001995 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 235909001996 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 235909001997 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 235909001998 YhfH-like protein; Region: YhfH; pfam14149 235909001999 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 235909002000 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 235909002001 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 235909002002 acyl-activating enzyme (AAE) consensus motif; other site 235909002003 putative AMP binding site [chemical binding]; other site 235909002004 putative active site [active] 235909002005 putative CoA binding site [chemical binding]; other site 235909002006 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 235909002007 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 235909002008 zinc binding site [ion binding]; other site 235909002009 putative ligand binding site [chemical binding]; other site 235909002010 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 235909002011 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 235909002012 TM-ABC transporter signature motif; other site 235909002013 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 235909002014 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 235909002015 Walker A/P-loop; other site 235909002016 ATP binding site [chemical binding]; other site 235909002017 Q-loop/lid; other site 235909002018 ABC transporter signature motif; other site 235909002019 Walker B; other site 235909002020 D-loop; other site 235909002021 H-loop/switch region; other site 235909002022 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 235909002023 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 235909002024 homodimer interface [polypeptide binding]; other site 235909002025 substrate-cofactor binding pocket; other site 235909002026 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909002027 catalytic residue [active] 235909002028 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 235909002029 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 235909002030 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 235909002031 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 235909002032 Cu(I) binding site [ion binding]; other site 235909002033 isocitrate lyase; Provisional; Region: PRK15063 235909002034 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 235909002035 tetramer interface [polypeptide binding]; other site 235909002036 active site 235909002037 Mg2+/Mn2+ binding site [ion binding]; other site 235909002038 ComK protein; Region: ComK; pfam06338 235909002039 Uncharacterized conserved protein [Function unknown]; Region: COG0398 235909002040 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 235909002041 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 235909002042 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 235909002043 Catalytic site [active] 235909002044 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 235909002045 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 235909002046 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 235909002047 Part of AAA domain; Region: AAA_19; pfam13245 235909002048 Family description; Region: UvrD_C_2; pfam13538 235909002049 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 235909002050 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 235909002051 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 235909002052 active site 235909002053 metal binding site [ion binding]; metal-binding site 235909002054 DNA binding site [nucleotide binding] 235909002055 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 235909002056 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 235909002057 AAA domain; Region: AAA_23; pfam13476 235909002058 Walker A/P-loop; other site 235909002059 ATP binding site [chemical binding]; other site 235909002060 Q-loop/lid; other site 235909002061 ABC transporter signature motif; other site 235909002062 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 235909002063 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 235909002064 ABC transporter signature motif; other site 235909002065 Walker B; other site 235909002066 D-loop; other site 235909002067 H-loop/switch region; other site 235909002068 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 235909002069 Protein of unknown function (DUF2772); Region: DUF2772; pfam10970 235909002070 Spore germination protein GerPC; Region: GerPC; pfam10737 235909002071 Protein of unknown function (DUF2539); Region: DUF2539; pfam10803 235909002072 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 235909002073 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 235909002074 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 235909002075 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 235909002076 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 235909002077 acyl-activating enzyme (AAE) consensus motif; other site 235909002078 putative active site [active] 235909002079 AMP binding site [chemical binding]; other site 235909002080 putative CoA binding site [chemical binding]; other site 235909002081 Predicted membrane protein [Function unknown]; Region: COG2311 235909002082 Protein of unknown function (DUF418); Region: DUF418; cl12135 235909002083 Protein of unknown function (DUF418); Region: DUF418; pfam04235 235909002084 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 235909002085 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 235909002086 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 235909002087 hypothetical protein; Provisional; Region: PRK13673 235909002088 FIST N domain; Region: FIST; pfam08495 235909002089 FIST C domain; Region: FIST_C; pfam10442 235909002090 PAS domain S-box; Region: sensory_box; TIGR00229 235909002091 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 235909002092 putative active site [active] 235909002093 heme pocket [chemical binding]; other site 235909002094 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 235909002095 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 235909002096 metal binding site [ion binding]; metal-binding site 235909002097 active site 235909002098 I-site; other site 235909002099 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 235909002100 Protein of unknown function (DUF2777); Region: DUF2777; pfam10949 235909002101 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 235909002102 active site 235909002103 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 235909002104 dimer interface [polypeptide binding]; other site 235909002105 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 235909002106 Ligand Binding Site [chemical binding]; other site 235909002107 Molecular Tunnel; other site 235909002108 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 235909002109 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 235909002110 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 235909002111 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 235909002112 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 235909002113 homodimer interface [polypeptide binding]; other site 235909002114 maltodextrin glucosidase; Provisional; Region: PRK10785 235909002115 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 235909002116 active site 235909002117 homodimer interface [polypeptide binding]; other site 235909002118 catalytic site [active] 235909002119 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 235909002120 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 235909002121 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 235909002122 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 235909002123 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 235909002124 dimer interface [polypeptide binding]; other site 235909002125 conserved gate region; other site 235909002126 putative PBP binding loops; other site 235909002127 ABC-ATPase subunit interface; other site 235909002128 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 235909002129 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 235909002130 dimer interface [polypeptide binding]; other site 235909002131 conserved gate region; other site 235909002132 putative PBP binding loops; other site 235909002133 ABC-ATPase subunit interface; other site 235909002134 trehalose synthase; Region: treS_nterm; TIGR02456 235909002135 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 235909002136 active site 235909002137 catalytic site [active] 235909002138 Transcriptional regulators [Transcription]; Region: PurR; COG1609 235909002139 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 235909002140 DNA binding site [nucleotide binding] 235909002141 domain linker motif; other site 235909002142 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 235909002143 putative dimerization interface [polypeptide binding]; other site 235909002144 putative ligand binding site [chemical binding]; other site 235909002145 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 235909002146 Bacterial transcriptional regulator; Region: IclR; pfam01614 235909002147 PAS domain; Region: PAS; smart00091 235909002148 putative active site [active] 235909002149 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 235909002150 Walker A motif; other site 235909002151 ATP binding site [chemical binding]; other site 235909002152 Walker B motif; other site 235909002153 arginine finger; other site 235909002154 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 235909002155 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 235909002156 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 235909002157 tetramer interface [polypeptide binding]; other site 235909002158 TPP-binding site [chemical binding]; other site 235909002159 heterodimer interface [polypeptide binding]; other site 235909002160 phosphorylation loop region [posttranslational modification] 235909002161 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 235909002162 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 235909002163 alpha subunit interface [polypeptide binding]; other site 235909002164 TPP binding site [chemical binding]; other site 235909002165 heterodimer interface [polypeptide binding]; other site 235909002166 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 235909002167 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 235909002168 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 235909002169 E3 interaction surface; other site 235909002170 lipoyl attachment site [posttranslational modification]; other site 235909002171 e3 binding domain; Region: E3_binding; pfam02817 235909002172 e3 binding domain; Region: E3_binding; pfam02817 235909002173 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 235909002174 short chain dehydrogenase; Provisional; Region: PRK06701 235909002175 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 235909002176 NAD binding site [chemical binding]; other site 235909002177 metal binding site [ion binding]; metal-binding site 235909002178 active site 235909002179 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 235909002180 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 235909002181 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 235909002182 substrate binding pocket [chemical binding]; other site 235909002183 dimer interface [polypeptide binding]; other site 235909002184 inhibitor binding site; inhibition site 235909002185 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 235909002186 B12 binding site [chemical binding]; other site 235909002187 cobalt ligand [ion binding]; other site 235909002188 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 235909002189 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 235909002190 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 235909002191 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 235909002192 FAD binding site [chemical binding]; other site 235909002193 Double zinc ribbon; Region: DZR; pfam12773 235909002194 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 235909002195 Bacteriocin class IId cyclical uberolysin-like; Region: Bacteriocin_IId; pfam09221 235909002196 Integral membrane protein DUF95; Region: DUF95; pfam01944 235909002197 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 235909002198 heme ABC exporter, ATP-binding protein CcmA; Region: ccmA; TIGR01189 235909002199 Walker A/P-loop; other site 235909002200 ATP binding site [chemical binding]; other site 235909002201 Q-loop/lid; other site 235909002202 ABC transporter signature motif; other site 235909002203 Walker B; other site 235909002204 D-loop; other site 235909002205 H-loop/switch region; other site 235909002206 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 235909002207 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 235909002208 Walker A/P-loop; other site 235909002209 ATP binding site [chemical binding]; other site 235909002210 Q-loop/lid; other site 235909002211 ABC transporter signature motif; other site 235909002212 Walker B; other site 235909002213 D-loop; other site 235909002214 H-loop/switch region; other site 235909002215 TOBE domain; Region: TOBE_2; pfam08402 235909002216 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 235909002217 dimer interface [polypeptide binding]; other site 235909002218 conserved gate region; other site 235909002219 putative PBP binding loops; other site 235909002220 ABC-ATPase subunit interface; other site 235909002221 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 235909002222 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 235909002223 dimer interface [polypeptide binding]; other site 235909002224 conserved gate region; other site 235909002225 putative PBP binding loops; other site 235909002226 ABC-ATPase subunit interface; other site 235909002227 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 235909002228 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 235909002229 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 235909002230 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 235909002231 putative active site [active] 235909002232 metal binding site [ion binding]; metal-binding site 235909002233 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 235909002234 GAF domain; Region: GAF_3; pfam13492 235909002235 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 235909002236 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 235909002237 dimer interface [polypeptide binding]; other site 235909002238 phosphorylation site [posttranslational modification] 235909002239 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909002240 ATP binding site [chemical binding]; other site 235909002241 Mg2+ binding site [ion binding]; other site 235909002242 G-X-G motif; other site 235909002243 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 235909002244 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909002245 active site 235909002246 phosphorylation site [posttranslational modification] 235909002247 intermolecular recognition site; other site 235909002248 dimerization interface [polypeptide binding]; other site 235909002249 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 235909002250 Walker A motif; other site 235909002251 ATP binding site [chemical binding]; other site 235909002252 Walker B motif; other site 235909002253 arginine finger; other site 235909002254 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 235909002255 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 235909002256 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 235909002257 NAD(P) binding site [chemical binding]; other site 235909002258 catalytic residues [active] 235909002259 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 235909002260 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 235909002261 NAD binding site [chemical binding]; other site 235909002262 substrate binding site [chemical binding]; other site 235909002263 catalytic Zn binding site [ion binding]; other site 235909002264 tetramer interface [polypeptide binding]; other site 235909002265 structural Zn binding site [ion binding]; other site 235909002266 Protein of unknown function (DUF1572); Region: DUF1572; pfam07609 235909002267 DinB superfamily; Region: DinB_2; pfam12867 235909002268 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 235909002269 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 235909002270 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 235909002271 Walker A/P-loop; other site 235909002272 ATP binding site [chemical binding]; other site 235909002273 Q-loop/lid; other site 235909002274 ABC transporter signature motif; other site 235909002275 Walker B; other site 235909002276 D-loop; other site 235909002277 H-loop/switch region; other site 235909002278 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 235909002279 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 235909002280 DNA-binding site [nucleotide binding]; DNA binding site 235909002281 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 235909002282 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909002283 homodimer interface [polypeptide binding]; other site 235909002284 catalytic residue [active] 235909002285 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 235909002286 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 235909002287 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 235909002288 B3/4 domain; Region: B3_4; pfam03483 235909002289 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 235909002290 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 235909002291 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 235909002292 Fic family protein [Function unknown]; Region: COG3177 235909002293 Fic/DOC family; Region: Fic; pfam02661 235909002294 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 235909002295 EDD domain protein, DegV family; Region: DegV; TIGR00762 235909002296 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 235909002297 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 235909002298 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 235909002299 motif II; other site 235909002300 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 235909002301 esterase; Provisional; Region: PRK10566 235909002302 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 235909002303 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 235909002304 dimerization interface [polypeptide binding]; other site 235909002305 putative DNA binding site [nucleotide binding]; other site 235909002306 putative Zn2+ binding site [ion binding]; other site 235909002307 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 235909002308 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 235909002309 metal-binding site [ion binding] 235909002310 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 235909002311 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 235909002312 motif II; other site 235909002313 Fic family protein [Function unknown]; Region: COG3177 235909002314 Fic/DOC family; Region: Fic; pfam02661 235909002315 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 235909002316 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 235909002317 CPxP motif; other site 235909002318 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 235909002319 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 235909002320 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 235909002321 ligand binding site [chemical binding]; other site 235909002322 flexible hinge region; other site 235909002323 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 235909002324 non-specific DNA interactions [nucleotide binding]; other site 235909002325 DNA binding site [nucleotide binding] 235909002326 sequence specific DNA binding site [nucleotide binding]; other site 235909002327 putative cAMP binding site [chemical binding]; other site 235909002328 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 235909002329 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 235909002330 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 235909002331 D-pathway; other site 235909002332 Low-spin heme binding site [chemical binding]; other site 235909002333 MAEBL; Provisional; Region: PTZ00121 235909002334 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 235909002335 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 235909002336 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 235909002337 GTP binding site; other site 235909002338 radical SAM protein, BA_1875 family; Region: sam_11; TIGR04053 235909002339 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 235909002340 FeS/SAM binding site; other site 235909002341 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 235909002342 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 235909002343 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 235909002344 putative substrate translocation pore; other site 235909002345 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 235909002346 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 235909002347 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 235909002348 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 235909002349 ligand binding site [chemical binding]; other site 235909002350 flexible hinge region; other site 235909002351 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 235909002352 putative switch regulator; other site 235909002353 non-specific DNA interactions [nucleotide binding]; other site 235909002354 DNA binding site [nucleotide binding] 235909002355 sequence specific DNA binding site [nucleotide binding]; other site 235909002356 putative cAMP binding site [chemical binding]; other site 235909002357 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 235909002358 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 235909002359 putative PBP binding loops; other site 235909002360 dimer interface [polypeptide binding]; other site 235909002361 ABC-ATPase subunit interface; other site 235909002362 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 235909002363 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 235909002364 FeS/SAM binding site; other site 235909002365 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 235909002366 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 235909002367 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 235909002368 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 235909002369 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 235909002370 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 235909002371 dimer interface [polypeptide binding]; other site 235909002372 putative functional site; other site 235909002373 putative MPT binding site; other site 235909002374 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 235909002375 Walker A motif; other site 235909002376 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 235909002377 MoaE homodimer interface [polypeptide binding]; other site 235909002378 MoaD interaction [polypeptide binding]; other site 235909002379 active site residues [active] 235909002380 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 235909002381 MoaE interaction surface [polypeptide binding]; other site 235909002382 MoeB interaction surface [polypeptide binding]; other site 235909002383 thiocarboxylated glycine; other site 235909002384 YwiC-like protein; Region: YwiC; pfam14256 235909002385 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 235909002386 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 235909002387 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 235909002388 Winged helix-turn helix; Region: HTH_29; pfam13551 235909002389 Homeodomain-like domain; Region: HTH_32; pfam13565 235909002390 Integrase core domain; Region: rve; pfam00665 235909002391 Integrase core domain; Region: rve_3; pfam13683 235909002392 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 235909002393 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 235909002394 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 235909002395 Walker A motif; other site 235909002396 ATP binding site [chemical binding]; other site 235909002397 Walker B motif; other site 235909002398 arginine finger; other site 235909002399 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 235909002400 RHS Repeat; Region: RHS_repeat; cl11982 235909002401 RHS Repeat; Region: RHS_repeat; cl11982 235909002402 RHS protein; Region: RHS; pfam03527 235909002403 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 235909002404 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 235909002405 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 235909002406 non-specific DNA binding site [nucleotide binding]; other site 235909002407 salt bridge; other site 235909002408 sequence-specific DNA binding site [nucleotide binding]; other site 235909002409 Integrase core domain; Region: rve; pfam00665 235909002410 transposase/IS protein; Provisional; Region: PRK09183 235909002411 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 235909002412 Walker A motif; other site 235909002413 ATP binding site [chemical binding]; other site 235909002414 Walker B motif; other site 235909002415 arginine finger; other site 235909002416 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 235909002417 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 235909002418 Transposase; Region: DDE_Tnp_ISL3; pfam01610 235909002419 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 235909002420 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 235909002421 ligand binding site [chemical binding]; other site 235909002422 flexible hinge region; other site 235909002423 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 235909002424 putative switch regulator; other site 235909002425 non-specific DNA interactions [nucleotide binding]; other site 235909002426 DNA binding site [nucleotide binding] 235909002427 sequence specific DNA binding site [nucleotide binding]; other site 235909002428 putative cAMP binding site [chemical binding]; other site 235909002429 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 235909002430 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 235909002431 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 235909002432 heterotetramer interface [polypeptide binding]; other site 235909002433 active site pocket [active] 235909002434 cleavage site 235909002435 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 235909002436 nucleotide binding site [chemical binding]; other site 235909002437 N-acetyl-L-glutamate binding site [chemical binding]; other site 235909002438 acetylornithine aminotransferase; Provisional; Region: argD; PRK02936 235909002439 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 235909002440 inhibitor-cofactor binding pocket; inhibition site 235909002441 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909002442 catalytic residue [active] 235909002443 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 235909002444 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 235909002445 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 235909002446 catalytic site [active] 235909002447 subunit interface [polypeptide binding]; other site 235909002448 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK12815 235909002449 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 235909002450 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 235909002451 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 235909002452 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 235909002453 ATP-grasp domain; Region: ATP-grasp_4; cl17255 235909002454 ornithine carbamoyltransferase; Provisional; Region: PRK00779 235909002455 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 235909002456 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 235909002457 YjzC-like protein; Region: YjzC; pfam14168 235909002458 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 235909002459 Clp amino terminal domain; Region: Clp_N; pfam02861 235909002460 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 235909002461 Walker A motif; other site 235909002462 ATP binding site [chemical binding]; other site 235909002463 Walker B motif; other site 235909002464 arginine finger; other site 235909002465 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 235909002466 Walker A motif; other site 235909002467 ATP binding site [chemical binding]; other site 235909002468 Walker B motif; other site 235909002469 arginine finger; other site 235909002470 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 235909002471 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 235909002472 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 235909002473 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 235909002474 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 235909002475 dimer interface [polypeptide binding]; other site 235909002476 active site 235909002477 CoA binding pocket [chemical binding]; other site 235909002478 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 235909002479 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 235909002480 dimer interface [polypeptide binding]; other site 235909002481 active site 235909002482 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; pfam10026 235909002483 Protein of unknown function (DUF3603); Region: DUF3603; pfam12227 235909002484 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 235909002485 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 235909002486 active site 235909002487 HIGH motif; other site 235909002488 dimer interface [polypeptide binding]; other site 235909002489 KMSKS motif; other site 235909002490 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 235909002491 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 235909002492 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 235909002493 peptide binding site [polypeptide binding]; other site 235909002494 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 235909002495 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 235909002496 dimer interface [polypeptide binding]; other site 235909002497 conserved gate region; other site 235909002498 putative PBP binding loops; other site 235909002499 ABC-ATPase subunit interface; other site 235909002500 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 235909002501 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 235909002502 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 235909002503 dimer interface [polypeptide binding]; other site 235909002504 conserved gate region; other site 235909002505 putative PBP binding loops; other site 235909002506 ABC-ATPase subunit interface; other site 235909002507 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 235909002508 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 235909002509 Walker A/P-loop; other site 235909002510 ATP binding site [chemical binding]; other site 235909002511 Q-loop/lid; other site 235909002512 ABC transporter signature motif; other site 235909002513 Walker B; other site 235909002514 D-loop; other site 235909002515 H-loop/switch region; other site 235909002516 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 235909002517 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 235909002518 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 235909002519 Walker A/P-loop; other site 235909002520 ATP binding site [chemical binding]; other site 235909002521 Q-loop/lid; other site 235909002522 ABC transporter signature motif; other site 235909002523 Walker B; other site 235909002524 D-loop; other site 235909002525 H-loop/switch region; other site 235909002526 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 235909002527 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 235909002528 ArsC family; Region: ArsC; pfam03960 235909002529 putative catalytic residues [active] 235909002530 thiol/disulfide switch; other site 235909002531 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 235909002532 adaptor protein; Provisional; Region: PRK02315 235909002533 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 235909002534 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 235909002535 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 235909002536 putative active site [active] 235909002537 catalytic site [active] 235909002538 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 235909002539 putative active site [active] 235909002540 catalytic site [active] 235909002541 Competence protein CoiA-like family; Region: CoiA; cl11541 235909002542 oligoendopeptidase F; Region: pepF; TIGR00181 235909002543 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 235909002544 active site 235909002545 Zn binding site [ion binding]; other site 235909002546 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 235909002547 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 235909002548 catalytic residues [active] 235909002549 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 235909002550 apolar tunnel; other site 235909002551 heme binding site [chemical binding]; other site 235909002552 dimerization interface [polypeptide binding]; other site 235909002553 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 235909002554 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 235909002555 N-acetyl-D-glucosamine binding site [chemical binding]; other site 235909002556 catalytic residue [active] 235909002557 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 235909002558 putative active site [active] 235909002559 putative metal binding residues [ion binding]; other site 235909002560 signature motif; other site 235909002561 putative triphosphate binding site [ion binding]; other site 235909002562 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 235909002563 synthetase active site [active] 235909002564 NTP binding site [chemical binding]; other site 235909002565 metal binding site [ion binding]; metal-binding site 235909002566 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 235909002567 ATP-NAD kinase; Region: NAD_kinase; pfam01513 235909002568 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 235909002569 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 235909002570 active site 235909002571 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 235909002572 Bacillus subtilis PrpE and related proteins, metallophosphatase domain; Region: MPP_PrpE; cd07423 235909002573 active site 235909002574 metal binding site [ion binding]; metal-binding site 235909002575 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 235909002576 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08594 235909002577 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 235909002578 NAD binding site [chemical binding]; other site 235909002579 homotetramer interface [polypeptide binding]; other site 235909002580 homodimer interface [polypeptide binding]; other site 235909002581 substrate binding site [chemical binding]; other site 235909002582 active site 235909002583 Spore coat protein CotO; Region: Spore_coat_CotO; pfam14153 235909002584 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 235909002585 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 235909002586 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 235909002587 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 235909002588 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 235909002589 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 235909002590 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 235909002591 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 235909002592 NAD(P) binding site [chemical binding]; other site 235909002593 active site 235909002594 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 235909002595 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 235909002596 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 235909002597 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 235909002598 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 235909002599 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 235909002600 putative ADP-binding pocket [chemical binding]; other site 235909002601 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 235909002602 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 235909002603 active site 235909002604 ATP binding site [chemical binding]; other site 235909002605 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 235909002606 active site 235909002607 ATP binding site [chemical binding]; other site 235909002608 Protein of unknown function (DUF1360); Region: DUF1360; pfam07098 235909002609 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 235909002610 Bacteriophage holin; Region: Phage_holin_1; cl02344 235909002611 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 235909002612 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 235909002613 stage V sporulation protein AC; Region: spore_V_AC; TIGR02838 235909002614 stage V sporulation protein AD; Provisional; Region: PRK12404 235909002615 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 235909002616 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 235909002617 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 235909002618 Predicted membrane protein [Function unknown]; Region: COG2323 235909002619 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 235909002620 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 235909002621 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 235909002622 catalytic residues [active] 235909002623 Stage VI sporulation protein F; Region: SpoVIF; pfam14069 235909002624 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 235909002625 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 235909002626 Coenzyme A binding pocket [chemical binding]; other site 235909002627 hypothetical protein; Provisional; Region: PRK13679 235909002628 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 235909002629 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 235909002630 Putative esterase; Region: Esterase; pfam00756 235909002631 cystathionine gamma-synthase; Reviewed; Region: PRK08247 235909002632 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 235909002633 homodimer interface [polypeptide binding]; other site 235909002634 substrate-cofactor binding pocket; other site 235909002635 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909002636 catalytic residue [active] 235909002637 cystathionine beta-lyase; Provisional; Region: PRK08064 235909002638 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 235909002639 homodimer interface [polypeptide binding]; other site 235909002640 substrate-cofactor binding pocket; other site 235909002641 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909002642 catalytic residue [active] 235909002643 Sm and related proteins; Region: Sm_like; cl00259 235909002644 heptamer interface [polypeptide binding]; other site 235909002645 Sm1 motif; other site 235909002646 hexamer interface [polypeptide binding]; other site 235909002647 RNA binding site [nucleotide binding]; other site 235909002648 Sm2 motif; other site 235909002649 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 235909002650 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 235909002651 active site 235909002652 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 235909002653 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 235909002654 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 235909002655 Drosophila ACP53EA protein; Region: ACP53EA; pfam06313 235909002656 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 235909002657 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 235909002658 DNA-binding interface [nucleotide binding]; DNA binding site 235909002659 Transposase, Mutator family; Region: Transposase_mut; pfam00872 235909002660 MULE transposase domain; Region: MULE; pfam10551 235909002661 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 235909002662 Homeodomain-like domain; Region: HTH_32; pfam13565 235909002663 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 235909002664 Integrase core domain; Region: rve; pfam00665 235909002665 Integrase core domain; Region: rve_3; pfam13683 235909002666 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 235909002667 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 235909002668 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 235909002669 Walker A motif; other site 235909002670 ATP binding site [chemical binding]; other site 235909002671 Walker B motif; other site 235909002672 arginine finger; other site 235909002673 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 235909002674 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 235909002675 catalytic residues [active] 235909002676 catalytic nucleophile [active] 235909002677 Recombinase; Region: Recombinase; pfam07508 235909002678 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 235909002679 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 235909002680 AAA domain; Region: AAA_13; pfam13166 235909002681 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 235909002682 ABC transporter signature motif; other site 235909002683 Walker B; other site 235909002684 D-loop; other site 235909002685 H-loop/switch region; other site 235909002686 Predicted membrane protein [Function unknown]; Region: COG2261 235909002687 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 235909002688 Transposase [DNA replication, recombination, and repair]; Region: COG5421 235909002689 Transposase [DNA replication, recombination, and repair]; Region: COG5421 235909002690 gp58-like protein; Region: Gp58; pfam07902 235909002691 Predicted membrane protein [Function unknown]; Region: COG2855 235909002692 Transcriptional regulator [Transcription]; Region: LysR; COG0583 235909002693 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 235909002694 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 235909002695 putative dimerization interface [polypeptide binding]; other site 235909002696 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 235909002697 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 235909002698 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 235909002699 iron-sulfur cluster [ion binding]; other site 235909002700 [2Fe-2S] cluster binding site [ion binding]; other site 235909002701 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 235909002702 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 235909002703 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 235909002704 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 235909002705 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 235909002706 BNR repeat-like domain; Region: BNR_2; pfam13088 235909002707 Family description; Region: DsbD_2; pfam13386 235909002708 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 235909002709 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 235909002710 catalytic residues [active] 235909002711 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 235909002712 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 235909002713 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cl00846 235909002714 putative homodimer interface [polypeptide binding]; other site 235909002715 putative homotetramer interface [polypeptide binding]; other site 235909002716 putative allosteric switch controlling residues; other site 235909002717 putative metal binding site [ion binding]; other site 235909002718 putative homodimer-homodimer interface [polypeptide binding]; other site 235909002719 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 235909002720 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 235909002721 metal-binding site [ion binding] 235909002722 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 235909002723 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 235909002724 metal-binding site [ion binding] 235909002725 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 235909002726 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 235909002727 motif II; other site 235909002728 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 235909002729 metal-binding site [ion binding] 235909002730 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 235909002731 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 235909002732 Multicopper oxidase; Region: Cu-oxidase; pfam00394 235909002733 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 235909002734 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 235909002735 putative active site [active] 235909002736 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 235909002737 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 235909002738 active site 235909002739 dimer interface [polypeptide binding]; other site 235909002740 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 235909002741 Ligand Binding Site [chemical binding]; other site 235909002742 Molecular Tunnel; other site 235909002743 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 235909002744 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 235909002745 dimer interface [polypeptide binding]; other site 235909002746 phosphorylation site [posttranslational modification] 235909002747 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909002748 ATP binding site [chemical binding]; other site 235909002749 Mg2+ binding site [ion binding]; other site 235909002750 G-X-G motif; other site 235909002751 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 235909002752 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909002753 active site 235909002754 phosphorylation site [posttranslational modification] 235909002755 intermolecular recognition site; other site 235909002756 dimerization interface [polypeptide binding]; other site 235909002757 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 235909002758 DNA binding site [nucleotide binding] 235909002759 ABC-2 type transporter; Region: ABC2_membrane; cl17235 235909002760 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 235909002761 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 235909002762 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 235909002763 Walker A/P-loop; other site 235909002764 ATP binding site [chemical binding]; other site 235909002765 Q-loop/lid; other site 235909002766 ABC transporter signature motif; other site 235909002767 Walker B; other site 235909002768 D-loop; other site 235909002769 H-loop/switch region; other site 235909002770 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 235909002771 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09209 235909002772 Class I ribonucleotide reductase; Region: RNR_I; cd01679 235909002773 active site 235909002774 dimer interface [polypeptide binding]; other site 235909002775 catalytic residues [active] 235909002776 effector binding site; other site 235909002777 R2 peptide binding site; other site 235909002778 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 235909002779 dimer interface [polypeptide binding]; other site 235909002780 putative radical transfer pathway; other site 235909002781 diiron center [ion binding]; other site 235909002782 tyrosyl radical; other site 235909002783 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 235909002784 Zn2+ binding site [ion binding]; other site 235909002785 Mg2+ binding site [ion binding]; other site 235909002786 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 235909002787 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 235909002788 catalytic loop [active] 235909002789 iron binding site [ion binding]; other site 235909002790 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 235909002791 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 235909002792 FAD binding domain; Region: FAD_binding_4; pfam01565 235909002793 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 235909002794 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 235909002795 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 235909002796 Diacylglycerol kinase accessory domain; Region: DAGK_acc; cl02440 235909002797 Uncharacterized conserved protein [Function unknown]; Region: COG2966 235909002798 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 235909002799 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 235909002800 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 235909002801 M20 Peptidase Aminoacylase 1 amhX_like subfamily; Region: M20_Acy1_amhX_like; cd08018 235909002802 amidohydrolase; Region: amidohydrolases; TIGR01891 235909002803 metal binding site [ion binding]; metal-binding site 235909002804 putative dimer interface [polypeptide binding]; other site 235909002805 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 235909002806 Coenzyme A binding pocket [chemical binding]; other site 235909002807 N-acylamino acid racemase (NAAAR), an octameric enzyme that catalyzes the racemization of N-acylamino acids. NAAARs act on a broad range of N-acylamino acids rather than amino acids. Enantiopure amino acids are of industrial interest as chiral building...; Region: NAAAR; cd03317 235909002808 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 235909002809 active site 235909002810 octamer interface [polypeptide binding]; other site 235909002811 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 235909002812 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 235909002813 Coenzyme A binding pocket [chemical binding]; other site 235909002814 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 235909002815 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 235909002816 Na binding site [ion binding]; other site 235909002817 Protein of unknown function, DUF485; Region: DUF485; pfam04341 235909002818 amino acid transporter; Region: 2A0306; TIGR00909 235909002819 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 235909002820 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 235909002821 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 235909002822 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 235909002823 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 235909002824 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 235909002825 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 235909002826 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 235909002827 Major Facilitator Superfamily; Region: MFS_1; pfam07690 235909002828 putative substrate translocation pore; other site 235909002829 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 235909002830 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 235909002831 NAD binding site [chemical binding]; other site 235909002832 catalytic Zn binding site [ion binding]; other site 235909002833 structural Zn binding site [ion binding]; other site 235909002834 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 235909002835 Radical SAM superfamily; Region: Radical_SAM; pfam04055 235909002836 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 235909002837 FeS/SAM binding site; other site 235909002838 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 235909002839 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 235909002840 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 235909002841 putative active site [active] 235909002842 heme pocket [chemical binding]; other site 235909002843 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 235909002844 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 235909002845 putative active site [active] 235909002846 heme pocket [chemical binding]; other site 235909002847 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 235909002848 putative active site [active] 235909002849 heme pocket [chemical binding]; other site 235909002850 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 235909002851 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 235909002852 putative active site [active] 235909002853 heme pocket [chemical binding]; other site 235909002854 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 235909002855 dimer interface [polypeptide binding]; other site 235909002856 phosphorylation site [posttranslational modification] 235909002857 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909002858 ATP binding site [chemical binding]; other site 235909002859 Mg2+ binding site [ion binding]; other site 235909002860 G-X-G motif; other site 235909002861 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 235909002862 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 235909002863 DNA binding site [nucleotide binding] 235909002864 active site 235909002865 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 235909002866 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 235909002867 TM-ABC transporter signature motif; other site 235909002868 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 235909002869 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 235909002870 Walker A/P-loop; other site 235909002871 ATP binding site [chemical binding]; other site 235909002872 Q-loop/lid; other site 235909002873 ABC transporter signature motif; other site 235909002874 Walker B; other site 235909002875 D-loop; other site 235909002876 H-loop/switch region; other site 235909002877 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 235909002878 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 235909002879 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 235909002880 putative ligand binding site [chemical binding]; other site 235909002881 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 235909002882 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 235909002883 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 235909002884 Phosphotransferase enzyme family; Region: APH; pfam01636 235909002885 Predicted amidohydrolase [General function prediction only]; Region: COG0388 235909002886 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 235909002887 putative active site [active] 235909002888 catalytic triad [active] 235909002889 putative dimer interface [polypeptide binding]; other site 235909002890 transaminase; Reviewed; Region: PRK08068 235909002891 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 235909002892 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909002893 homodimer interface [polypeptide binding]; other site 235909002894 catalytic residue [active] 235909002895 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Reviewed; Region: mtnW; PRK09549 235909002896 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Region: RLP_DK-MTP-1-P-enolase; cd08209 235909002897 dimer interface [polypeptide binding]; other site 235909002898 active site 235909002899 catalytic residue [active] 235909002900 metal binding site [ion binding]; metal-binding site 235909002901 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 235909002902 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 235909002903 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 235909002904 motif II; other site 235909002905 methylthioribulose-1-phosphate dehydratase; Reviewed; Region: mtnB; PRK06754 235909002906 active site 235909002907 intersubunit interface [polypeptide binding]; other site 235909002908 Zn2+ binding site [ion binding]; other site 235909002909 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 235909002910 Cupin domain; Region: Cupin_2; cl17218 235909002911 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 235909002912 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 235909002913 MarR family; Region: MarR; pfam01047 235909002914 MarR family; Region: MarR_2; cl17246 235909002915 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 235909002916 Propanediol utilisation protein PduL; Region: PduL; pfam06130 235909002917 Propanediol utilisation protein PduL; Region: PduL; pfam06130 235909002918 short chain dehydrogenase; Provisional; Region: PRK08309 235909002919 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 235909002920 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 235909002921 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 235909002922 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 235909002923 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 235909002924 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 235909002925 active site 235909002926 Zn binding site [ion binding]; other site 235909002927 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 235909002928 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 235909002929 Coenzyme A binding pocket [chemical binding]; other site 235909002930 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 235909002931 active site 235909002932 NTP binding site [chemical binding]; other site 235909002933 metal binding triad [ion binding]; metal-binding site 235909002934 antibiotic binding site [chemical binding]; other site 235909002935 Putative cell-wall binding lipoprotein; Region: YkyA; pfam10368 235909002936 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 235909002937 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 235909002938 Walker A motif; other site 235909002939 ATP binding site [chemical binding]; other site 235909002940 Walker B motif; other site 235909002941 arginine finger; other site 235909002942 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 235909002943 Walker A motif; other site 235909002944 ATP binding site [chemical binding]; other site 235909002945 Walker B motif; other site 235909002946 arginine finger; other site 235909002947 YtkA-like; Region: YtkA; pfam13115 235909002948 YtkA-like; Region: YtkA; pfam13115 235909002949 Uncharacterized membrane protein [Function unknown]; Region: COG3949 235909002950 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 235909002951 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 235909002952 dimer interface [polypeptide binding]; other site 235909002953 putative CheW interface [polypeptide binding]; other site 235909002954 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 235909002955 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 235909002956 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 235909002957 Spore germination protein; Region: Spore_permease; pfam03845 235909002958 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 235909002959 Ligand Binding Site [chemical binding]; other site 235909002960 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 235909002961 active site 235909002962 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 235909002963 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 235909002964 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 235909002965 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 235909002966 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 235909002967 NAD binding site [chemical binding]; other site 235909002968 active site 235909002969 Uncharacterized protein conserved in bacteria (DUF2187); Region: DUF2187; cl11556 235909002970 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 235909002971 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 235909002972 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 235909002973 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 235909002974 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 235909002975 NAD(P) binding site [chemical binding]; other site 235909002976 active site 235909002977 YueH-like protein; Region: YueH; pfam14166 235909002978 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 235909002979 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 235909002980 putative active site [active] 235909002981 heme pocket [chemical binding]; other site 235909002982 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 235909002983 dimer interface [polypeptide binding]; other site 235909002984 phosphorylation site [posttranslational modification] 235909002985 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909002986 ATP binding site [chemical binding]; other site 235909002987 Mg2+ binding site [ion binding]; other site 235909002988 G-X-G motif; other site 235909002989 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 235909002990 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 235909002991 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 235909002992 transcriptional antiterminator BglG; Provisional; Region: PRK09772 235909002993 CAT RNA binding domain; Region: CAT_RBD; smart01061 235909002994 PRD domain; Region: PRD; pfam00874 235909002995 PRD domain; Region: PRD; pfam00874 235909002996 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 235909002997 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 235909002998 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 235909002999 active site turn [active] 235909003000 phosphorylation site [posttranslational modification] 235909003001 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 235909003002 HPr interaction site; other site 235909003003 glycerol kinase (GK) interaction site [polypeptide binding]; other site 235909003004 active site 235909003005 phosphorylation site [posttranslational modification] 235909003006 Integrase core domain; Region: rve; pfam00665 235909003007 Integrase core domain; Region: rve_3; cl15866 235909003008 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 235909003009 dimerization domain swap beta strand [polypeptide binding]; other site 235909003010 regulatory protein interface [polypeptide binding]; other site 235909003011 active site 235909003012 regulatory phosphorylation site [posttranslational modification]; other site 235909003013 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 235909003014 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 235909003015 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 235909003016 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 235909003017 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 235909003018 TGF-beta propeptide; Region: TGFb_propeptide; pfam00688 235909003019 RHS Repeat; Region: RHS_repeat; pfam05593 235909003020 RHS Repeat; Region: RHS_repeat; pfam05593 235909003021 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 235909003022 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 235909003023 RHS protein; Region: RHS; pfam03527 235909003024 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 235909003025 Domain of unknown function (DUF4304); Region: DUF4304; pfam14137 235909003026 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 235909003027 Transposase [DNA replication, recombination, and repair]; Region: COG5421 235909003028 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 235909003029 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 235909003030 Transcriptional regulator; Region: Rrf2; pfam02082 235909003031 Rrf2 family protein; Region: rrf2_super; TIGR00738 235909003032 Transcriptional regulator; Region: Rrf2; cl17282 235909003033 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 235909003034 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 235909003035 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 235909003036 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 235909003037 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 235909003038 Transposase [DNA replication, recombination, and repair]; Region: COG5421 235909003039 Protein of unknown function (DUF3888); Region: DUF3888; pfam13027 235909003040 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 235909003041 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 235909003042 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 235909003043 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 235909003044 Coenzyme A binding pocket [chemical binding]; other site 235909003045 Cache domain; Region: Cache_1; pfam02743 235909003046 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 235909003047 dimerization interface [polypeptide binding]; other site 235909003048 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 235909003049 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 235909003050 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 235909003051 dimer interface [polypeptide binding]; other site 235909003052 putative CheW interface [polypeptide binding]; other site 235909003053 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 235909003054 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 235909003055 TPP-binding site [chemical binding]; other site 235909003056 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 235909003057 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 235909003058 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 235909003059 E3 interaction surface; other site 235909003060 lipoyl attachment site [posttranslational modification]; other site 235909003061 e3 binding domain; Region: E3_binding; pfam02817 235909003062 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 235909003063 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 235909003064 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 235909003065 putative NAD(P) binding site [chemical binding]; other site 235909003066 putative active site [active] 235909003067 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 235909003068 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 235909003069 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 235909003070 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 235909003071 FAD binding site [chemical binding]; other site 235909003072 substrate binding site [chemical binding]; other site 235909003073 catalytic base [active] 235909003074 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 235909003075 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 235909003076 NAD(P) binding site [chemical binding]; other site 235909003077 active site 235909003078 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 235909003079 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 235909003080 acyl-activating enzyme (AAE) consensus motif; other site 235909003081 putative AMP binding site [chemical binding]; other site 235909003082 putative active site [active] 235909003083 putative CoA binding site [chemical binding]; other site 235909003084 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 235909003085 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 235909003086 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 235909003087 Phosphotransferase enzyme family; Region: APH; pfam01636 235909003088 putative active site [active] 235909003089 putative substrate binding site [chemical binding]; other site 235909003090 ATP binding site [chemical binding]; other site 235909003091 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 235909003092 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 235909003093 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 235909003094 NAD(P) binding site [chemical binding]; other site 235909003095 aminotransferase A; Validated; Region: PRK07683 235909003096 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 235909003097 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909003098 homodimer interface [polypeptide binding]; other site 235909003099 catalytic residue [active] 235909003100 A short protein domain of unknown function; Region: IDEAL; smart00914 235909003101 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 235909003102 Uncharacterized bacterial subfamily of the Thermotoga maritima CorA-like family; Region: TmCorA-like_u2; cd12831 235909003103 oligomer interface [polypeptide binding]; other site 235909003104 metal binding site [ion binding]; metal-binding site 235909003105 metal binding site [ion binding]; metal-binding site 235909003106 putative Cl binding site [ion binding]; other site 235909003107 aspartate ring; other site 235909003108 basic sphincter; other site 235909003109 hydrophobic gate; other site 235909003110 periplasmic entrance; other site 235909003111 BacA is a bacterial lysin from Enterococcus faecalis that degrades bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues. BacA is homologous to the YbfG and YkuG lysins of...; Region: GH25_BacA-like; cd06418 235909003112 active site 235909003113 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 235909003114 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 235909003115 active site 235909003116 phosphorylation site [posttranslational modification] 235909003117 dimerization interface [polypeptide binding]; other site 235909003118 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 235909003119 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 235909003120 metal binding site [ion binding]; metal-binding site 235909003121 active site 235909003122 I-site; other site 235909003123 Response regulator receiver domain; Region: Response_reg; pfam00072 235909003124 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909003125 active site 235909003126 phosphorylation site [posttranslational modification] 235909003127 intermolecular recognition site; other site 235909003128 dimerization interface [polypeptide binding]; other site 235909003129 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 235909003130 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 235909003131 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 235909003132 DXD motif; other site 235909003133 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 235909003134 YkyB-like protein; Region: YkyB; pfam14177 235909003135 phosphodiesterase YaeI; Provisional; Region: PRK11340 235909003136 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 235909003137 putative active site [active] 235909003138 putative metal binding site [ion binding]; other site 235909003139 short chain dehydrogenase; Provisional; Region: PRK07677 235909003140 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 235909003141 NAD(P) binding site [chemical binding]; other site 235909003142 substrate binding site [chemical binding]; other site 235909003143 homotetramer interface [polypeptide binding]; other site 235909003144 active site 235909003145 homodimer interface [polypeptide binding]; other site 235909003146 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 235909003147 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 235909003148 Antirepressor AbbA; Region: AbbA_antirepres; pfam14156 235909003149 FOG: CBS domain [General function prediction only]; Region: COG0517 235909003150 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_30; cd04643 235909003151 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 235909003152 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 235909003153 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 235909003154 active site 235909003155 trimer interface [polypeptide binding]; other site 235909003156 substrate binding site [chemical binding]; other site 235909003157 CoA binding site [chemical binding]; other site 235909003158 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 235909003159 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 235909003160 metal binding site [ion binding]; metal-binding site 235909003161 putative dimer interface [polypeptide binding]; other site 235909003162 hypothetical protein; Provisional; Region: PRK03094 235909003163 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 235909003164 TrkA-N domain; Region: TrkA_N; pfam02254 235909003165 TrkA-C domain; Region: TrkA_C; pfam02080 235909003166 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 235909003167 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 235909003168 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 235909003169 hypothetical protein; Provisional; Region: PRK13667 235909003170 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 235909003171 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 235909003172 active site 235909003173 motif I; other site 235909003174 motif II; other site 235909003175 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 235909003176 motif II; other site 235909003177 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 235909003178 active site 235909003179 catalytic residues [active] 235909003180 metal binding site [ion binding]; metal-binding site 235909003181 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 235909003182 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 235909003183 TPP-binding site [chemical binding]; other site 235909003184 tetramer interface [polypeptide binding]; other site 235909003185 heterodimer interface [polypeptide binding]; other site 235909003186 phosphorylation loop region [posttranslational modification] 235909003187 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 235909003188 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 235909003189 alpha subunit interface [polypeptide binding]; other site 235909003190 TPP binding site [chemical binding]; other site 235909003191 heterodimer interface [polypeptide binding]; other site 235909003192 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 235909003193 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 235909003194 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 235909003195 E3 interaction surface; other site 235909003196 lipoyl attachment site [posttranslational modification]; other site 235909003197 e3 binding domain; Region: E3_binding; pfam02817 235909003198 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 235909003199 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 235909003200 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 235909003201 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 235909003202 Domain of unknown function (DUF1885); Region: DUF1885; pfam08968 235909003203 Domain of unknown function (DUF4182); Region: DUF4182; pfam13790 235909003204 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 235909003205 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 235909003206 homodimer interface [polypeptide binding]; other site 235909003207 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909003208 catalytic residue [active] 235909003209 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 235909003210 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 235909003211 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 235909003212 FMN binding site [chemical binding]; other site 235909003213 substrate binding site [chemical binding]; other site 235909003214 putative catalytic residue [active] 235909003215 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 235909003216 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 235909003217 active site 235909003218 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 235909003219 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 235909003220 G1 box; other site 235909003221 putative GEF interaction site [polypeptide binding]; other site 235909003222 GTP/Mg2+ binding site [chemical binding]; other site 235909003223 Switch I region; other site 235909003224 G2 box; other site 235909003225 G3 box; other site 235909003226 Switch II region; other site 235909003227 G4 box; other site 235909003228 G5 box; other site 235909003229 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 235909003230 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 235909003231 YlaH-like protein; Region: YlaH; pfam14036 235909003232 Uncharacterized protein conserved in bacteria (DUF2197); Region: DUF2197; pfam09963 235909003233 sporulation lipoprotein, YhcN/YlaJ family; Region: spore_YhcN_YlaJ; TIGR02898 235909003234 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 235909003235 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 235909003236 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 235909003237 putative active site [active] 235909003238 PhoH-like protein; Region: PhoH; pfam02562 235909003239 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 235909003240 hypothetical protein; Provisional; Region: PRK13666 235909003241 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 235909003242 pyruvate carboxylase; Reviewed; Region: PRK12999 235909003243 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 235909003244 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 235909003245 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 235909003246 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 235909003247 active site 235909003248 catalytic residues [active] 235909003249 metal binding site [ion binding]; metal-binding site 235909003250 homodimer binding site [polypeptide binding]; other site 235909003251 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 235909003252 carboxyltransferase (CT) interaction site; other site 235909003253 biotinylation site [posttranslational modification]; other site 235909003254 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 235909003255 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 235909003256 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 235909003257 UbiA prenyltransferase family; Region: UbiA; pfam01040 235909003258 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 235909003259 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 235909003260 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 235909003261 Cytochrome c; Region: Cytochrom_C; pfam00034 235909003262 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 235909003263 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 235909003264 D-pathway; other site 235909003265 Putative ubiquinol binding site [chemical binding]; other site 235909003266 Low-spin heme (heme b) binding site [chemical binding]; other site 235909003267 Putative water exit pathway; other site 235909003268 Binuclear center (heme o3/CuB) [ion binding]; other site 235909003269 K-pathway; other site 235909003270 Putative proton exit pathway; other site 235909003271 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 235909003272 Subunit I/III interface [polypeptide binding]; other site 235909003273 Subunit III/IV interface [polypeptide binding]; other site 235909003274 cytochrome c oxidase, subunit IVB; Region: CoxD_Bacillus; TIGR02908 235909003275 cytochrome c oxidase assembly factor CtaG; Region: caa3_CtaG; TIGR02737 235909003276 Protein of unknown function (DUF420); Region: DUF420; pfam04238 235909003277 Asp23 family; Region: Asp23; cl00574 235909003278 YugN-like family; Region: YugN; pfam08868 235909003279 FOG: CBS domain [General function prediction only]; Region: COG0517 235909003280 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 235909003281 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 235909003282 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 235909003283 Putative coat protein; Region: YlbD_coat; pfam14071 235909003284 YlbE-like protein; Region: YlbE; pfam14003 235909003285 Protein of unknown function (DUF964); Region: DUF964; pfam06133 235909003286 hypothetical protein; Provisional; Region: PRK02886 235909003287 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 235909003288 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 235909003289 S-adenosylmethionine binding site [chemical binding]; other site 235909003290 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 235909003291 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 235909003292 active site 235909003293 (T/H)XGH motif; other site 235909003294 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 235909003295 Nucleoside recognition; Region: Gate; pfam07670 235909003296 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 235909003297 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 235909003298 active site 235909003299 nucleophile elbow; other site 235909003300 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 235909003301 PDZ domain of ATP-dependent LON serine proteases. Most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this bacterial subfamily of protease-associated PDZ...; Region: PDZ_LON_protease; cd00986 235909003302 protein binding site [polypeptide binding]; other site 235909003303 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 235909003304 hypothetical protein; Provisional; Region: PRK13670 235909003305 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 235909003306 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 235909003307 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 235909003308 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 235909003309 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 235909003310 substrate binding site [chemical binding]; other site 235909003311 oxyanion hole (OAH) forming residues; other site 235909003312 trimer interface [polypeptide binding]; other site 235909003313 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 235909003314 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 235909003315 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 235909003316 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 235909003317 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 235909003318 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 235909003319 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 235909003320 bacillithiol biosynthesis cysteine-adding enzyme BshC; Region: thiol_BshC; TIGR03998 235909003321 MraW methylase family; Region: Methyltransf_5; pfam01795 235909003322 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 235909003323 Cell division protein FtsL; Region: FtsL; cl11433 235909003324 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 235909003325 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 235909003326 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 235909003327 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 235909003328 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 235909003329 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 235909003330 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 235909003331 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 235909003332 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cd06573 235909003333 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 235909003334 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 235909003335 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 235909003336 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 235909003337 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 235909003338 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 235909003339 Mg++ binding site [ion binding]; other site 235909003340 putative catalytic motif [active] 235909003341 putative substrate binding site [chemical binding]; other site 235909003342 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 235909003343 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 235909003344 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 235909003345 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 235909003346 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 235909003347 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 235909003348 Cell division protein FtsQ; Region: FtsQ; pfam03799 235909003349 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 235909003350 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 235909003351 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 235909003352 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 235909003353 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 235909003354 nucleotide binding site [chemical binding]; other site 235909003355 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 235909003356 Cell division protein FtsA; Region: FtsA; pfam14450 235909003357 cell division protein FtsZ; Validated; Region: PRK09330 235909003358 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 235909003359 nucleotide binding site [chemical binding]; other site 235909003360 SulA interaction site; other site 235909003361 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 235909003362 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 235909003363 sporulation sigma factor SigE; Reviewed; Region: PRK08301 235909003364 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 235909003365 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 235909003366 DNA binding residues [nucleotide binding] 235909003367 sporulation sigma factor SigG; Reviewed; Region: PRK08215 235909003368 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 235909003369 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 235909003370 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 235909003371 DNA binding residues [nucleotide binding] 235909003372 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 235909003373 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 235909003374 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 235909003375 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 235909003376 catalytic residue [active] 235909003377 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 235909003378 YGGT family; Region: YGGT; pfam02325 235909003379 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 235909003380 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 235909003381 RNA binding surface [nucleotide binding]; other site 235909003382 DivIVA protein; Region: DivIVA; pfam05103 235909003383 DivIVA domain; Region: DivI1A_domain; TIGR03544 235909003384 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 235909003385 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 235909003386 HIGH motif; other site 235909003387 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 235909003388 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 235909003389 active site 235909003390 KMSKS motif; other site 235909003391 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 235909003392 tRNA binding surface [nucleotide binding]; other site 235909003393 anticodon binding site; other site 235909003394 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 235909003395 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 235909003396 Walker A/P-loop; other site 235909003397 ATP binding site [chemical binding]; other site 235909003398 Q-loop/lid; other site 235909003399 ABC transporter signature motif; other site 235909003400 Walker B; other site 235909003401 D-loop; other site 235909003402 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 235909003403 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 235909003404 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 235909003405 Walker A/P-loop; other site 235909003406 ATP binding site [chemical binding]; other site 235909003407 Q-loop/lid; other site 235909003408 ABC transporter signature motif; other site 235909003409 Walker B; other site 235909003410 D-loop; other site 235909003411 H-loop/switch region; other site 235909003412 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 235909003413 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 235909003414 lipoprotein signal peptidase; Provisional; Region: PRK14787 235909003415 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 235909003416 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 235909003417 RNA binding surface [nucleotide binding]; other site 235909003418 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 235909003419 active site 235909003420 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 235909003421 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 235909003422 active site 235909003423 uracil-xanthine permease; Region: ncs2; TIGR00801 235909003424 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 235909003425 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 235909003426 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 235909003427 dihydroorotase; Validated; Region: pyrC; PRK09357 235909003428 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 235909003429 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 235909003430 active site 235909003431 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 235909003432 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 235909003433 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 235909003434 catalytic site [active] 235909003435 subunit interface [polypeptide binding]; other site 235909003436 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 235909003437 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 235909003438 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 235909003439 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 235909003440 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 235909003441 ATP-grasp domain; Region: ATP-grasp_4; cl17255 235909003442 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 235909003443 IMP binding site; other site 235909003444 dimer interface [polypeptide binding]; other site 235909003445 interdomain contacts; other site 235909003446 partial ornithine binding site; other site 235909003447 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 235909003448 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 235909003449 FAD binding pocket [chemical binding]; other site 235909003450 FAD binding motif [chemical binding]; other site 235909003451 phosphate binding motif [ion binding]; other site 235909003452 beta-alpha-beta structure motif; other site 235909003453 NAD binding pocket [chemical binding]; other site 235909003454 Iron coordination center [ion binding]; other site 235909003455 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 235909003456 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 235909003457 heterodimer interface [polypeptide binding]; other site 235909003458 active site 235909003459 FMN binding site [chemical binding]; other site 235909003460 homodimer interface [polypeptide binding]; other site 235909003461 substrate binding site [chemical binding]; other site 235909003462 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 235909003463 active site 235909003464 dimer interface [polypeptide binding]; other site 235909003465 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 235909003466 active site 235909003467 RHS Repeat; Region: RHS_repeat; cl11982 235909003468 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 235909003469 putative active site [active] 235909003470 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 235909003471 Domain of unknown function (DUF814); Region: DUF814; pfam05670 235909003472 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 235909003473 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 235909003474 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 235909003475 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 235909003476 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 235909003477 motif II; other site 235909003478 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 235909003479 hypothetical protein; Provisional; Region: PRK11820 235909003480 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 235909003481 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 235909003482 hypothetical protein; Provisional; Region: PRK04323 235909003483 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 235909003484 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 235909003485 catalytic site [active] 235909003486 G-X2-G-X-G-K; other site 235909003487 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 235909003488 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 235909003489 Flavoprotein; Region: Flavoprotein; pfam02441 235909003490 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 235909003491 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 235909003492 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 235909003493 ATP binding site [chemical binding]; other site 235909003494 putative Mg++ binding site [ion binding]; other site 235909003495 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 235909003496 nucleotide binding region [chemical binding]; other site 235909003497 ATP-binding site [chemical binding]; other site 235909003498 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 235909003499 active site 235909003500 catalytic residues [active] 235909003501 metal binding site [ion binding]; metal-binding site 235909003502 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 235909003503 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 235909003504 putative active site [active] 235909003505 substrate binding site [chemical binding]; other site 235909003506 putative cosubstrate binding site; other site 235909003507 catalytic site [active] 235909003508 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 235909003509 substrate binding site [chemical binding]; other site 235909003510 16S rRNA methyltransferase B; Provisional; Region: PRK14902 235909003511 NusB family; Region: NusB; pfam01029 235909003512 putative RNA binding site [nucleotide binding]; other site 235909003513 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 235909003514 S-adenosylmethionine binding site [chemical binding]; other site 235909003515 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 235909003516 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 235909003517 FeS/SAM binding site; other site 235909003518 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 235909003519 Protein phosphatase 2C; Region: PP2C; pfam00481 235909003520 active site 235909003521 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 235909003522 Catalytic domain of Protein Kinases; Region: PKc; cd00180 235909003523 active site 235909003524 ATP binding site [chemical binding]; other site 235909003525 substrate binding site [chemical binding]; other site 235909003526 activation loop (A-loop); other site 235909003527 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 235909003528 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 235909003529 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 235909003530 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 235909003531 GTPase RsgA; Reviewed; Region: PRK00098 235909003532 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 235909003533 RNA binding site [nucleotide binding]; other site 235909003534 homodimer interface [polypeptide binding]; other site 235909003535 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 235909003536 GTPase/Zn-binding domain interface [polypeptide binding]; other site 235909003537 GTP/Mg2+ binding site [chemical binding]; other site 235909003538 G4 box; other site 235909003539 G5 box; other site 235909003540 G1 box; other site 235909003541 Switch I region; other site 235909003542 G2 box; other site 235909003543 G3 box; other site 235909003544 Switch II region; other site 235909003545 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 235909003546 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 235909003547 substrate binding site [chemical binding]; other site 235909003548 hexamer interface [polypeptide binding]; other site 235909003549 metal binding site [ion binding]; metal-binding site 235909003550 Thiamine pyrophosphokinase; Region: TPK; cd07995 235909003551 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 235909003552 active site 235909003553 dimerization interface [polypeptide binding]; other site 235909003554 thiamine binding site [chemical binding]; other site 235909003555 stage V sporulation protein M; Provisional; Region: spoVM; PRK14741 235909003556 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 235909003557 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 235909003558 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 235909003559 DAK2 domain; Region: Dak2; pfam02734 235909003560 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 235909003561 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 235909003562 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 235909003563 putative L-serine binding site [chemical binding]; other site 235909003564 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 235909003565 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 235909003566 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 235909003567 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 235909003568 generic binding surface II; other site 235909003569 ssDNA binding site; other site 235909003570 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 235909003571 ATP binding site [chemical binding]; other site 235909003572 putative Mg++ binding site [ion binding]; other site 235909003573 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 235909003574 nucleotide binding region [chemical binding]; other site 235909003575 ATP-binding site [chemical binding]; other site 235909003576 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 235909003577 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 235909003578 active site 2 [active] 235909003579 active site 1 [active] 235909003580 putative phosphate acyltransferase; Provisional; Region: PRK05331 235909003581 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 235909003582 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 235909003583 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 235909003584 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 235909003585 NAD(P) binding site [chemical binding]; other site 235909003586 homotetramer interface [polypeptide binding]; other site 235909003587 homodimer interface [polypeptide binding]; other site 235909003588 active site 235909003589 acyl carrier protein; Provisional; Region: acpP; PRK00982 235909003590 ribonuclease III; Reviewed; Region: rnc; PRK00102 235909003591 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 235909003592 dimerization interface [polypeptide binding]; other site 235909003593 active site 235909003594 metal binding site [ion binding]; metal-binding site 235909003595 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 235909003596 dsRNA binding site [nucleotide binding]; other site 235909003597 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 235909003598 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 235909003599 Walker A/P-loop; other site 235909003600 ATP binding site [chemical binding]; other site 235909003601 Q-loop/lid; other site 235909003602 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 235909003603 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 235909003604 ABC transporter signature motif; other site 235909003605 Walker B; other site 235909003606 D-loop; other site 235909003607 H-loop/switch region; other site 235909003608 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 235909003609 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 235909003610 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 235909003611 P loop; other site 235909003612 GTP binding site [chemical binding]; other site 235909003613 putative DNA-binding protein; Validated; Region: PRK00118 235909003614 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 235909003615 signal recognition particle protein; Provisional; Region: PRK10867 235909003616 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 235909003617 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 235909003618 P loop; other site 235909003619 GTP binding site [chemical binding]; other site 235909003620 Signal peptide binding domain; Region: SRP_SPB; pfam02978 235909003621 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 235909003622 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 235909003623 KH domain; Region: KH_4; pfam13083 235909003624 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 235909003625 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 235909003626 RimM N-terminal domain; Region: RimM; pfam01782 235909003627 PRC-barrel domain; Region: PRC; pfam05239 235909003628 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 235909003629 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 235909003630 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 235909003631 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 235909003632 Catalytic site [active] 235909003633 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 235909003634 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 235909003635 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 235909003636 GTP/Mg2+ binding site [chemical binding]; other site 235909003637 G4 box; other site 235909003638 G5 box; other site 235909003639 G1 box; other site 235909003640 Switch I region; other site 235909003641 G2 box; other site 235909003642 G3 box; other site 235909003643 Switch II region; other site 235909003644 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 235909003645 RNA/DNA hybrid binding site [nucleotide binding]; other site 235909003646 active site 235909003647 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 235909003648 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 235909003649 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 235909003650 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 235909003651 CoA-ligase; Region: Ligase_CoA; pfam00549 235909003652 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 235909003653 CoA binding domain; Region: CoA_binding; pfam02629 235909003654 CoA-ligase; Region: Ligase_CoA; pfam00549 235909003655 DNA protecting protein DprA; Region: dprA; TIGR00732 235909003656 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 235909003657 DNA topoisomerase I; Validated; Region: PRK05582 235909003658 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 235909003659 active site 235909003660 interdomain interaction site; other site 235909003661 putative metal-binding site [ion binding]; other site 235909003662 nucleotide binding site [chemical binding]; other site 235909003663 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 235909003664 domain I; other site 235909003665 DNA binding groove [nucleotide binding] 235909003666 phosphate binding site [ion binding]; other site 235909003667 domain II; other site 235909003668 domain III; other site 235909003669 nucleotide binding site [chemical binding]; other site 235909003670 catalytic site [active] 235909003671 domain IV; other site 235909003672 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 235909003673 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 235909003674 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 235909003675 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 235909003676 active site 235909003677 Int/Topo IB signature motif; other site 235909003678 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 235909003679 active site 235909003680 HslU subunit interaction site [polypeptide binding]; other site 235909003681 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 235909003682 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 235909003683 Walker A motif; other site 235909003684 ATP binding site [chemical binding]; other site 235909003685 Walker B motif; other site 235909003686 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 235909003687 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 235909003688 transcriptional repressor CodY; Validated; Region: PRK04158 235909003689 CodY GAF-like domain; Region: CodY; pfam06018 235909003690 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 235909003691 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 235909003692 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 235909003693 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 235909003694 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 235909003695 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 235909003696 flagellar hook-basal body protein FliE; Provisional; Region: fliE; PRK12728 235909003697 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 235909003698 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 235909003699 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 235909003700 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 235909003701 MgtE intracellular N domain; Region: MgtE_N; cl15244 235909003702 FliG C-terminal domain; Region: FliG_C; pfam01706 235909003703 flagellar assembly protein FliH; Region: FliH_bacil; TIGR03825 235909003704 Flagellar assembly protein FliH; Region: FliH; pfam02108 235909003705 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07721 235909003706 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 235909003707 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 235909003708 Walker A motif/ATP binding site; other site 235909003709 Walker B motif; other site 235909003710 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK07720 235909003711 MgtE intracellular N domain; Region: MgtE_N; cl15244 235909003712 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 235909003713 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 235909003714 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 235909003715 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 235909003716 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 235909003717 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 235909003718 Flagellar protein (FlbD); Region: FlbD; pfam06289 235909003719 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07718 235909003720 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 235909003721 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 235909003722 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 235909003723 flagellar motor switch protein; Validated; Region: PRK08119 235909003724 CheC-like family; Region: CheC; pfam04509 235909003725 CheC-like family; Region: CheC; pfam04509 235909003726 flagellar motor switch protein FliN; Region: fliN; TIGR02480 235909003727 Response regulator receiver domain; Region: Response_reg; pfam00072 235909003728 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909003729 active site 235909003730 phosphorylation site [posttranslational modification] 235909003731 intermolecular recognition site; other site 235909003732 dimerization interface [polypeptide binding]; other site 235909003733 flagella biosynthesis protein FliZ; Provisional; Region: PRK13415 235909003734 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 235909003735 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 235909003736 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 235909003737 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 235909003738 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 235909003739 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 235909003740 FHIPEP family; Region: FHIPEP; pfam00771 235909003741 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 235909003742 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 235909003743 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 235909003744 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 235909003745 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 235909003746 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 235909003747 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909003748 active site 235909003749 phosphorylation site [posttranslational modification] 235909003750 intermolecular recognition site; other site 235909003751 dimerization interface [polypeptide binding]; other site 235909003752 CheB methylesterase; Region: CheB_methylest; pfam01339 235909003753 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 235909003754 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 235909003755 putative binding surface; other site 235909003756 active site 235909003757 P2 response regulator binding domain; Region: P2; pfam07194 235909003758 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 235909003759 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909003760 ATP binding site [chemical binding]; other site 235909003761 Mg2+ binding site [ion binding]; other site 235909003762 G-X-G motif; other site 235909003763 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 235909003764 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 235909003765 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 235909003766 Chemotaxis phosphatase CheX; Region: CheX; cl15816 235909003767 CheC-like family; Region: CheC; pfam04509 235909003768 Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheD; COG1871 235909003769 RNA polymerase sigma factor SigD; Validated; Region: PRK07670 235909003770 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 235909003771 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 235909003772 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 235909003773 DNA binding residues [nucleotide binding] 235909003774 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; cl17393 235909003775 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 235909003776 rRNA interaction site [nucleotide binding]; other site 235909003777 S8 interaction site; other site 235909003778 putative laminin-1 binding site; other site 235909003779 elongation factor Ts; Provisional; Region: tsf; PRK09377 235909003780 UBA/TS-N domain; Region: UBA; pfam00627 235909003781 Elongation factor TS; Region: EF_TS; pfam00889 235909003782 Elongation factor TS; Region: EF_TS; pfam00889 235909003783 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 235909003784 putative nucleotide binding site [chemical binding]; other site 235909003785 uridine monophosphate binding site [chemical binding]; other site 235909003786 homohexameric interface [polypeptide binding]; other site 235909003787 ribosome recycling factor; Reviewed; Region: frr; PRK00083 235909003788 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 235909003789 hinge region; other site 235909003790 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 235909003791 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 235909003792 catalytic residue [active] 235909003793 putative FPP diphosphate binding site; other site 235909003794 putative FPP binding hydrophobic cleft; other site 235909003795 dimer interface [polypeptide binding]; other site 235909003796 putative IPP diphosphate binding site; other site 235909003797 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 235909003798 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 235909003799 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 235909003800 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 235909003801 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 235909003802 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 235909003803 RIP metalloprotease RseP; Region: TIGR00054 235909003804 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 235909003805 active site 235909003806 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 235909003807 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 235909003808 protein binding site [polypeptide binding]; other site 235909003809 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 235909003810 putative substrate binding region [chemical binding]; other site 235909003811 prolyl-tRNA synthetase; Provisional; Region: PRK09194 235909003812 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 235909003813 dimer interface [polypeptide binding]; other site 235909003814 motif 1; other site 235909003815 active site 235909003816 motif 2; other site 235909003817 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 235909003818 putative deacylase active site [active] 235909003819 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 235909003820 active site 235909003821 motif 3; other site 235909003822 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 235909003823 anticodon binding site; other site 235909003824 DNA polymerase III PolC; Validated; Region: polC; PRK00448 235909003825 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 235909003826 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 235909003827 generic binding surface I; other site 235909003828 generic binding surface II; other site 235909003829 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 235909003830 active site 235909003831 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 235909003832 active site 235909003833 catalytic site [active] 235909003834 substrate binding site [chemical binding]; other site 235909003835 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 235909003836 ribosome maturation protein RimP; Reviewed; Region: PRK00092 235909003837 Sm and related proteins; Region: Sm_like; cl00259 235909003838 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 235909003839 putative oligomer interface [polypeptide binding]; other site 235909003840 putative RNA binding site [nucleotide binding]; other site 235909003841 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 235909003842 NusA N-terminal domain; Region: NusA_N; pfam08529 235909003843 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 235909003844 RNA binding site [nucleotide binding]; other site 235909003845 homodimer interface [polypeptide binding]; other site 235909003846 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 235909003847 G-X-X-G motif; other site 235909003848 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 235909003849 G-X-X-G motif; other site 235909003850 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 235909003851 putative RNA binding cleft [nucleotide binding]; other site 235909003852 hypothetical protein; Provisional; Region: PRK07714 235909003853 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 235909003854 translation initiation factor IF-2; Region: IF-2; TIGR00487 235909003855 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 235909003856 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 235909003857 G1 box; other site 235909003858 putative GEF interaction site [polypeptide binding]; other site 235909003859 GTP/Mg2+ binding site [chemical binding]; other site 235909003860 Switch I region; other site 235909003861 G2 box; other site 235909003862 G3 box; other site 235909003863 Switch II region; other site 235909003864 G4 box; other site 235909003865 G5 box; other site 235909003866 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 235909003867 Translation-initiation factor 2; Region: IF-2; pfam11987 235909003868 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 235909003869 Protein of unknown function (DUF503); Region: DUF503; pfam04456 235909003870 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 235909003871 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 235909003872 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 235909003873 RNA binding site [nucleotide binding]; other site 235909003874 active site 235909003875 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 235909003876 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 235909003877 active site 235909003878 Riboflavin kinase; Region: Flavokinase; pfam01687 235909003879 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 235909003880 16S/18S rRNA binding site [nucleotide binding]; other site 235909003881 S13e-L30e interaction site [polypeptide binding]; other site 235909003882 25S rRNA binding site [nucleotide binding]; other site 235909003883 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 235909003884 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 235909003885 RNase E interface [polypeptide binding]; other site 235909003886 trimer interface [polypeptide binding]; other site 235909003887 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 235909003888 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 235909003889 RNase E interface [polypeptide binding]; other site 235909003890 trimer interface [polypeptide binding]; other site 235909003891 active site 235909003892 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 235909003893 putative nucleic acid binding region [nucleotide binding]; other site 235909003894 G-X-X-G motif; other site 235909003895 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 235909003896 RNA binding site [nucleotide binding]; other site 235909003897 domain interface; other site 235909003898 probable sporulation protein, polysaccharide deacetylase family; Region: spore_ylxY; TIGR02873 235909003899 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 235909003900 NodB motif; other site 235909003901 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 235909003902 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 235909003903 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 235909003904 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 235909003905 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 235909003906 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 235909003907 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 235909003908 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 235909003909 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 235909003910 aspartate kinase I; Reviewed; Region: PRK08210 235909003911 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 235909003912 nucleotide binding site [chemical binding]; other site 235909003913 substrate binding site [chemical binding]; other site 235909003914 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 235909003915 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 235909003916 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 235909003917 dihydrodipicolinate synthase; Region: dapA; TIGR00674 235909003918 dimer interface [polypeptide binding]; other site 235909003919 active site 235909003920 catalytic residue [active] 235909003921 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 235909003922 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 235909003923 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 235909003924 Clp protease; Region: CLP_protease; pfam00574 235909003925 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 235909003926 active site 235909003927 YlzJ-like protein; Region: YlzJ; pfam14035 235909003928 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 235909003929 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 235909003930 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 235909003931 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 235909003932 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 235909003933 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 235909003934 DNA-binding site [nucleotide binding]; DNA binding site 235909003935 UTRA domain; Region: UTRA; pfam07702 235909003936 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 235909003937 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 235909003938 ligand binding site [chemical binding]; other site 235909003939 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 235909003940 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 235909003941 Walker A/P-loop; other site 235909003942 ATP binding site [chemical binding]; other site 235909003943 Q-loop/lid; other site 235909003944 ABC transporter signature motif; other site 235909003945 Walker B; other site 235909003946 D-loop; other site 235909003947 H-loop/switch region; other site 235909003948 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 235909003949 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 235909003950 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 235909003951 TM-ABC transporter signature motif; other site 235909003952 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 235909003953 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 235909003954 TM-ABC transporter signature motif; other site 235909003955 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 235909003956 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 235909003957 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 235909003958 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 235909003959 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 235909003960 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 235909003961 classical (c) SDRs; Region: SDR_c; cd05233 235909003962 NAD(P) binding site [chemical binding]; other site 235909003963 active site 235909003964 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 235909003965 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 235909003966 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 235909003967 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 235909003968 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 235909003969 non-specific DNA binding site [nucleotide binding]; other site 235909003970 salt bridge; other site 235909003971 sequence-specific DNA binding site [nucleotide binding]; other site 235909003972 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 235909003973 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 235909003974 competence damage-inducible protein A; Provisional; Region: PRK00549 235909003975 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 235909003976 putative MPT binding site; other site 235909003977 Competence-damaged protein; Region: CinA; pfam02464 235909003978 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 235909003979 Walker A motif; other site 235909003980 ATP binding site [chemical binding]; other site 235909003981 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 235909003982 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 235909003983 putative active site [active] 235909003984 putative NTP binding site [chemical binding]; other site 235909003985 putative nucleic acid binding site [nucleotide binding]; other site 235909003986 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 235909003987 active site 235909003988 Domain of unknown function (DUF3552); Region: DUF3552; pfam12072 235909003989 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 235909003990 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 235909003991 Zn2+ binding site [ion binding]; other site 235909003992 Mg2+ binding site [ion binding]; other site 235909003993 Cation efflux family; Region: Cation_efflux; cl00316 235909003994 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 235909003995 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 235909003996 putative active site [active] 235909003997 metal binding site [ion binding]; metal-binding site 235909003998 homodimer binding site [polypeptide binding]; other site 235909003999 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 235909004000 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 235909004001 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 235909004002 active site 235909004003 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 235909004004 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 235909004005 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 235909004006 dimer interface [polypeptide binding]; other site 235909004007 PYR/PP interface [polypeptide binding]; other site 235909004008 TPP binding site [chemical binding]; other site 235909004009 substrate binding site [chemical binding]; other site 235909004010 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 235909004011 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 235909004012 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 235909004013 TPP-binding site [chemical binding]; other site 235909004014 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 235909004015 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14327 235909004016 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 235909004017 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 235909004018 FeS/SAM binding site; other site 235909004019 TRAM domain; Region: TRAM; cl01282 235909004020 Predicted membrane protein [Function unknown]; Region: COG4550 235909004021 Outer spore coat protein E (CotE); Region: CotE; pfam10628 235909004022 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 235909004023 MutS domain I; Region: MutS_I; pfam01624 235909004024 MutS domain II; Region: MutS_II; pfam05188 235909004025 MutS domain III; Region: MutS_III; pfam05192 235909004026 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 235909004027 Walker A/P-loop; other site 235909004028 ATP binding site [chemical binding]; other site 235909004029 Q-loop/lid; other site 235909004030 ABC transporter signature motif; other site 235909004031 Walker B; other site 235909004032 D-loop; other site 235909004033 H-loop/switch region; other site 235909004034 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 235909004035 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909004036 ATP binding site [chemical binding]; other site 235909004037 Mg2+ binding site [ion binding]; other site 235909004038 G-X-G motif; other site 235909004039 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 235909004040 ATP binding site [chemical binding]; other site 235909004041 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 235909004042 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 235909004043 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 235909004044 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 235909004045 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 235909004046 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 235909004047 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 235909004048 NlpC/P60 family; Region: NLPC_P60; pfam00877 235909004049 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 235909004050 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 235909004051 putative substrate translocation pore; other site 235909004052 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 235909004053 CHASE3 domain; Region: CHASE3; cl05000 235909004054 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 235909004055 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 235909004056 dimerization interface [polypeptide binding]; other site 235909004057 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 235909004058 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 235909004059 dimer interface [polypeptide binding]; other site 235909004060 putative CheW interface [polypeptide binding]; other site 235909004061 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 235909004062 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 235909004063 bacterial Hfq-like; Region: Hfq; cd01716 235909004064 hexamer interface [polypeptide binding]; other site 235909004065 Sm1 motif; other site 235909004066 RNA binding site [nucleotide binding]; other site 235909004067 Sm2 motif; other site 235909004068 stage V sporulation protein K; Region: spore_V_K; TIGR02881 235909004069 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 235909004070 Walker A motif; other site 235909004071 ATP binding site [chemical binding]; other site 235909004072 Walker B motif; other site 235909004073 arginine finger; other site 235909004074 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 235909004075 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 235909004076 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 235909004077 acyl-activating enzyme (AAE) consensus motif; other site 235909004078 acyl-activating enzyme (AAE) consensus motif; other site 235909004079 putative AMP binding site [chemical binding]; other site 235909004080 putative active site [active] 235909004081 putative CoA binding site [chemical binding]; other site 235909004082 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 235909004083 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 235909004084 active site 235909004085 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 235909004086 CoA-transferase family III; Region: CoA_transf_3; pfam02515 235909004087 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 235909004088 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 235909004089 dimer interface [polypeptide binding]; other site 235909004090 acyl-activating enzyme (AAE) consensus motif; other site 235909004091 putative active site [active] 235909004092 AMP binding site [chemical binding]; other site 235909004093 putative CoA binding site [chemical binding]; other site 235909004094 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 235909004095 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 235909004096 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 235909004097 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 235909004098 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 235909004099 dimer interface [polypeptide binding]; other site 235909004100 active site 235909004101 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 235909004102 putative active site [active] 235909004103 EamA-like transporter family; Region: EamA; pfam00892 235909004104 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 235909004105 EamA-like transporter family; Region: EamA; pfam00892 235909004106 Predicted membrane protein [Function unknown]; Region: COG2860 235909004107 UPF0126 domain; Region: UPF0126; pfam03458 235909004108 UPF0126 domain; Region: UPF0126; pfam03458 235909004109 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 235909004110 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 235909004111 HflX GTPase family; Region: HflX; cd01878 235909004112 G1 box; other site 235909004113 GTP/Mg2+ binding site [chemical binding]; other site 235909004114 Switch I region; other site 235909004115 G2 box; other site 235909004116 G3 box; other site 235909004117 Switch II region; other site 235909004118 G4 box; other site 235909004119 G5 box; other site 235909004120 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 235909004121 Aluminium resistance protein; Region: Alum_res; pfam06838 235909004122 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 235909004123 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 235909004124 DNA binding residues [nucleotide binding] 235909004125 putative dimer interface [polypeptide binding]; other site 235909004126 glutamine synthetase, type I; Region: GlnA; TIGR00653 235909004127 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 235909004128 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 235909004129 LexA repressor; Validated; Region: PRK00215 235909004130 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 235909004131 putative DNA binding site [nucleotide binding]; other site 235909004132 putative Zn2+ binding site [ion binding]; other site 235909004133 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 235909004134 Catalytic site [active] 235909004135 cell division suppressor protein YneA; Provisional; Region: PRK14125 235909004136 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 235909004137 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 235909004138 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 235909004139 catalytic residues [active] 235909004140 catalytic nucleophile [active] 235909004141 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 235909004142 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 235909004143 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 235909004144 TPP-binding site [chemical binding]; other site 235909004145 dimer interface [polypeptide binding]; other site 235909004146 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 235909004147 PYR/PP interface [polypeptide binding]; other site 235909004148 dimer interface [polypeptide binding]; other site 235909004149 TPP binding site [chemical binding]; other site 235909004150 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 235909004151 Protein of unknown function (DUF2522); Region: DUF2522; pfam10747 235909004152 hypothetical protein; Provisional; Region: PRK01844 235909004153 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 235909004154 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 235909004155 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 235909004156 Walker A/P-loop; other site 235909004157 ATP binding site [chemical binding]; other site 235909004158 Q-loop/lid; other site 235909004159 ABC transporter signature motif; other site 235909004160 Walker B; other site 235909004161 D-loop; other site 235909004162 H-loop/switch region; other site 235909004163 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 235909004164 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 235909004165 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 235909004166 Walker A/P-loop; other site 235909004167 ATP binding site [chemical binding]; other site 235909004168 Q-loop/lid; other site 235909004169 ABC transporter signature motif; other site 235909004170 Walker B; other site 235909004171 D-loop; other site 235909004172 H-loop/switch region; other site 235909004173 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 235909004174 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 235909004175 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 235909004176 Response regulator receiver domain; Region: Response_reg; pfam00072 235909004177 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909004178 active site 235909004179 phosphorylation site [posttranslational modification] 235909004180 intermolecular recognition site; other site 235909004181 dimerization interface [polypeptide binding]; other site 235909004182 Protein of unknown function (DUF1453); Region: DUF1453; pfam07301 235909004183 Protein of unknown function (DUF2621); Region: DUF2621; pfam11084 235909004184 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 235909004185 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 235909004186 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 235909004187 acid-soluble spore protein P; Provisional; Region: sspP; PRK09399 235909004188 acid-soluble spore protein O; Provisional; Region: sspO; PRK02984 235909004189 aconitate hydratase; Validated; Region: PRK09277 235909004190 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 235909004191 substrate binding site [chemical binding]; other site 235909004192 ligand binding site [chemical binding]; other site 235909004193 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 235909004194 substrate binding site [chemical binding]; other site 235909004195 small, acid-soluble spore protein L; Region: SASP_sspL; TIGR03093 235909004196 Divergent PAP2 family; Region: DUF212; pfam02681 235909004197 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 235909004198 EamA-like transporter family; Region: EamA; pfam00892 235909004199 hypothetical protein; Validated; Region: PRK07708 235909004200 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 235909004201 RNA/DNA hybrid binding site [nucleotide binding]; other site 235909004202 active site 235909004203 Protein of unknown function (DUF2602); Region: DUF2602; pfam10782 235909004204 Protein of unknown function (DUF2564); Region: DUF2564; pfam10819 235909004205 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 235909004206 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 235909004207 putative active site [active] 235909004208 putative NTP binding site [chemical binding]; other site 235909004209 putative nucleic acid binding site [nucleotide binding]; other site 235909004210 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 235909004211 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 235909004212 DNA-binding site [nucleotide binding]; DNA binding site 235909004213 RNA-binding motif; other site 235909004214 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 235909004215 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 235909004216 amphipathic channel; other site 235909004217 Asn-Pro-Ala signature motifs; other site 235909004218 glycerol kinase; Provisional; Region: glpK; PRK00047 235909004219 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 235909004220 N- and C-terminal domain interface [polypeptide binding]; other site 235909004221 active site 235909004222 MgATP binding site [chemical binding]; other site 235909004223 catalytic site [active] 235909004224 metal binding site [ion binding]; metal-binding site 235909004225 glycerol binding site [chemical binding]; other site 235909004226 homotetramer interface [polypeptide binding]; other site 235909004227 homodimer interface [polypeptide binding]; other site 235909004228 FBP binding site [chemical binding]; other site 235909004229 protein IIAGlc interface [polypeptide binding]; other site 235909004230 PAS domain; Region: PAS_9; pfam13426 235909004231 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 235909004232 GAF domain; Region: GAF; pfam01590 235909004233 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 235909004234 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 235909004235 metal binding site [ion binding]; metal-binding site 235909004236 active site 235909004237 I-site; other site 235909004238 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 235909004239 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 235909004240 active site 235909004241 metal binding site [ion binding]; metal-binding site 235909004242 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 235909004243 CoenzymeA binding site [chemical binding]; other site 235909004244 subunit interaction site [polypeptide binding]; other site 235909004245 PHB binding site; other site 235909004246 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 235909004247 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 235909004248 CoenzymeA binding site [chemical binding]; other site 235909004249 subunit interaction site [polypeptide binding]; other site 235909004250 PHB binding site; other site 235909004251 formimidoylglutamase; Provisional; Region: PRK13775 235909004252 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 235909004253 putative active site [active] 235909004254 putative metal binding site [ion binding]; other site 235909004255 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 235909004256 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 235909004257 urocanate hydratase; Provisional; Region: PRK05414 235909004258 imidazolonepropionase; Validated; Region: PRK09356 235909004259 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 235909004260 active site 235909004261 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 235909004262 Nucleoside recognition; Region: Gate; pfam07670 235909004263 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13953 235909004264 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 235909004265 Predicted transporter component [General function prediction only]; Region: COG2391 235909004266 Sulphur transport; Region: Sulf_transp; pfam04143 235909004267 Sulphur transport; Region: Sulf_transp; pfam04143 235909004268 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 235909004269 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 235909004270 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 235909004271 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 235909004272 HEAT repeats; Region: HEAT_2; pfam13646 235909004273 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 235909004274 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 235909004275 putative active site [active] 235909004276 metal binding site [ion binding]; metal-binding site 235909004277 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 235909004278 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 235909004279 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 235909004280 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 235909004281 Protein of unknown function (DUF524); Region: DUF524; pfam04411 235909004282 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 235909004283 HsdM N-terminal domain; Region: HsdM_N; pfam12161 235909004284 Methyltransferase domain; Region: Methyltransf_26; pfam13659 235909004285 S-adenosylmethionine binding site [chemical binding]; other site 235909004286 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 235909004287 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 235909004288 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 235909004289 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 235909004290 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 235909004291 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 235909004292 ATP binding site [chemical binding]; other site 235909004293 putative Mg++ binding site [ion binding]; other site 235909004294 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 235909004295 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 235909004296 Family description; Region: UvrD_C_2; pfam13538 235909004297 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 235909004298 Part of AAA domain; Region: AAA_19; pfam13245 235909004299 Family description; Region: UvrD_C_2; pfam13538 235909004300 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 235909004301 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 235909004302 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 235909004303 Transposase [DNA replication, recombination, and repair]; Region: COG5421 235909004304 Uncharacterized conserved protein [Function unknown]; Region: COG4127 235909004305 EVE domain; Region: EVE; cl00728 235909004306 Restriction endonuclease; Region: Mrr_cat; pfam04471 235909004307 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 235909004308 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 235909004309 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 235909004310 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 235909004311 malate:quinone oxidoreductase; Validated; Region: PRK05257 235909004312 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 235909004313 hypothetical protein; Provisional; Region: PRK03057 235909004314 UPF0302 domain; Region: UPF0302; pfam08864 235909004315 A short protein domain of unknown function; Region: IDEAL; smart00914 235909004316 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 235909004317 hydroxyglutarate oxidase; Provisional; Region: PRK11728 235909004318 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 235909004319 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 235909004320 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 235909004321 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 235909004322 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 235909004323 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 235909004324 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 235909004325 dimerization interface [polypeptide binding]; other site 235909004326 putative DNA binding site [nucleotide binding]; other site 235909004327 putative Zn2+ binding site [ion binding]; other site 235909004328 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 235909004329 Transcriptional regulator [Transcription]; Region: LysR; COG0583 235909004330 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 235909004331 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 235909004332 putative dimerization interface [polypeptide binding]; other site 235909004333 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 235909004334 Flavodoxin; Region: Flavodoxin_1; pfam00258 235909004335 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 235909004336 FAD binding pocket [chemical binding]; other site 235909004337 FAD binding motif [chemical binding]; other site 235909004338 catalytic residues [active] 235909004339 NAD binding pocket [chemical binding]; other site 235909004340 phosphate binding motif [ion binding]; other site 235909004341 beta-alpha-beta structure motif; other site 235909004342 sulfite reductase subunit beta; Provisional; Region: PRK13504 235909004343 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 235909004344 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 235909004345 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 235909004346 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 235909004347 NAD(P) binding site [chemical binding]; other site 235909004348 catalytic residues [active] 235909004349 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 235909004350 putative active site [active] 235909004351 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 235909004352 AAA domain; Region: AAA_30; pfam13604 235909004353 AAA domain; Region: AAA_11; pfam13086 235909004354 AAA domain; Region: AAA_12; pfam13087 235909004355 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 235909004356 DNA methylase; Region: N6_N4_Mtase; pfam01555 235909004357 DNA methylase; Region: N6_N4_Mtase; cl17433 235909004358 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 235909004359 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 235909004360 Na binding site [ion binding]; other site 235909004361 putative substrate binding site [chemical binding]; other site 235909004362 mammalian-like beta-alanine synthase (beta-AS) and similar proteins (class 5 nitrilases); Region: ML_beta-AS_like; cd07568 235909004363 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 235909004364 putative active site [active] 235909004365 catalytic triad [active] 235909004366 multimer interface [polypeptide binding]; other site 235909004367 dimer interface [polypeptide binding]; other site 235909004368 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 235909004369 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 235909004370 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 235909004371 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 235909004372 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 235909004373 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 235909004374 homodimer interface [polypeptide binding]; other site 235909004375 active site 235909004376 FMN binding site [chemical binding]; other site 235909004377 substrate binding site [chemical binding]; other site 235909004378 4Fe-4S binding domain; Region: Fer4; pfam00037 235909004379 phenylhydantoinase; Validated; Region: PRK08323 235909004380 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 235909004381 tetramer interface [polypeptide binding]; other site 235909004382 active site 235909004383 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 235909004384 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 235909004385 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 235909004386 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 235909004387 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 235909004388 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 235909004389 tetrameric interface [polypeptide binding]; other site 235909004390 NAD binding site [chemical binding]; other site 235909004391 catalytic residues [active] 235909004392 aminotransferase; Validated; Region: PRK07678 235909004393 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 235909004394 inhibitor-cofactor binding pocket; inhibition site 235909004395 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909004396 catalytic residue [active] 235909004397 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 235909004398 putative active site [active] 235909004399 Yhfp putative quinone oxidoreductases; Region: MDR_yhfp_like; cd08289 235909004400 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 235909004401 putative NADP binding site [chemical binding]; other site 235909004402 putative dimer interface [polypeptide binding]; other site 235909004403 Transcriptional regulator [Transcription]; Region: LysR; COG0583 235909004404 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 235909004405 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 235909004406 putative dimerization interface [polypeptide binding]; other site 235909004407 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 235909004408 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 235909004409 active site 235909004410 dimer interface [polypeptide binding]; other site 235909004411 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 235909004412 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 235909004413 active site 235909004414 FMN binding site [chemical binding]; other site 235909004415 substrate binding site [chemical binding]; other site 235909004416 3Fe-4S cluster binding site [ion binding]; other site 235909004417 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 235909004418 domain interface; other site 235909004419 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 235909004420 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 235909004421 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 235909004422 active site 235909004423 Bacillus haemolytic enterotoxin (HBL); Region: Bacillus_HBL; pfam05791 235909004424 Bacillus haemolytic enterotoxin (HBL); Region: Bacillus_HBL; pfam05791 235909004425 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 235909004426 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 235909004427 Phosphotransferase enzyme family; Region: APH; pfam01636 235909004428 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 235909004429 active site 235909004430 ATP binding site [chemical binding]; other site 235909004431 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 235909004432 substrate binding site [chemical binding]; other site 235909004433 NAD-dependent deacetylase; Provisional; Region: PRK00481 235909004434 SIR2_Af2: Archaeal and prokaryotic group which includes Archaeoglobus fulgidus Sir2-Af2, Sulfolobus solfataricus ssSir2, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIR2_Af2; cd01413 235909004435 NAD+ binding site [chemical binding]; other site 235909004436 substrate binding site [chemical binding]; other site 235909004437 Zn binding site [ion binding]; other site 235909004438 intracellular protease, PfpI family; Region: PfpI; TIGR01382 235909004439 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 235909004440 conserved cys residue [active] 235909004441 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 235909004442 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 235909004443 Malic enzyme, N-terminal domain; Region: malic; pfam00390 235909004444 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 235909004445 putative NAD(P) binding site [chemical binding]; other site 235909004446 hypothetical protein; Provisional; Region: PRK02947 235909004447 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 235909004448 putative active site [active] 235909004449 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 235909004450 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 235909004451 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 235909004452 Major Facilitator Superfamily; Region: MFS_1; pfam07690 235909004453 putative substrate translocation pore; other site 235909004454 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 235909004455 LysE type translocator; Region: LysE; cl00565 235909004456 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 235909004457 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; pfam10112 235909004458 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 235909004459 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 235909004460 Protein of unknown function (DUF4025); Region: DUF4025; pfam13217 235909004461 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 235909004462 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 235909004463 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 235909004464 metal binding triad; other site 235909004465 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 235909004466 hypothetical protein; Provisional; Region: PRK07740 235909004467 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 235909004468 active site 235909004469 catalytic site [active] 235909004470 substrate binding site [chemical binding]; other site 235909004471 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 235909004472 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 235909004473 putative active site [active] 235909004474 putative NTP binding site [chemical binding]; other site 235909004475 putative nucleic acid binding site [nucleotide binding]; other site 235909004476 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 235909004477 Protein of unknown function with PCYCGC motif; Region: PCYCGC; pfam13798 235909004478 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 235909004479 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 235909004480 siderophore binding site; other site 235909004481 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 235909004482 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 235909004483 ABC-ATPase subunit interface; other site 235909004484 dimer interface [polypeptide binding]; other site 235909004485 putative PBP binding regions; other site 235909004486 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 235909004487 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 235909004488 ABC-ATPase subunit interface; other site 235909004489 dimer interface [polypeptide binding]; other site 235909004490 putative PBP binding regions; other site 235909004491 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 235909004492 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 235909004493 Walker A/P-loop; other site 235909004494 ATP binding site [chemical binding]; other site 235909004495 Q-loop/lid; other site 235909004496 ABC transporter signature motif; other site 235909004497 Walker B; other site 235909004498 D-loop; other site 235909004499 H-loop/switch region; other site 235909004500 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 235909004501 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 235909004502 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 235909004503 PAS domain S-box; Region: sensory_box; TIGR00229 235909004504 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 235909004505 heme pocket [chemical binding]; other site 235909004506 putative active site [active] 235909004507 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 235909004508 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 235909004509 metal binding site [ion binding]; metal-binding site 235909004510 active site 235909004511 I-site; other site 235909004512 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 235909004513 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 235909004514 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 235909004515 Coenzyme A binding pocket [chemical binding]; other site 235909004516 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 235909004517 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 235909004518 catalytic core [active] 235909004519 PAS fold; Region: PAS_4; pfam08448 235909004520 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 235909004521 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 235909004522 dimer interface [polypeptide binding]; other site 235909004523 phosphorylation site [posttranslational modification] 235909004524 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909004525 ATP binding site [chemical binding]; other site 235909004526 Mg2+ binding site [ion binding]; other site 235909004527 G-X-G motif; other site 235909004528 Response regulator receiver domain; Region: Response_reg; pfam00072 235909004529 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909004530 active site 235909004531 phosphorylation site [posttranslational modification] 235909004532 intermolecular recognition site; other site 235909004533 dimerization interface [polypeptide binding]; other site 235909004534 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 235909004535 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 235909004536 active site 235909004537 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 235909004538 classical (c) SDRs; Region: SDR_c; cd05233 235909004539 NAD(P) binding site [chemical binding]; other site 235909004540 active site 235909004541 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 235909004542 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909004543 ATP binding site [chemical binding]; other site 235909004544 Mg2+ binding site [ion binding]; other site 235909004545 G-X-G motif; other site 235909004546 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 235909004547 Phosphopantetheine attachment site; Region: PP-binding; cl09936 235909004548 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 235909004549 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 235909004550 AMP binding site [chemical binding]; other site 235909004551 active site 235909004552 acyl-activating enzyme (AAE) consensus motif; other site 235909004553 CoA binding site [chemical binding]; other site 235909004554 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 235909004555 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 235909004556 dimerization interface [polypeptide binding]; other site 235909004557 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 235909004558 anti sigma factor interaction site; other site 235909004559 regulatory phosphorylation site [posttranslational modification]; other site 235909004560 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 235909004561 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 235909004562 Protein of unknown function (DUF342); Region: DUF342; pfam03961 235909004563 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 235909004564 anti sigma factor interaction site; other site 235909004565 regulatory phosphorylation site [posttranslational modification]; other site 235909004566 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 235909004567 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909004568 active site 235909004569 phosphorylation site [posttranslational modification] 235909004570 intermolecular recognition site; other site 235909004571 dimerization interface [polypeptide binding]; other site 235909004572 LytTr DNA-binding domain; Region: LytTR; smart00850 235909004573 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 235909004574 Nucleoside recognition; Region: Gate; pfam07670 235909004575 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 235909004576 Nucleoside recognition; Region: Gate; pfam07670 235909004577 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 235909004578 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 235909004579 G1 box; other site 235909004580 GTP/Mg2+ binding site [chemical binding]; other site 235909004581 Switch I region; other site 235909004582 G2 box; other site 235909004583 G3 box; other site 235909004584 Switch II region; other site 235909004585 G4 box; other site 235909004586 G5 box; other site 235909004587 FeoA domain; Region: FeoA; pfam04023 235909004588 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 235909004589 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 235909004590 acyl-activating enzyme (AAE) consensus motif; other site 235909004591 putative AMP binding site [chemical binding]; other site 235909004592 putative active site [active] 235909004593 putative CoA binding site [chemical binding]; other site 235909004594 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 235909004595 ATP-binding cassette domain of an uncharacterized transporter similar in sequence to NatA; Region: ABC_NatA_like; cd03267 235909004596 Walker A/P-loop; other site 235909004597 ATP binding site [chemical binding]; other site 235909004598 Q-loop/lid; other site 235909004599 ABC transporter signature motif; other site 235909004600 Walker B; other site 235909004601 D-loop; other site 235909004602 H-loop/switch region; other site 235909004603 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 235909004604 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 235909004605 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 235909004606 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 235909004607 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 235909004608 DNA binding residues [nucleotide binding] 235909004609 putative dimer interface [polypeptide binding]; other site 235909004610 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 235909004611 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 235909004612 acyl-activating enzyme (AAE) consensus motif; other site 235909004613 putative AMP binding site [chemical binding]; other site 235909004614 putative active site [active] 235909004615 putative CoA binding site [chemical binding]; other site 235909004616 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 235909004617 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 235909004618 active site 235909004619 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 235909004620 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 235909004621 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 235909004622 Uncharacterized conserved protein [Function unknown]; Region: COG2135 235909004623 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 235909004624 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 235909004625 putative carbohydrate kinase; Provisional; Region: PRK10565 235909004626 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 235909004627 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 235909004628 putative substrate binding site [chemical binding]; other site 235909004629 putative ATP binding site [chemical binding]; other site 235909004630 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 235909004631 Coenzyme A binding pocket [chemical binding]; other site 235909004632 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 235909004633 Transcriptional regulator [Transcription]; Region: IclR; COG1414 235909004634 Bacterial transcriptional regulator; Region: IclR; pfam01614 235909004635 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 235909004636 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 235909004637 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 235909004638 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 235909004639 putative active site [active] 235909004640 Protein of unknown function (DUF523); Region: DUF523; pfam04463 235909004641 phosphoglycolate phosphatase; Provisional; Region: PRK13222 235909004642 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 235909004643 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 235909004644 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 235909004645 acyl-activating enzyme (AAE) consensus motif; other site 235909004646 putative AMP binding site [chemical binding]; other site 235909004647 putative active site [active] 235909004648 putative CoA binding site [chemical binding]; other site 235909004649 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 235909004650 active site 235909004651 substrate binding pocket [chemical binding]; other site 235909004652 homodimer interaction site [polypeptide binding]; other site 235909004653 Predicted membrane protein (DUF2079); Region: DUF2079; pfam09852 235909004654 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 235909004655 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 235909004656 Ligand binding site; other site 235909004657 Putative Catalytic site; other site 235909004658 DXD motif; other site 235909004659 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 235909004660 substrate binding site [chemical binding]; other site 235909004661 multimerization interface [polypeptide binding]; other site 235909004662 ATP binding site [chemical binding]; other site 235909004663 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 235909004664 dimer interface [polypeptide binding]; other site 235909004665 substrate binding site [chemical binding]; other site 235909004666 ATP binding site [chemical binding]; other site 235909004667 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 235909004668 thiamine phosphate binding site [chemical binding]; other site 235909004669 active site 235909004670 pyrophosphate binding site [ion binding]; other site 235909004671 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 235909004672 Acyltransferase family; Region: Acyl_transf_3; pfam01757 235909004673 small acid-soluble spore protein, H-type; Region: SASP_H; TIGR02861 235909004674 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 235909004675 Uncharacterized conserved protein [Function unknown]; Region: COG1284 235909004676 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 235909004677 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 235909004678 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 235909004679 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 235909004680 active site 235909004681 catalytic triad [active] 235909004682 Coat F domain; Region: Coat_F; pfam07875 235909004683 Domain of unknown function (DUF892); Region: DUF892; cl17410 235909004684 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 235909004685 Histidine kinase N terminal; Region: HisK_N; pfam09385 235909004686 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 235909004687 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 235909004688 dimer interface [polypeptide binding]; other site 235909004689 phosphorylation site [posttranslational modification] 235909004690 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909004691 ATP binding site [chemical binding]; other site 235909004692 Mg2+ binding site [ion binding]; other site 235909004693 G-X-G motif; other site 235909004694 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 235909004695 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 235909004696 dimer interface [polypeptide binding]; other site 235909004697 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909004698 catalytic residue [active] 235909004699 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 235909004700 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 235909004701 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 235909004702 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 235909004703 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 235909004704 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 235909004705 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 235909004706 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 235909004707 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 235909004708 FAD binding domain; Region: FAD_binding_4; pfam01565 235909004709 Cysteine-rich domain; Region: CCG; pfam02754 235909004710 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 235909004711 Cysteine-rich domain; Region: CCG; pfam02754 235909004712 FAD binding domain; Region: FAD_binding_4; pfam01565 235909004713 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 235909004714 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 235909004715 active site 235909004716 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 235909004717 Malic enzyme, N-terminal domain; Region: malic; pfam00390 235909004718 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 235909004719 putative NAD(P) binding site [chemical binding]; other site 235909004720 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 235909004721 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 235909004722 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 235909004723 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 235909004724 Transcriptional regulator [Transcription]; Region: IclR; COG1414 235909004725 Bacterial transcriptional regulator; Region: IclR; pfam01614 235909004726 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 235909004727 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 235909004728 ATP binding site [chemical binding]; other site 235909004729 putative Mg++ binding site [ion binding]; other site 235909004730 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 235909004731 nucleotide binding region [chemical binding]; other site 235909004732 ATP-binding site [chemical binding]; other site 235909004733 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 235909004734 RNase_H superfamily; Region: RNase_H_2; pfam13482 235909004735 active site 235909004736 substrate binding site [chemical binding]; other site 235909004737 cell division protein GpsB; Provisional; Region: PRK14127 235909004738 DivIVA domain; Region: DivI1A_domain; TIGR03544 235909004739 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 235909004740 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 235909004741 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 235909004742 S-adenosylmethionine binding site [chemical binding]; other site 235909004743 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 235909004744 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 235909004745 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 235909004746 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 235909004747 active site 235909004748 Zn binding site [ion binding]; other site 235909004749 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 235909004750 D-pathway; other site 235909004751 Low-spin heme binding site [chemical binding]; other site 235909004752 Putative water exit pathway; other site 235909004753 Binuclear center (active site) [active] 235909004754 K-pathway; other site 235909004755 Putative proton exit pathway; other site 235909004756 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 235909004757 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 235909004758 xanthine permease; Region: pbuX; TIGR03173 235909004759 xanthine permease; Region: pbuX; TIGR03173 235909004760 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 235909004761 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 235909004762 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 235909004763 malonyl-CoA binding site [chemical binding]; other site 235909004764 dimer interface [polypeptide binding]; other site 235909004765 active site 235909004766 product binding site; other site 235909004767 Phospholipid methyltransferase; Region: PEMT; cl17370 235909004768 Protein of unknown function, DUF258; Region: DUF258; pfam03193 235909004769 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 235909004770 Dynamin family; Region: Dynamin_N; pfam00350 235909004771 G1 box; other site 235909004772 GTP/Mg2+ binding site [chemical binding]; other site 235909004773 G2 box; other site 235909004774 Switch I region; other site 235909004775 G3 box; other site 235909004776 Switch II region; other site 235909004777 G4 box; other site 235909004778 G5 box; other site 235909004779 Dynamin family; Region: Dynamin_N; pfam00350 235909004780 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 235909004781 G3 box; other site 235909004782 Switch II region; other site 235909004783 GTP/Mg2+ binding site [chemical binding]; other site 235909004784 G4 box; other site 235909004785 G5 box; other site 235909004786 Protein of unknown function (DUF2533); Region: DUF2533; pfam10752 235909004787 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 235909004788 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 235909004789 active site residue [active] 235909004790 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 235909004791 active site residue [active] 235909004792 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 235909004793 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 235909004794 catalytic residues [active] 235909004795 acid-soluble spore protein N; Provisional; Region: sspN; PRK09398 235909004796 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830 235909004797 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 235909004798 active site 235909004799 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 235909004800 CoenzymeA binding site [chemical binding]; other site 235909004801 subunit interaction site [polypeptide binding]; other site 235909004802 PHB binding site; other site 235909004803 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4841 235909004804 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 235909004805 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 235909004806 Cl binding site [ion binding]; other site 235909004807 oligomer interface [polypeptide binding]; other site 235909004808 Protein of unknown function (DUF502); Region: DUF502; cl01107 235909004809 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 235909004810 hydroxyglutarate oxidase; Provisional; Region: PRK11728 235909004811 biotin synthase; Validated; Region: PRK06256 235909004812 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 235909004813 FeS/SAM binding site; other site 235909004814 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 235909004815 hypothetical protein; Provisional; Region: PRK13672 235909004816 YozD-like protein; Region: YozD; pfam14162 235909004817 Protein of unknown function (DUF2515); Region: DUF2515; pfam10720 235909004818 YodL-like; Region: YodL; pfam14191 235909004819 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 235909004820 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 235909004821 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 235909004822 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 235909004823 Methyltransferase domain; Region: Methyltransf_31; pfam13847 235909004824 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 235909004825 S-adenosylmethionine binding site [chemical binding]; other site 235909004826 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 235909004827 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 235909004828 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 235909004829 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 235909004830 oligomer interface [polypeptide binding]; other site 235909004831 Predicted permeases [General function prediction only]; Region: RarD; COG2962 235909004832 EamA-like transporter family; Region: EamA; pfam00892 235909004833 Uncharacterized conserved protein [Function unknown]; Region: COG3342 235909004834 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 235909004835 Putative peptidoglycan binding domain; Region: PG_binding_2; pfam08823 235909004836 multidrug efflux protein; Reviewed; Region: PRK01766 235909004837 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 235909004838 cation binding site [ion binding]; other site 235909004839 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 235909004840 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 235909004841 putative active site [active] 235909004842 heme pocket [chemical binding]; other site 235909004843 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 235909004844 dimer interface [polypeptide binding]; other site 235909004845 phosphorylation site [posttranslational modification] 235909004846 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909004847 ATP binding site [chemical binding]; other site 235909004848 Mg2+ binding site [ion binding]; other site 235909004849 G-X-G motif; other site 235909004850 threonine dehydratase; Provisional; Region: PRK08198 235909004851 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 235909004852 tetramer interface [polypeptide binding]; other site 235909004853 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909004854 catalytic residue [active] 235909004855 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 235909004856 Predicted acetyltransferase [General function prediction only]; Region: COG3393 235909004857 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 235909004858 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 235909004859 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 235909004860 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 235909004861 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 235909004862 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 235909004863 active site 235909004864 AMP-binding domain protein; Validated; Region: PRK08315 235909004865 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 235909004866 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 235909004867 acyl-activating enzyme (AAE) consensus motif; other site 235909004868 putative AMP binding site [chemical binding]; other site 235909004869 putative active site [active] 235909004870 putative CoA binding site [chemical binding]; other site 235909004871 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 235909004872 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 235909004873 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 235909004874 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 235909004875 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 235909004876 carboxyltransferase (CT) interaction site; other site 235909004877 biotinylation site [posttranslational modification]; other site 235909004878 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 235909004879 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 235909004880 active site 235909004881 catalytic residues [active] 235909004882 metal binding site [ion binding]; metal-binding site 235909004883 enoyl-CoA hydratase; Provisional; Region: PRK07657 235909004884 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 235909004885 substrate binding site [chemical binding]; other site 235909004886 oxyanion hole (OAH) forming residues; other site 235909004887 trimer interface [polypeptide binding]; other site 235909004888 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 235909004889 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 235909004890 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 235909004891 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 235909004892 MarR family; Region: MarR; pfam01047 235909004893 HlyD family secretion protein; Region: HlyD_3; pfam13437 235909004894 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 235909004895 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 235909004896 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 235909004897 putative substrate translocation pore; other site 235909004898 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 235909004899 Transglycosylase; Region: Transgly; pfam00912 235909004900 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 235909004901 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 235909004902 Protein of unknown function (DUF2639); Region: DUF2639; pfam11121 235909004903 NETI protein; Region: NETI; pfam14044 235909004904 tropinone reductase; Provisional; Region: PRK09242 235909004905 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 235909004906 NAD(P) binding site [chemical binding]; other site 235909004907 active site 235909004908 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 235909004909 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 235909004910 dimer interface [polypeptide binding]; other site 235909004911 phosphorylation site [posttranslational modification] 235909004912 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909004913 ATP binding site [chemical binding]; other site 235909004914 Mg2+ binding site [ion binding]; other site 235909004915 G-X-G motif; other site 235909004916 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 235909004917 Major Facilitator Superfamily; Region: MFS_1; pfam07690 235909004918 putative substrate translocation pore; other site 235909004919 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 235909004920 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 235909004921 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 235909004922 Spore germination protein; Region: Spore_permease; cl17796 235909004923 Predicted membrane protein [Function unknown]; Region: COG2323 235909004924 Predicted transcriptional regulators [Transcription]; Region: COG1725 235909004925 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 235909004926 DNA-binding site [nucleotide binding]; DNA binding site 235909004927 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 235909004928 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 235909004929 Walker A/P-loop; other site 235909004930 ATP binding site [chemical binding]; other site 235909004931 Q-loop/lid; other site 235909004932 ABC transporter signature motif; other site 235909004933 Walker B; other site 235909004934 D-loop; other site 235909004935 H-loop/switch region; other site 235909004936 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 235909004937 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 235909004938 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 235909004939 Spore germination protein; Region: Spore_permease; pfam03845 235909004940 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 235909004941 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 235909004942 putative active site [active] 235909004943 heme pocket [chemical binding]; other site 235909004944 PAS domain; Region: PAS; smart00091 235909004945 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 235909004946 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 235909004947 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 235909004948 anti sigma factor interaction site; other site 235909004949 regulatory phosphorylation site [posttranslational modification]; other site 235909004950 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 235909004951 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 235909004952 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 235909004953 Walker A/P-loop; other site 235909004954 ATP binding site [chemical binding]; other site 235909004955 Q-loop/lid; other site 235909004956 ABC transporter signature motif; other site 235909004957 Walker B; other site 235909004958 D-loop; other site 235909004959 H-loop/switch region; other site 235909004960 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 235909004961 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 235909004962 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 235909004963 Walker A/P-loop; other site 235909004964 ATP binding site [chemical binding]; other site 235909004965 Q-loop/lid; other site 235909004966 ABC transporter signature motif; other site 235909004967 Walker B; other site 235909004968 D-loop; other site 235909004969 H-loop/switch region; other site 235909004970 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 235909004971 MOSC domain; Region: MOSC; pfam03473 235909004972 3-alpha domain; Region: 3-alpha; pfam03475 235909004973 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 235909004974 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 235909004975 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 235909004976 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 235909004977 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 235909004978 putative catalytic residue [active] 235909004979 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 235909004980 putative active site pocket [active] 235909004981 dimerization interface [polypeptide binding]; other site 235909004982 putative catalytic residue [active] 235909004983 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 235909004984 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 235909004985 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 235909004986 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 235909004987 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 235909004988 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 235909004989 Members of the SGNH-hydrolase superfamily, 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_YpmR_like; cd04506 235909004990 active site 235909004991 catalytic triad [active] 235909004992 oxyanion hole [active] 235909004993 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 235909004994 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 235909004995 Walker A/P-loop; other site 235909004996 ATP binding site [chemical binding]; other site 235909004997 Q-loop/lid; other site 235909004998 ABC transporter signature motif; other site 235909004999 Walker B; other site 235909005000 D-loop; other site 235909005001 H-loop/switch region; other site 235909005002 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 235909005003 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 235909005004 Probable transposase; Region: OrfB_IS605; pfam01385 235909005005 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 235909005006 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 235909005007 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 235909005008 PemK-like protein; Region: PemK; cl00995 235909005009 Pirin-related protein [General function prediction only]; Region: COG1741 235909005010 Pirin; Region: Pirin; pfam02678 235909005011 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 235909005012 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 235909005013 dimer interface [polypeptide binding]; other site 235909005014 FMN binding site [chemical binding]; other site 235909005015 NADPH bind site [chemical binding]; other site 235909005016 NAD-dependent deacetylase; Provisional; Region: PRK00481 235909005017 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 235909005018 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 235909005019 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 235909005020 active site 235909005021 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 235909005022 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 235909005023 NAD(P) binding site [chemical binding]; other site 235909005024 homotetramer interface [polypeptide binding]; other site 235909005025 homodimer interface [polypeptide binding]; other site 235909005026 active site 235909005027 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 235909005028 active site 235909005029 catalytic site [active] 235909005030 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 235909005031 active site 235909005032 catalytic site [active] 235909005033 putative acyltransferase; Provisional; Region: PRK05790 235909005034 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 235909005035 dimer interface [polypeptide binding]; other site 235909005036 active site 235909005037 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 235909005038 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 235909005039 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 235909005040 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 235909005041 TM-ABC transporter signature motif; other site 235909005042 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 235909005043 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 235909005044 TM-ABC transporter signature motif; other site 235909005045 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 235909005046 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 235909005047 Walker A/P-loop; other site 235909005048 ATP binding site [chemical binding]; other site 235909005049 Q-loop/lid; other site 235909005050 ABC transporter signature motif; other site 235909005051 Walker B; other site 235909005052 D-loop; other site 235909005053 H-loop/switch region; other site 235909005054 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 235909005055 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 235909005056 Walker A/P-loop; other site 235909005057 ATP binding site [chemical binding]; other site 235909005058 Q-loop/lid; other site 235909005059 ABC transporter signature motif; other site 235909005060 Walker B; other site 235909005061 D-loop; other site 235909005062 H-loop/switch region; other site 235909005063 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 235909005064 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_3; cd06336 235909005065 putative ligand binding site [chemical binding]; other site 235909005066 OsmC-like protein; Region: OsmC; pfam02566 235909005067 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 235909005068 QueT transporter; Region: QueT; pfam06177 235909005069 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 235909005070 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 235909005071 Chromate transporter; Region: Chromate_transp; pfam02417 235909005072 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 235909005073 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 235909005074 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 235909005075 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 235909005076 Low-spin heme binding site [chemical binding]; other site 235909005077 Putative water exit pathway; other site 235909005078 Binuclear center (active site) [active] 235909005079 K-pathway; other site 235909005080 Putative proton exit pathway; other site 235909005081 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 235909005082 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 235909005083 Cu(I) binding site [ion binding]; other site 235909005084 Protein of unknown function, DUF606; Region: DUF606; pfam04657 235909005085 Predicted membrane protein [Function unknown]; Region: COG1511 235909005086 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 235909005087 Predicted membrane protein [Function unknown]; Region: COG1511 235909005088 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 235909005089 Nitric oxide synthase (NOS) prokaryotic oxygenase domain. NOS produces nitric oxide (NO) by catalyzing a five-electron heme-based oxidation of a guanidine nitrogen of L-arginine to L-citrulline via two successive monooxygenation reactions producing N...; Region: NOS_oxygenase_prok; cd00794 235909005090 active site 235909005091 dimer interface [polypeptide binding]; other site 235909005092 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 235909005093 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 235909005094 Walker A/P-loop; other site 235909005095 ATP binding site [chemical binding]; other site 235909005096 Q-loop/lid; other site 235909005097 ABC transporter signature motif; other site 235909005098 Walker B; other site 235909005099 D-loop; other site 235909005100 H-loop/switch region; other site 235909005101 Trehalase; Region: Trehalase; cl17346 235909005102 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 235909005103 classical (c) SDRs; Region: SDR_c; cd05233 235909005104 NAD(P) binding site [chemical binding]; other site 235909005105 active site 235909005106 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 235909005107 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 235909005108 NAD(P) binding site [chemical binding]; other site 235909005109 active site 235909005110 enoyl-CoA hydratase; Provisional; Region: PRK06688 235909005111 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 235909005112 substrate binding site [chemical binding]; other site 235909005113 oxyanion hole (OAH) forming residues; other site 235909005114 trimer interface [polypeptide binding]; other site 235909005115 Catalytic domain of Protein Kinases; Region: PKc; cd00180 235909005116 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 235909005117 active site 235909005118 ATP binding site [chemical binding]; other site 235909005119 substrate binding site [chemical binding]; other site 235909005120 activation loop (A-loop); other site 235909005121 DNA topoisomerase III; Provisional; Region: PRK07726 235909005122 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 235909005123 active site 235909005124 putative interdomain interaction site [polypeptide binding]; other site 235909005125 putative metal-binding site [ion binding]; other site 235909005126 putative nucleotide binding site [chemical binding]; other site 235909005127 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 235909005128 domain I; other site 235909005129 DNA binding groove [nucleotide binding] 235909005130 phosphate binding site [ion binding]; other site 235909005131 domain II; other site 235909005132 domain III; other site 235909005133 nucleotide binding site [chemical binding]; other site 235909005134 catalytic site [active] 235909005135 domain IV; other site 235909005136 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 235909005137 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 235909005138 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 235909005139 dimerization interface [polypeptide binding]; other site 235909005140 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 235909005141 dimer interface [polypeptide binding]; other site 235909005142 phosphorylation site [posttranslational modification] 235909005143 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909005144 ATP binding site [chemical binding]; other site 235909005145 Mg2+ binding site [ion binding]; other site 235909005146 G-X-G motif; other site 235909005147 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 235909005148 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909005149 active site 235909005150 phosphorylation site [posttranslational modification] 235909005151 intermolecular recognition site; other site 235909005152 dimerization interface [polypeptide binding]; other site 235909005153 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 235909005154 DNA binding site [nucleotide binding] 235909005155 Uncharacterized conserved protein [Function unknown]; Region: COG0398 235909005156 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 235909005157 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 235909005158 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 235909005159 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 235909005160 Spore germination protein; Region: Spore_permease; cl17796 235909005161 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 235909005162 Transposase [DNA replication, recombination, and repair]; Region: COG5421 235909005163 Uncharacterized conserved protein [Function unknown]; Region: COG3402 235909005164 Predicted membrane protein [Function unknown]; Region: COG3428 235909005165 Bacterial PH domain; Region: DUF304; pfam03703 235909005166 Bacterial PH domain; Region: DUF304; pfam03703 235909005167 Bacterial PH domain; Region: DUF304; pfam03703 235909005168 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 235909005169 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 235909005170 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 235909005171 Walker A motif; other site 235909005172 ATP binding site [chemical binding]; other site 235909005173 Walker B motif; other site 235909005174 arginine finger; other site 235909005175 Period protein 2/3C-terminal region; Region: Period_C; pfam12114 235909005176 Winged helix-turn helix; Region: HTH_29; pfam13551 235909005177 Homeodomain-like domain; Region: HTH_32; pfam13565 235909005178 Integrase core domain; Region: rve; pfam00665 235909005179 Integrase core domain; Region: rve_3; pfam13683 235909005180 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 235909005181 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 235909005182 Integrase core domain; Region: rve; pfam00665 235909005183 DDE domain; Region: DDE_Tnp_IS240; pfam13610 235909005184 Integrase core domain; Region: rve_3; cl15866 235909005185 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 235909005186 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 235909005187 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 235909005188 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 235909005189 dimer interface [polypeptide binding]; other site 235909005190 active site 235909005191 heme binding site [chemical binding]; other site 235909005192 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 235909005193 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 235909005194 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 235909005195 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 235909005196 MOSC domain; Region: MOSC; pfam03473 235909005197 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 235909005198 tyrosine decarboxylase; Region: PLN02880 235909005199 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 235909005200 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 235909005201 catalytic residue [active] 235909005202 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 235909005203 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 235909005204 Coenzyme A binding pocket [chemical binding]; other site 235909005205 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 235909005206 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 235909005207 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 235909005208 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 235909005209 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 235909005210 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 235909005211 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 235909005212 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 235909005213 DDE superfamily endonuclease; Region: DDE_5; cl17874 235909005214 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 235909005215 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 235909005216 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 235909005217 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 235909005218 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 235909005219 DNA binding residues [nucleotide binding] 235909005220 Sigma factor regulator N-terminal; Region: Sigma_reg_N; pfam13800 235909005221 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 235909005222 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 235909005223 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 235909005224 active site 235909005225 DNA binding site [nucleotide binding] 235909005226 Int/Topo IB signature motif; other site 235909005227 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 235909005228 DHH family; Region: DHH; pfam01368 235909005229 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 235909005230 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 235909005231 metal ion-dependent adhesion site (MIDAS); other site 235909005232 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 235909005233 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 235909005234 Walker A motif; other site 235909005235 ATP binding site [chemical binding]; other site 235909005236 Walker B motif; other site 235909005237 arginine finger; other site 235909005238 Replication terminator protein; Region: RTP; pfam02334 235909005239 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 235909005240 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 235909005241 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 235909005242 putative active site [active] 235909005243 putative substrate binding site [chemical binding]; other site 235909005244 putative cosubstrate binding site; other site 235909005245 catalytic site [active] 235909005246 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 235909005247 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 235909005248 heme-binding site [chemical binding]; other site 235909005249 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 235909005250 FAD binding pocket [chemical binding]; other site 235909005251 FAD binding motif [chemical binding]; other site 235909005252 phosphate binding motif [ion binding]; other site 235909005253 beta-alpha-beta structure motif; other site 235909005254 NAD binding pocket [chemical binding]; other site 235909005255 Heme binding pocket [chemical binding]; other site 235909005256 Transcriptional regulator; Region: Rrf2; cl17282 235909005257 Predicted transcriptional regulator [Transcription]; Region: COG1959 235909005258 spermidine synthase; Provisional; Region: PRK00811 235909005259 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 235909005260 S-adenosylmethionine binding site [chemical binding]; other site 235909005261 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 235909005262 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 235909005263 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 235909005264 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 235909005265 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 235909005266 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 235909005267 catalytic residue [active] 235909005268 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 235909005269 active site 235909005270 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 235909005271 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 235909005272 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 235909005273 DNA-binding site [nucleotide binding]; DNA binding site 235909005274 UTRA domain; Region: UTRA; pfam07702 235909005275 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 235909005276 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 235909005277 Ca binding site [ion binding]; other site 235909005278 active site 235909005279 catalytic site [active] 235909005280 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 235909005281 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 235909005282 active site turn [active] 235909005283 phosphorylation site [posttranslational modification] 235909005284 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 235909005285 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 235909005286 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg1; cd04764 235909005287 DNA binding residues [nucleotide binding] 235909005288 PilZ domain; Region: PilZ; pfam07238 235909005289 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 235909005290 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 235909005291 CAP-like domain; other site 235909005292 active site 235909005293 primary dimer interface [polypeptide binding]; other site 235909005294 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 235909005295 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 235909005296 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 235909005297 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 235909005298 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909005299 ATP binding site [chemical binding]; other site 235909005300 Mg2+ binding site [ion binding]; other site 235909005301 G-X-G motif; other site 235909005302 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 235909005303 anchoring element; other site 235909005304 dimer interface [polypeptide binding]; other site 235909005305 ATP binding site [chemical binding]; other site 235909005306 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 235909005307 active site 235909005308 putative metal-binding site [ion binding]; other site 235909005309 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 235909005310 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 235909005311 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 235909005312 ABC1 family; Region: ABC1; pfam03109 235909005313 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 235909005314 active site 235909005315 ATP binding site [chemical binding]; other site 235909005316 Uncharacterized conserved protein [Function unknown]; Region: COG3937 235909005317 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 235909005318 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 235909005319 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 235909005320 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 235909005321 Moco binding site; other site 235909005322 metal coordination site [ion binding]; other site 235909005323 Predicted membrane protein [Function unknown]; Region: COG3601 235909005324 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 235909005325 threonine synthase; Validated; Region: PRK08197 235909005326 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 235909005327 homodimer interface [polypeptide binding]; other site 235909005328 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909005329 catalytic residue [active] 235909005330 peptidase T; Region: peptidase-T; TIGR01882 235909005331 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 235909005332 metal binding site [ion binding]; metal-binding site 235909005333 dimer interface [polypeptide binding]; other site 235909005334 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 235909005335 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 235909005336 putative active site [active] 235909005337 putative metal binding site [ion binding]; other site 235909005338 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 235909005339 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 235909005340 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 235909005341 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 235909005342 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 235909005343 S-adenosylmethionine binding site [chemical binding]; other site 235909005344 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 235909005345 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; pfam09911 235909005346 Members of the SGNH-hydrolase superfamily, 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_YpmR_like; cd04506 235909005347 active site 235909005348 catalytic triad [active] 235909005349 oxyanion hole [active] 235909005350 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 235909005351 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 235909005352 Cu(I) binding site [ion binding]; other site 235909005353 EDD domain protein, DegV family; Region: DegV; TIGR00762 235909005354 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 235909005355 Protein of unknown function (DUF2535); Region: DUF2535; pfam10751 235909005356 threonine dehydratase; Validated; Region: PRK08639 235909005357 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 235909005358 tetramer interface [polypeptide binding]; other site 235909005359 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909005360 catalytic residue [active] 235909005361 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 235909005362 putative Ile/Val binding site [chemical binding]; other site 235909005363 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 235909005364 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 235909005365 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 235909005366 folate binding site [chemical binding]; other site 235909005367 NADP+ binding site [chemical binding]; other site 235909005368 thymidylate synthase; Reviewed; Region: thyA; PRK01827 235909005369 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 235909005370 dimerization interface [polypeptide binding]; other site 235909005371 active site 235909005372 YpjP-like protein; Region: YpjP; pfam14005 235909005373 aspartate aminotransferase; Provisional; Region: PRK07681 235909005374 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 235909005375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909005376 homodimer interface [polypeptide binding]; other site 235909005377 catalytic residue [active] 235909005378 YuzL-like protein; Region: YuzL; pfam14115 235909005379 Disulphide isomerase; Region: Disulph_isomer; pfam06491 235909005380 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 235909005381 nudix motif; other site 235909005382 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 235909005383 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 235909005384 Virulence factor; Region: Virulence_fact; pfam13769 235909005385 HEAT repeats; Region: HEAT_2; pfam13646 235909005386 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 235909005387 HEAT repeats; Region: HEAT_2; pfam13646 235909005388 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 235909005389 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 235909005390 catalytic residues [active] 235909005391 dimer interface [polypeptide binding]; other site 235909005392 Homoserine O-succinyltransferase; Region: HTS; pfam04204 235909005393 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 235909005394 proposed active site lysine [active] 235909005395 conserved cys residue [active] 235909005396 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 235909005397 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 235909005398 active site 235909005399 SAM binding site [chemical binding]; other site 235909005400 homodimer interface [polypeptide binding]; other site 235909005401 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 235909005402 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 235909005403 putative dimer interface [polypeptide binding]; other site 235909005404 active site pocket [active] 235909005405 putative cataytic base [active] 235909005406 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 235909005407 Probable transposase; Region: OrfB_IS605; pfam01385 235909005408 cobyric acid synthase; Provisional; Region: PRK00784 235909005409 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 235909005410 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 235909005411 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 235909005412 catalytic triad [active] 235909005413 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 235909005414 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 235909005415 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 235909005416 catalytic triad [active] 235909005417 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 235909005418 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 235909005419 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 235909005420 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 235909005421 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 235909005422 active site 235909005423 SAM binding site [chemical binding]; other site 235909005424 homodimer interface [polypeptide binding]; other site 235909005425 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 235909005426 active site 235909005427 SAM binding site [chemical binding]; other site 235909005428 homodimer interface [polypeptide binding]; other site 235909005429 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 235909005430 active site 235909005431 putative homodimer interface [polypeptide binding]; other site 235909005432 SAM binding site [chemical binding]; other site 235909005433 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 235909005434 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 235909005435 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 235909005436 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 235909005437 Precorrin-8X methylmutase; Region: CbiC; pfam02570 235909005438 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 235909005439 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 235909005440 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 235909005441 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 235909005442 putative active site [active] 235909005443 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 235909005444 putative active site [active] 235909005445 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 235909005446 active site 235909005447 SAM binding site [chemical binding]; other site 235909005448 homodimer interface [polypeptide binding]; other site 235909005449 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 235909005450 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 235909005451 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 235909005452 Walker A/P-loop; other site 235909005453 ATP binding site [chemical binding]; other site 235909005454 Q-loop/lid; other site 235909005455 ABC transporter signature motif; other site 235909005456 Walker B; other site 235909005457 D-loop; other site 235909005458 H-loop/switch region; other site 235909005459 Cobalt transport protein; Region: CbiQ; cl00463 235909005460 cobalt transport protein CbiN; Provisional; Region: PRK02898 235909005461 cobalt transport protein CbiM; Validated; Region: PRK08319 235909005462 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 235909005463 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 235909005464 dimer interface [polypeptide binding]; other site 235909005465 [2Fe-2S] cluster binding site [ion binding]; other site 235909005466 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 235909005467 inhibitor binding site; inhibition site 235909005468 catalytic motif [active] 235909005469 Catalytic residue [active] 235909005470 Active site flap [active] 235909005471 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 235909005472 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 235909005473 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 235909005474 active site 235909005475 catalytic site [active] 235909005476 DNA topoisomerase III; Provisional; Region: PRK07726 235909005477 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 235909005478 active site 235909005479 putative interdomain interaction site [polypeptide binding]; other site 235909005480 putative metal-binding site [ion binding]; other site 235909005481 putative nucleotide binding site [chemical binding]; other site 235909005482 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 235909005483 domain I; other site 235909005484 DNA binding groove [nucleotide binding] 235909005485 phosphate binding site [ion binding]; other site 235909005486 domain II; other site 235909005487 domain III; other site 235909005488 nucleotide binding site [chemical binding]; other site 235909005489 catalytic site [active] 235909005490 domain IV; other site 235909005491 PADR1 (NUC008) domain; Region: PADR1; pfam08063 235909005492 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 235909005493 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 235909005494 Probable transposase; Region: OrfB_IS605; pfam01385 235909005495 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 235909005496 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 235909005497 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 235909005498 catalytic tetrad [active] 235909005499 oligoendopeptidase F; Region: pepF; TIGR00181 235909005500 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 235909005501 active site 235909005502 Zn binding site [ion binding]; other site 235909005503 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 235909005504 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. 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, reaction...; Region: NAPRTase_A; cd01570 235909005505 active site 235909005506 Isochorismatase family; Region: Isochorismatase; pfam00857 235909005507 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 235909005508 catalytic triad [active] 235909005509 conserved cis-peptide bond; other site 235909005510 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 235909005511 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 235909005512 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 235909005513 putative active site [active] 235909005514 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 235909005515 TPR motif; other site 235909005516 binding surface 235909005517 TPR repeat; Region: TPR_11; pfam13414 235909005518 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 235909005519 binding surface 235909005520 TPR motif; other site 235909005521 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 235909005522 binding surface 235909005523 TPR repeat; Region: TPR_11; pfam13414 235909005524 TPR motif; other site 235909005525 TPR repeat; Region: TPR_11; pfam13414 235909005526 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 235909005527 binding surface 235909005528 TPR motif; other site 235909005529 Tetratricopeptide repeat; Region: TPR_12; pfam13424 235909005530 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 235909005531 TPR motif; other site 235909005532 binding surface 235909005533 TPR repeat; Region: TPR_11; pfam13414 235909005534 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 235909005535 binding surface 235909005536 TPR motif; other site 235909005537 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 235909005538 TPR motif; other site 235909005539 binding surface 235909005540 Esterase/lipase [General function prediction only]; Region: COG1647 235909005541 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 235909005542 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 235909005543 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 235909005544 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 235909005545 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 235909005546 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 235909005547 active site 235909005548 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 235909005549 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 235909005550 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 235909005551 dimer interface [polypeptide binding]; other site 235909005552 phosphorylation site [posttranslational modification] 235909005553 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909005554 ATP binding site [chemical binding]; other site 235909005555 Mg2+ binding site [ion binding]; other site 235909005556 G-X-G motif; other site 235909005557 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 235909005558 active site 235909005559 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 235909005560 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 235909005561 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 235909005562 Predicted membrane protein [Function unknown]; Region: COG3689 235909005563 Predicted permeases [General function prediction only]; Region: COG0701 235909005564 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 235909005565 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 235909005566 active site 235909005567 phosphorylation site [posttranslational modification] 235909005568 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 235909005569 active site 235909005570 P-loop; other site 235909005571 phosphorylation site [posttranslational modification] 235909005572 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 235909005573 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 235909005574 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 235909005575 putative substrate binding site [chemical binding]; other site 235909005576 putative ATP binding site [chemical binding]; other site 235909005577 Trp repressor protein; Region: Trp_repressor; cl17266 235909005578 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 235909005579 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 235909005580 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 235909005581 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 235909005582 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 235909005583 metal binding site [ion binding]; metal-binding site 235909005584 active site 235909005585 I-site; other site 235909005586 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 235909005587 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 235909005588 Zn2+ binding site [ion binding]; other site 235909005589 Mg2+ binding site [ion binding]; other site 235909005590 putative addiction module antidote; Region: doc_partner; TIGR02609 235909005591 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 235909005592 Fic/DOC family; Region: Fic; cl00960 235909005593 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 235909005594 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 235909005595 G1 box; other site 235909005596 GTP/Mg2+ binding site [chemical binding]; other site 235909005597 Switch I region; other site 235909005598 G2 box; other site 235909005599 G3 box; other site 235909005600 Switch II region; other site 235909005601 G4 box; other site 235909005602 G5 box; other site 235909005603 Nucleoside recognition; Region: Gate; pfam07670 235909005604 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 235909005605 Nucleoside recognition; Region: Gate; pfam07670 235909005606 FeoA domain; Region: FeoA; pfam04023 235909005607 Endonuclease I; Region: Endonuclease_1; pfam04231 235909005608 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 235909005609 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 235909005610 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 235909005611 putative active site [active] 235909005612 putative metal binding site [ion binding]; other site 235909005613 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 235909005614 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 235909005615 DNA-binding site [nucleotide binding]; DNA binding site 235909005616 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 235909005617 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 235909005618 beta-galactosidase; Region: BGL; TIGR03356 235909005619 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 235909005620 PTS system, lactose/cellobiose family IIC component; Region: lacE; TIGR00410 235909005621 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 235909005622 active site 235909005623 methionine cluster; other site 235909005624 phosphorylation site [posttranslational modification] 235909005625 metal binding site [ion binding]; metal-binding site 235909005626 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 235909005627 active site 235909005628 P-loop; other site 235909005629 phosphorylation site [posttranslational modification] 235909005630 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 235909005631 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 235909005632 DNA binding residues [nucleotide binding] 235909005633 putative dimer interface [polypeptide binding]; other site 235909005634 Protein of unknown function (DUF3940); Region: DUF3940; pfam13076 235909005635 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 235909005636 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 235909005637 MarR family; Region: MarR; pfam01047 235909005638 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 235909005639 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 235909005640 putative substrate translocation pore; other site 235909005641 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 235909005642 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 235909005643 [4Fe-4S] binding site [ion binding]; other site 235909005644 molybdopterin cofactor binding site; other site 235909005645 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 235909005646 molybdopterin cofactor binding site; other site 235909005647 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 235909005648 [2Fe-2S] cluster binding site [ion binding]; other site 235909005649 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 235909005650 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 235909005651 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 235909005652 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 235909005653 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 235909005654 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 235909005655 DnaA N-terminal domain; Region: DnaA_N; pfam11638 235909005656 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 235909005657 active site 235909005658 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 235909005659 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 235909005660 putative active site [active] 235909005661 metal binding site [ion binding]; metal-binding site 235909005662 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 235909005663 Nitronate monooxygenase; Region: NMO; pfam03060 235909005664 FMN binding site [chemical binding]; other site 235909005665 substrate binding site [chemical binding]; other site 235909005666 putative catalytic residue [active] 235909005667 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 235909005668 N- and C-terminal domain interface [polypeptide binding]; other site 235909005669 D-xylulose kinase; Region: XylB; TIGR01312 235909005670 active site 235909005671 MgATP binding site [chemical binding]; other site 235909005672 catalytic site [active] 235909005673 metal binding site [ion binding]; metal-binding site 235909005674 xylulose binding site [chemical binding]; other site 235909005675 homodimer interface [polypeptide binding]; other site 235909005676 xylose isomerase; Provisional; Region: PRK05474 235909005677 xylose isomerase; Region: xylose_isom_A; TIGR02630 235909005678 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 235909005679 Transposase [DNA replication, recombination, and repair]; Region: COG5421 235909005680 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 235909005681 active site 235909005682 catalytic residues [active] 235909005683 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 235909005684 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 235909005685 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 235909005686 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 235909005687 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 235909005688 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 235909005689 TM-ABC transporter signature motif; other site 235909005690 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 235909005691 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 235909005692 Walker A/P-loop; other site 235909005693 ATP binding site [chemical binding]; other site 235909005694 Q-loop/lid; other site 235909005695 ABC transporter signature motif; other site 235909005696 Walker B; other site 235909005697 D-loop; other site 235909005698 H-loop/switch region; other site 235909005699 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 235909005700 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 235909005701 Periplasmic xylose-binding component of the 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_ABC_xylose_binding; cd01538 235909005702 putative ligand binding site [chemical binding]; other site 235909005703 Transposase; Region: DEDD_Tnp_IS110; pfam01548 235909005704 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 235909005705 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 235909005706 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 235909005707 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 235909005708 Transposase; Region: HTH_Tnp_1; pfam01527 235909005709 putative transposase OrfB; Reviewed; Region: PHA02517 235909005710 HTH-like domain; Region: HTH_21; pfam13276 235909005711 Integrase core domain; Region: rve; pfam00665 235909005712 Integrase core domain; Region: rve_2; pfam13333 235909005713 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 235909005714 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 235909005715 putative substrate translocation pore; other site 235909005716 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 235909005717 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 235909005718 intersubunit interface [polypeptide binding]; other site 235909005719 active site 235909005720 zinc binding site [ion binding]; other site 235909005721 Na+ binding site [ion binding]; other site 235909005722 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 235909005723 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 235909005724 tetrameric interface [polypeptide binding]; other site 235909005725 NAD binding site [chemical binding]; other site 235909005726 catalytic residues [active] 235909005727 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 235909005728 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 235909005729 substrate binding site [chemical binding]; other site 235909005730 ATP binding site [chemical binding]; other site 235909005731 KduI/IolB family; Region: KduI; pfam04962 235909005732 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 235909005733 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 235909005734 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 235909005735 PYR/PP interface [polypeptide binding]; other site 235909005736 dimer interface [polypeptide binding]; other site 235909005737 TPP binding site [chemical binding]; other site 235909005738 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 235909005739 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 235909005740 TPP-binding site; other site 235909005741 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 235909005742 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 235909005743 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 235909005744 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 235909005745 TM-ABC transporter signature motif; other site 235909005746 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 235909005747 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 235909005748 Walker A/P-loop; other site 235909005749 ATP binding site [chemical binding]; other site 235909005750 Q-loop/lid; other site 235909005751 ABC transporter signature motif; other site 235909005752 Walker B; other site 235909005753 D-loop; other site 235909005754 H-loop/switch region; other site 235909005755 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 235909005756 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 235909005757 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 235909005758 putative ligand binding site [chemical binding]; other site 235909005759 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 235909005760 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 235909005761 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 235909005762 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 235909005763 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 235909005764 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 235909005765 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 235909005766 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 235909005767 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 235909005768 Transposase domain (DUF772); Region: DUF772; pfam05598 235909005769 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 235909005770 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 235909005771 Transcriptional regulators [Transcription]; Region: PurR; COG1609 235909005772 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 235909005773 DNA binding site [nucleotide binding] 235909005774 domain linker motif; other site 235909005775 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 235909005776 dimerization interface [polypeptide binding]; other site 235909005777 ligand binding site [chemical binding]; other site 235909005778 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 235909005779 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 235909005780 active site 235909005781 catalytic site [active] 235909005782 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 235909005783 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 235909005784 Transposase [DNA replication, recombination, and repair]; Region: COG5421 235909005785 L-arabinose isomerase; Provisional; Region: PRK02929 235909005786 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 235909005787 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 235909005788 trimer interface [polypeptide binding]; other site 235909005789 putative substrate binding site [chemical binding]; other site 235909005790 putative metal binding site [ion binding]; other site 235909005791 ribulokinase; Provisional; Region: PRK04123 235909005792 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 235909005793 N- and C-terminal domain interface [polypeptide binding]; other site 235909005794 active site 235909005795 MgATP binding site [chemical binding]; other site 235909005796 catalytic site [active] 235909005797 metal binding site [ion binding]; metal-binding site 235909005798 carbohydrate binding site [chemical binding]; other site 235909005799 homodimer interface [polypeptide binding]; other site 235909005800 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 235909005801 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 235909005802 intersubunit interface [polypeptide binding]; other site 235909005803 active site 235909005804 Zn2+ binding site [ion binding]; other site 235909005805 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 235909005806 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 235909005807 DNA-binding site [nucleotide binding]; DNA binding site 235909005808 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 235909005809 Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AraR; cd01541 235909005810 putative dimerization interface [polypeptide binding]; other site 235909005811 putative ligand binding site [chemical binding]; other site 235909005812 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 235909005813 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 235909005814 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 235909005815 TM-ABC transporter signature motif; other site 235909005816 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 235909005817 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 235909005818 Walker A/P-loop; other site 235909005819 ATP binding site [chemical binding]; other site 235909005820 Q-loop/lid; other site 235909005821 ABC transporter signature motif; other site 235909005822 Walker B; other site 235909005823 D-loop; other site 235909005824 H-loop/switch region; other site 235909005825 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 235909005826 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 235909005827 Periplasmic xylose-binding component of the 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_ABC_xylose_binding; cd01538 235909005828 putative ligand binding site [chemical binding]; other site 235909005829 Response regulator receiver domain; Region: Response_reg; pfam00072 235909005830 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909005831 active site 235909005832 phosphorylation site [posttranslational modification] 235909005833 intermolecular recognition site; other site 235909005834 dimerization interface [polypeptide binding]; other site 235909005835 Uncharacterized protein conserved in bacteria (DUF2316); Region: DUF2316; cl01805 235909005836 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 235909005837 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 235909005838 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 235909005839 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 235909005840 dimerization interface [polypeptide binding]; other site 235909005841 Histidine kinase; Region: His_kinase; pfam06580 235909005842 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909005843 ATP binding site [chemical binding]; other site 235909005844 Mg2+ binding site [ion binding]; other site 235909005845 G-X-G motif; other site 235909005846 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 235909005847 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 235909005848 ligand binding site [chemical binding]; other site 235909005849 enoyl-CoA hydratase; Provisional; Region: PRK07659 235909005850 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 235909005851 substrate binding site [chemical binding]; other site 235909005852 oxyanion hole (OAH) forming residues; other site 235909005853 trimer interface [polypeptide binding]; other site 235909005854 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 235909005855 Winged helix-turn helix; Region: HTH_29; pfam13551 235909005856 Homeodomain-like domain; Region: HTH_32; pfam13565 235909005857 Integrase core domain; Region: rve; pfam00665 235909005858 Integrase core domain; Region: rve_3; pfam13683 235909005859 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 235909005860 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 235909005861 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 235909005862 Walker A motif; other site 235909005863 ATP binding site [chemical binding]; other site 235909005864 Walker B motif; other site 235909005865 arginine finger; other site 235909005866 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 235909005867 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 235909005868 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 235909005869 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 235909005870 NAD(P) binding site [chemical binding]; other site 235909005871 catalytic residues [active] 235909005872 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 235909005873 maltose O-acetyltransferase; Provisional; Region: PRK10092 235909005874 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 235909005875 active site 235909005876 substrate binding site [chemical binding]; other site 235909005877 trimer interface [polypeptide binding]; other site 235909005878 CoA binding site [chemical binding]; other site 235909005879 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 235909005880 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 235909005881 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 235909005882 catalytic residue [active] 235909005883 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 235909005884 Major Facilitator Superfamily; Region: MFS_1; pfam07690 235909005885 putative substrate translocation pore; other site 235909005886 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 235909005887 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 235909005888 Coenzyme A binding pocket [chemical binding]; other site 235909005889 High-affinity nickel-transport protein; Region: NicO; cl00964 235909005890 UreD urease accessory protein; Region: UreD; cl00530 235909005891 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 235909005892 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 235909005893 UreF; Region: UreF; pfam01730 235909005894 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 235909005895 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 235909005896 dimer interface [polypeptide binding]; other site 235909005897 catalytic residues [active] 235909005898 urease subunit alpha; Reviewed; Region: ureC; PRK13207 235909005899 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 235909005900 subunit interactions [polypeptide binding]; other site 235909005901 active site 235909005902 flap region; other site 235909005903 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 235909005904 gamma-beta subunit interface [polypeptide binding]; other site 235909005905 alpha-beta subunit interface [polypeptide binding]; other site 235909005906 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 235909005907 alpha-gamma subunit interface [polypeptide binding]; other site 235909005908 beta-gamma subunit interface [polypeptide binding]; other site 235909005909 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 235909005910 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 235909005911 Walker A/P-loop; other site 235909005912 ATP binding site [chemical binding]; other site 235909005913 Q-loop/lid; other site 235909005914 ABC transporter signature motif; other site 235909005915 Walker B; other site 235909005916 D-loop; other site 235909005917 H-loop/switch region; other site 235909005918 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 235909005919 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 235909005920 Walker A/P-loop; other site 235909005921 ATP binding site [chemical binding]; other site 235909005922 Q-loop/lid; other site 235909005923 ABC transporter signature motif; other site 235909005924 Walker B; other site 235909005925 D-loop; other site 235909005926 H-loop/switch region; other site 235909005927 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 235909005928 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 235909005929 TM-ABC transporter signature motif; other site 235909005930 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 235909005931 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 235909005932 TM-ABC transporter signature motif; other site 235909005933 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 235909005934 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 235909005935 putative ligand binding site [chemical binding]; other site 235909005936 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 235909005937 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 235909005938 dimer interface [polypeptide binding]; other site 235909005939 putative CheW interface [polypeptide binding]; other site 235909005940 Cache domain; Region: Cache_1; pfam02743 235909005941 fructuronate transporter; Provisional; Region: PRK10034; cl15264 235909005942 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 235909005943 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 235909005944 N- and C-terminal domain interface [polypeptide binding]; other site 235909005945 active site 235909005946 carbohydrate binding site [chemical binding]; other site 235909005947 ATP binding site [chemical binding]; other site 235909005948 Transcriptional regulators [Transcription]; Region: PurR; COG1609 235909005949 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 235909005950 DNA binding site [nucleotide binding] 235909005951 domain linker motif; other site 235909005952 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 235909005953 putative dimerization interface [polypeptide binding]; other site 235909005954 putative ligand binding site [chemical binding]; other site 235909005955 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467; cl01853 235909005956 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 235909005957 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 235909005958 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 235909005959 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 235909005960 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 235909005961 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 235909005962 active site 235909005963 phosphorylation site [posttranslational modification] 235909005964 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 235909005965 HTH domain; Region: HTH_11; pfam08279 235909005966 HTH domain; Region: HTH_11; pfam08279 235909005967 PRD domain; Region: PRD; pfam00874 235909005968 PRD domain; Region: PRD; pfam00874 235909005969 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 235909005970 active site 235909005971 P-loop; other site 235909005972 phosphorylation site [posttranslational modification] 235909005973 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 235909005974 active site 235909005975 phosphorylation site [posttranslational modification] 235909005976 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 235909005977 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 235909005978 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 235909005979 active site 235909005980 P-loop; other site 235909005981 phosphorylation site [posttranslational modification] 235909005982 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 235909005983 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 235909005984 Uncharacterized protein family (UPF0175); Region: UPF0175; pfam03683 235909005985 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 235909005986 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 235909005987 tetrameric interface [polypeptide binding]; other site 235909005988 NAD binding site [chemical binding]; other site 235909005989 catalytic residues [active] 235909005990 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 235909005991 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 235909005992 putative active site [active] 235909005993 metal binding site [ion binding]; metal-binding site 235909005994 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 235909005995 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 235909005996 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 235909005997 Walker A motif; other site 235909005998 ATP binding site [chemical binding]; other site 235909005999 Walker B motif; other site 235909006000 arginine finger; other site 235909006001 C-terminal binding protein (CtBP), D-isomer-specific 2-hydroxyacid dehydrogenases related repressor; Region: CtBP_dh; cd05299 235909006002 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 235909006003 ligand binding site [chemical binding]; other site 235909006004 NAD binding site [chemical binding]; other site 235909006005 catalytic site [active] 235909006006 galactonate dehydratase; Provisional; Region: PRK14017 235909006007 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 235909006008 putative active site pocket [active] 235909006009 putative metal binding site [ion binding]; other site 235909006010 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 235909006011 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 235909006012 active site 235909006013 intersubunit interface [polypeptide binding]; other site 235909006014 catalytic residue [active] 235909006015 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 235909006016 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 235909006017 substrate binding site [chemical binding]; other site 235909006018 ATP binding site [chemical binding]; other site 235909006019 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 235909006020 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 235909006021 Peptidase family U32; Region: Peptidase_U32; cl03113 235909006022 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 235909006023 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 235909006024 inhibitor site; inhibition site 235909006025 active site 235909006026 dimer interface [polypeptide binding]; other site 235909006027 catalytic residue [active] 235909006028 High-affinity nickel-transport protein; Region: NicO; cl00964 235909006029 hypothetical protein; Provisional; Region: PRK04194 235909006030 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 235909006031 AIR carboxylase; Region: AIRC; smart01001 235909006032 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 235909006033 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine 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_I; cd01990 235909006034 Ligand Binding Site [chemical binding]; other site 235909006035 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 235909006036 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 235909006037 NAD(P) binding site [chemical binding]; other site 235909006038 catalytic residues [active] 235909006039 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 235909006040 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 235909006041 Transcriptional regulator [Transcription]; Region: IclR; COG1414 235909006042 Bacterial transcriptional regulator; Region: IclR; pfam01614 235909006043 Dehydratase family; Region: ILVD_EDD; cl00340 235909006044 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 235909006045 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 235909006046 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 235909006047 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 235909006048 DctM-like transporters; Region: DctM; pfam06808 235909006049 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 235909006050 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 235909006051 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 235909006052 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 235909006053 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 235909006054 active site 235909006055 catalytic tetrad [active] 235909006056 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 235909006057 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 235909006058 Walker A/P-loop; other site 235909006059 ATP binding site [chemical binding]; other site 235909006060 Q-loop/lid; other site 235909006061 ABC transporter signature motif; other site 235909006062 Walker B; other site 235909006063 D-loop; other site 235909006064 H-loop/switch region; other site 235909006065 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 235909006066 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 235909006067 substrate binding pocket [chemical binding]; other site 235909006068 membrane-bound complex binding site; other site 235909006069 hinge residues; other site 235909006070 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 235909006071 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 235909006072 dimer interface [polypeptide binding]; other site 235909006073 conserved gate region; other site 235909006074 putative PBP binding loops; other site 235909006075 ABC-ATPase subunit interface; other site 235909006076 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 235909006077 dimer interface [polypeptide binding]; other site 235909006078 conserved gate region; other site 235909006079 putative PBP binding loops; other site 235909006080 ABC-ATPase subunit interface; other site 235909006081 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 235909006082 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909006083 ATP binding site [chemical binding]; other site 235909006084 G-X-G motif; other site 235909006085 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 235909006086 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909006087 active site 235909006088 phosphorylation site [posttranslational modification] 235909006089 intermolecular recognition site; other site 235909006090 dimerization interface [polypeptide binding]; other site 235909006091 YcbB domain; Region: YcbB; pfam08664 235909006092 Uncharacterized conserved protein [Function unknown]; Region: COG2353 235909006093 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 235909006094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 235909006095 NAD(P) binding site [chemical binding]; other site 235909006096 active site 235909006097 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 235909006098 aromatic arch; other site 235909006099 DCoH dimer interaction site [polypeptide binding]; other site 235909006100 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 235909006101 DCoH tetramer interaction site [polypeptide binding]; other site 235909006102 substrate binding site [chemical binding]; other site 235909006103 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cl01898 235909006104 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 235909006105 Probable transposase; Region: OrfB_IS605; pfam01385 235909006106 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 235909006107 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 235909006108 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 235909006109 Sodium Bile acid symporter family; Region: SBF; cl17470 235909006110 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 235909006111 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 235909006112 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 235909006113 active site 235909006114 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 235909006115 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 235909006116 active site 235909006117 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 235909006118 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 235909006119 dimer interface [polypeptide binding]; other site 235909006120 acyl-activating enzyme (AAE) consensus motif; other site 235909006121 putative active site [active] 235909006122 putative AMP binding site [chemical binding]; other site 235909006123 putative CoA binding site [chemical binding]; other site 235909006124 chemical substrate binding site [chemical binding]; other site 235909006125 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 235909006126 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 235909006127 substrate binding site [chemical binding]; other site 235909006128 oxyanion hole (OAH) forming residues; other site 235909006129 trimer interface [polypeptide binding]; other site 235909006130 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 235909006131 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 235909006132 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 235909006133 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 235909006134 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 235909006135 PaaX-like protein; Region: PaaX; pfam07848 235909006136 Phenylacetic acid-responsive transcriptional repressor [Transcription]; Region: PaaX; COG3327 235909006137 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 235909006138 enoyl-CoA hydratase; Provisional; Region: PRK08138 235909006139 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 235909006140 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 235909006141 NAD(P) binding site [chemical binding]; other site 235909006142 catalytic residues [active] 235909006143 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 235909006144 active site 235909006145 catalytic site [active] 235909006146 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 235909006147 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 235909006148 putative active site [active] 235909006149 putative metal binding site [ion binding]; other site 235909006150 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 235909006151 Predicted dehydrogenase [General function prediction only]; Region: COG0579 235909006152 hydroxyglutarate oxidase; Provisional; Region: PRK11728 235909006153 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 235909006154 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 235909006155 dimer interface [polypeptide binding]; other site 235909006156 conserved gate region; other site 235909006157 putative PBP binding loops; other site 235909006158 ABC-ATPase subunit interface; other site 235909006159 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 235909006160 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 235909006161 dimer interface [polypeptide binding]; other site 235909006162 conserved gate region; other site 235909006163 putative PBP binding loops; other site 235909006164 ABC-ATPase subunit interface; other site 235909006165 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 235909006166 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 235909006167 Walker A/P-loop; other site 235909006168 ATP binding site [chemical binding]; other site 235909006169 Q-loop/lid; other site 235909006170 ABC transporter signature motif; other site 235909006171 Walker B; other site 235909006172 D-loop; other site 235909006173 H-loop/switch region; other site 235909006174 TOBE domain; Region: TOBE_2; pfam08402 235909006175 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 235909006176 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 235909006177 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 235909006178 Integrase core domain; Region: rve; pfam00665 235909006179 DDE domain; Region: DDE_Tnp_IS240; pfam13610 235909006180 Integrase core domain; Region: rve_3; cl15866 235909006181 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 235909006182 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 235909006183 Cysteine-rich domain; Region: CCG; pfam02754 235909006184 Cysteine-rich domain; Region: CCG; pfam02754 235909006185 FAD binding domain; Region: FAD_binding_4; pfam01565 235909006186 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 235909006187 Transcriptional regulators [Transcription]; Region: FadR; COG2186 235909006188 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 235909006189 DNA-binding site [nucleotide binding]; DNA binding site 235909006190 FCD domain; Region: FCD; pfam07729 235909006191 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 235909006192 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 235909006193 active site 235909006194 P-loop; other site 235909006195 phosphorylation site [posttranslational modification] 235909006196 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 235909006197 HTH domain; Region: HTH_11; pfam08279 235909006198 Mga helix-turn-helix domain; Region: Mga; pfam05043 235909006199 PRD domain; Region: PRD; pfam00874 235909006200 PRD domain; Region: PRD; pfam00874 235909006201 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 235909006202 active site 235909006203 P-loop; other site 235909006204 phosphorylation site [posttranslational modification] 235909006205 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 235909006206 active site 235909006207 phosphorylation site [posttranslational modification] 235909006208 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 235909006209 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 235909006210 putative substrate translocation pore; other site 235909006211 POT family; Region: PTR2; pfam00854 235909006212 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 235909006213 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 235909006214 trimer interface [polypeptide binding]; other site 235909006215 putative metal binding site [ion binding]; other site 235909006216 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 235909006217 dimer interface [polypeptide binding]; other site 235909006218 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 235909006219 Transposase; Region: DEDD_Tnp_IS110; pfam01548 235909006220 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 235909006221 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 235909006222 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 235909006223 PYR/PP interface [polypeptide binding]; other site 235909006224 TPP binding site [chemical binding]; other site 235909006225 dimer interface [polypeptide binding]; other site 235909006226 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 235909006227 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 235909006228 TPP-binding site [chemical binding]; other site 235909006229 tetramer interface [polypeptide binding]; other site 235909006230 heterodimer interface [polypeptide binding]; other site 235909006231 phosphorylation loop region [posttranslational modification] 235909006232 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 235909006233 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 235909006234 Walker A/P-loop; other site 235909006235 ATP binding site [chemical binding]; other site 235909006236 Q-loop/lid; other site 235909006237 ABC transporter signature motif; other site 235909006238 Walker B; other site 235909006239 D-loop; other site 235909006240 H-loop/switch region; other site 235909006241 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 235909006242 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 235909006243 TM-ABC transporter signature motif; other site 235909006244 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 235909006245 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 235909006246 zinc binding site [ion binding]; other site 235909006247 putative ligand binding site [chemical binding]; other site 235909006248 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 235909006249 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 235909006250 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 235909006251 NAD binding site [chemical binding]; other site 235909006252 Phe binding site; other site 235909006253 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 235909006254 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 235909006255 FMN binding site [chemical binding]; other site 235909006256 substrate binding site [chemical binding]; other site 235909006257 putative catalytic residue [active] 235909006258 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 235909006259 PaaX-like protein; Region: PaaX; pfam07848 235909006260 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 235909006261 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 235909006262 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 235909006263 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 235909006264 dimer interface [polypeptide binding]; other site 235909006265 active site 235909006266 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK09260 235909006267 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 235909006268 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 235909006269 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 235909006270 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 235909006271 NAD(P) binding site [chemical binding]; other site 235909006272 catalytic residues [active] 235909006273 enoyl-CoA hydratase; Provisional; Region: PRK08140 235909006274 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 235909006275 substrate binding site [chemical binding]; other site 235909006276 oxyanion hole (OAH) forming residues; other site 235909006277 trimer interface [polypeptide binding]; other site 235909006278 enoyl-CoA hydratase; Provisional; Region: PRK05862 235909006279 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 235909006280 substrate binding site [chemical binding]; other site 235909006281 oxyanion hole (OAH) forming residues; other site 235909006282 trimer interface [polypeptide binding]; other site 235909006283 conserved hypothetical protein; Region: TIGR02118 235909006284 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 235909006285 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 235909006286 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 235909006287 Phenylacetic acid degradation B; Region: PaaB; cl01371 235909006288 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 235909006289 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 235909006290 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 235909006291 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 235909006292 acyl-activating enzyme (AAE) consensus motif; other site 235909006293 AMP binding site [chemical binding]; other site 235909006294 active site 235909006295 CoA binding site [chemical binding]; other site 235909006296 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 235909006297 gamma-glutamyl kinase; Provisional; Region: PRK05429 235909006298 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 235909006299 nucleotide binding site [chemical binding]; other site 235909006300 homotetrameric interface [polypeptide binding]; other site 235909006301 putative phosphate binding site [ion binding]; other site 235909006302 putative allosteric binding site; other site 235909006303 PUA domain; Region: PUA; pfam01472 235909006304 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 235909006305 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 235909006306 putative catalytic cysteine [active] 235909006307 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 235909006308 Predicted membrane protein [Function unknown]; Region: COG2246 235909006309 GtrA-like protein; Region: GtrA; pfam04138 235909006310 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 235909006311 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 235909006312 DXD motif; other site 235909006313 Putative Catalytic site; other site 235909006314 V-type ATPase 116kDa subunit family; Region: V_ATPase_I; pfam01496 235909006315 shikimate kinase; Reviewed; Region: aroK; PRK00131 235909006316 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 235909006317 ADP binding site [chemical binding]; other site 235909006318 magnesium binding site [ion binding]; other site 235909006319 putative shikimate binding site; other site 235909006320 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 235909006321 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 235909006322 active site 235909006323 catalytic residue [active] 235909006324 dimer interface [polypeptide binding]; other site 235909006325 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 235909006326 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 235909006327 active site 235909006328 motif I; other site 235909006329 motif II; other site 235909006330 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 235909006331 Predicted membrane protein [Function unknown]; Region: COG2510 235909006332 CobD/Cbib protein; Region: CobD_Cbib; cl00561 235909006333 Fatty acid desaturase; Region: FA_desaturase; pfam00487 235909006334 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 235909006335 putative di-iron ligands [ion binding]; other site 235909006336 Domain of unknown function DUF302; Region: DUF302; cl01364 235909006337 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 235909006338 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 235909006339 active site residue [active] 235909006340 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 235909006341 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 235909006342 CPxP motif; other site 235909006343 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 235909006344 active site residue [active] 235909006345 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 235909006346 active site residue [active] 235909006347 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 235909006348 active site residue [active] 235909006349 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 235909006350 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 235909006351 CPxP motif; other site 235909006352 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 235909006353 putative homodimer interface [polypeptide binding]; other site 235909006354 putative homotetramer interface [polypeptide binding]; other site 235909006355 putative metal binding site [ion binding]; other site 235909006356 putative homodimer-homodimer interface [polypeptide binding]; other site 235909006357 putative allosteric switch controlling residues; other site 235909006358 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 235909006359 active site residue [active] 235909006360 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 235909006361 S-adenosylmethionine binding site [chemical binding]; other site 235909006362 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 235909006363 active site residue [active] 235909006364 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 235909006365 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 235909006366 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 235909006367 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 235909006368 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 235909006369 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 235909006370 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 235909006371 active site 235909006372 Domain of unknown function (DUF202); Region: DUF202; pfam02656 235909006373 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 235909006374 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 235909006375 catalytic residues [active] 235909006376 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 235909006377 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 235909006378 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 235909006379 Major Facilitator Superfamily; Region: MFS_1; pfam07690 235909006380 putative substrate translocation pore; other site 235909006381 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 235909006382 putative substrate translocation pore; other site 235909006383 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 235909006384 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 235909006385 DDE superfamily endonuclease; Region: DDE_5; cl17874 235909006386 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 235909006387 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 235909006388 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 235909006389 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909006390 active site 235909006391 phosphorylation site [posttranslational modification] 235909006392 intermolecular recognition site; other site 235909006393 dimerization interface [polypeptide binding]; other site 235909006394 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 235909006395 DNA binding residues [nucleotide binding] 235909006396 dimerization interface [polypeptide binding]; other site 235909006397 PAS domain S-box; Region: sensory_box; TIGR00229 235909006398 PAS domain; Region: PAS_8; pfam13188 235909006399 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 235909006400 Histidine kinase; Region: HisKA_3; pfam07730 235909006401 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909006402 ATP binding site [chemical binding]; other site 235909006403 Mg2+ binding site [ion binding]; other site 235909006404 G-X-G motif; other site 235909006405 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 235909006406 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 235909006407 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 235909006408 active site residue [active] 235909006409 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 235909006410 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 235909006411 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 235909006412 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 235909006413 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 235909006414 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 235909006415 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 235909006416 active site residue [active] 235909006417 hypothetical protein; Provisional; Region: PRK02237 235909006418 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 235909006419 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 235909006420 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 235909006421 Protein of unknown function (DUF4004); Region: DUF4004; pfam13171 235909006422 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 235909006423 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 235909006424 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 235909006425 active site 235909006426 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 235909006427 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 235909006428 putative metal binding site; other site 235909006429 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 235909006430 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 235909006431 binding surface 235909006432 TPR motif; other site 235909006433 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 235909006434 binding surface 235909006435 TPR motif; other site 235909006436 BclB C-terminal domain; Region: exospore_TM; TIGR03721 235909006437 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 235909006438 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 235909006439 Probable transposase; Region: OrfB_IS605; pfam01385 235909006440 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 235909006441 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 235909006442 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 235909006443 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909006444 catalytic residue [active] 235909006445 hypothetical protein; Provisional; Region: PRK05463 235909006446 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b3; cd09205 235909006447 PLD-like domain; Region: PLDc_2; pfam13091 235909006448 putative homodimer interface [polypeptide binding]; other site 235909006449 putative active site [active] 235909006450 catalytic site [active] 235909006451 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 235909006452 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 235909006453 ATP binding site [chemical binding]; other site 235909006454 putative Mg++ binding site [ion binding]; other site 235909006455 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 235909006456 nucleotide binding region [chemical binding]; other site 235909006457 ATP-binding site [chemical binding]; other site 235909006458 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from archaea and bacteria; Region: NTP-PPase_COG4997; cd11532 235909006459 metal binding site [ion binding]; metal-binding site 235909006460 Transposase IS200 like; Region: Y1_Tnp; cl00848 235909006461 Probable transposase; Region: OrfB_IS605; pfam01385 235909006462 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 235909006463 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 235909006464 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 235909006465 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 235909006466 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 235909006467 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 235909006468 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 235909006469 conserved cys residue [active] 235909006470 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 235909006471 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 235909006472 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 235909006473 Transcriptional regulators [Transcription]; Region: PurR; COG1609 235909006474 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 235909006475 DNA binding site [nucleotide binding] 235909006476 domain linker motif; other site 235909006477 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 235909006478 dimerization interface [polypeptide binding]; other site 235909006479 ligand binding site [chemical binding]; other site 235909006480 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 235909006481 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 235909006482 Coenzyme A binding pocket [chemical binding]; other site 235909006483 metabolite-proton symporter; Region: 2A0106; TIGR00883 235909006484 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 235909006485 putative substrate translocation pore; other site 235909006486 MoaC_like Similar to the MaoC (monoamine oxidase C) dehydratase regulatory protein but without the N-terminal PutA domain. This protein family has a hot-dog fold similar to that of (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: MaoC_like; cd03446 235909006487 homodimer interaction site [polypeptide binding]; other site 235909006488 putative active site [active] 235909006489 putative catalytic site [active] 235909006490 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 235909006491 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 235909006492 dimer interface [polypeptide binding]; other site 235909006493 conserved gate region; other site 235909006494 putative PBP binding loops; other site 235909006495 ABC-ATPase subunit interface; other site 235909006496 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 235909006497 Apolipophorin-III precursor (apoLp-III); Region: ApoLp-III; pfam07464 235909006498 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 235909006499 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 235909006500 dimer interface [polypeptide binding]; other site 235909006501 conserved gate region; other site 235909006502 putative PBP binding loops; other site 235909006503 ABC-ATPase subunit interface; other site 235909006504 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 235909006505 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 235909006506 glutaminase; Provisional; Region: PRK00971 235909006507 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 235909006508 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 235909006509 putative active site [active] 235909006510 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 235909006511 putative active site [active] 235909006512 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 235909006513 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 235909006514 substrate-cofactor binding pocket; other site 235909006515 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909006516 catalytic residue [active] 235909006517 acid-soluble spore protein H; Provisional; Region: sspH; PRK03174 235909006518 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 235909006519 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_9; cd07245 235909006520 dimer interface [polypeptide binding]; other site 235909006521 putative metal binding site [ion binding]; other site 235909006522 Putative membrane peptidase family (DUF2324); Region: DUF2324; pfam10086 235909006523 Predicted integral membrane protein [Function unknown]; Region: COG5658 235909006524 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 235909006525 SdpI/YhfL protein family; Region: SdpI; pfam13630 235909006526 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 235909006527 dimerization interface [polypeptide binding]; other site 235909006528 putative DNA binding site [nucleotide binding]; other site 235909006529 putative Zn2+ binding site [ion binding]; other site 235909006530 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 235909006531 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 235909006532 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 235909006533 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 235909006534 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 235909006535 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 235909006536 acyl-activating enzyme (AAE) consensus motif; other site 235909006537 putative AMP binding site [chemical binding]; other site 235909006538 putative active site [active] 235909006539 putative CoA binding site [chemical binding]; other site 235909006540 Predicted membrane protein [Function unknown]; Region: COG2259 235909006541 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-1; TIGR02309 235909006542 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 235909006543 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 235909006544 Na binding site [ion binding]; other site 235909006545 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 235909006546 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 235909006547 Tetratricopeptide repeat; Region: TPR_12; pfam13424 235909006548 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 235909006549 binding surface 235909006550 TPR motif; other site 235909006551 Tetratricopeptide repeat; Region: TPR_12; pfam13424 235909006552 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 235909006553 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 235909006554 putative dimer interface [polypeptide binding]; other site 235909006555 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 235909006556 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 235909006557 DNA binding site [nucleotide binding] 235909006558 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 235909006559 putative dimerization interface [polypeptide binding]; other site 235909006560 putative ligand binding site [chemical binding]; other site 235909006561 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 235909006562 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 235909006563 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 235909006564 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 235909006565 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 235909006566 NAD binding site [chemical binding]; other site 235909006567 homodimer interface [polypeptide binding]; other site 235909006568 active site 235909006569 substrate binding site [chemical binding]; other site 235909006570 galactokinase; Provisional; Region: PRK05322 235909006571 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 235909006572 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 235909006573 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 235909006574 EcsC protein family; Region: EcsC; pfam12787 235909006575 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 235909006576 Melibiase; Region: Melibiase; pfam02065 235909006577 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 235909006578 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 235909006579 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 235909006580 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 235909006581 dimerization interface [polypeptide binding]; other site 235909006582 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 235909006583 dimer interface [polypeptide binding]; other site 235909006584 phosphorylation site [posttranslational modification] 235909006585 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909006586 ATP binding site [chemical binding]; other site 235909006587 Mg2+ binding site [ion binding]; other site 235909006588 G-X-G motif; other site 235909006589 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 235909006590 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909006591 active site 235909006592 phosphorylation site [posttranslational modification] 235909006593 intermolecular recognition site; other site 235909006594 dimerization interface [polypeptide binding]; other site 235909006595 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 235909006596 DNA binding site [nucleotide binding] 235909006597 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 235909006598 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 235909006599 putative dimer interface [polypeptide binding]; other site 235909006600 YppG-like protein; Region: YppG; pfam14179 235909006601 YppF-like protein; Region: YppF; pfam14178 235909006602 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 235909006603 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 235909006604 Transglycosylase; Region: Transgly; pfam00912 235909006605 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 235909006606 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 235909006607 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 235909006608 Interdomain contacts; other site 235909006609 Cytokine receptor motif; other site 235909006610 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 235909006611 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 235909006612 minor groove reading motif; other site 235909006613 helix-hairpin-helix signature motif; other site 235909006614 substrate binding pocket [chemical binding]; other site 235909006615 active site 235909006616 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 235909006617 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 235909006618 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 235909006619 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 235909006620 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 235909006621 putative dimer interface [polypeptide binding]; other site 235909006622 putative anticodon binding site; other site 235909006623 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 235909006624 homodimer interface [polypeptide binding]; other site 235909006625 motif 1; other site 235909006626 motif 2; other site 235909006627 active site 235909006628 motif 3; other site 235909006629 aspartate aminotransferase; Provisional; Region: PRK05764 235909006630 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 235909006631 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909006632 homodimer interface [polypeptide binding]; other site 235909006633 catalytic residue [active] 235909006634 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 235909006635 Protein of unknown function (DUF4264); Region: DUF4264; pfam14084 235909006636 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 235909006637 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 235909006638 active site 235909006639 catalytic site [active] 235909006640 substrate binding site [chemical binding]; other site 235909006641 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 235909006642 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 235909006643 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 235909006644 tetramerization interface [polypeptide binding]; other site 235909006645 active site 235909006646 pantoate--beta-alanine ligase; Region: panC; TIGR00018 235909006647 Pantoate-beta-alanine ligase; Region: PanC; cd00560 235909006648 active site 235909006649 ATP-binding site [chemical binding]; other site 235909006650 pantoate-binding site; other site 235909006651 HXXH motif; other site 235909006652 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 235909006653 oligomerization interface [polypeptide binding]; other site 235909006654 active site 235909006655 metal binding site [ion binding]; metal-binding site 235909006656 Biotin operon repressor [Transcription]; Region: BirA; COG1654 235909006657 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 235909006658 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 235909006659 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 235909006660 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 235909006661 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 235909006662 active site 235909006663 NTP binding site [chemical binding]; other site 235909006664 metal binding triad [ion binding]; metal-binding site 235909006665 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 235909006666 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 235909006667 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 235909006668 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_5; cd04962 235909006669 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 235909006670 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 235909006671 active site 235909006672 dimer interfaces [polypeptide binding]; other site 235909006673 catalytic residues [active] 235909006674 dihydrodipicolinate reductase; Provisional; Region: PRK00048 235909006675 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 235909006676 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 235909006677 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 235909006678 homodimer interface [polypeptide binding]; other site 235909006679 metal binding site [ion binding]; metal-binding site 235909006680 Uncharacterized conserved protein [Function unknown]; Region: COG1284 235909006681 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 235909006682 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 235909006683 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 235909006684 sporulation protein YpjB; Region: spore_ypjB; TIGR02878 235909006685 Protein of unknown function (DUF1405); Region: DUF1405; cl01798 235909006686 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 235909006687 intrachain domain interface; other site 235909006688 Qi binding site; other site 235909006689 Qo binding site; other site 235909006690 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 235909006691 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 235909006692 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 235909006693 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 235909006694 interchain domain interface [polypeptide binding]; other site 235909006695 intrachain domain interface; other site 235909006696 heme bH binding site [chemical binding]; other site 235909006697 Qi binding site; other site 235909006698 heme bL binding site [chemical binding]; other site 235909006699 Qo binding site; other site 235909006700 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 235909006701 Cytochrome B6-F complex Fe-S subunit; Region: CytB6-F_Fe-S; pfam08802 235909006702 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 235909006703 iron-sulfur cluster [ion binding]; other site 235909006704 [2Fe-2S] cluster binding site [ion binding]; other site 235909006705 Protein of unknown function (DUF2487); Region: DUF2487; pfam10673 235909006706 hypothetical protein; Provisional; Region: PRK03636 235909006707 UPF0302 domain; Region: UPF0302; pfam08864 235909006708 IDEAL domain; Region: IDEAL; pfam08858 235909006709 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 235909006710 binding surface 235909006711 TPR motif; other site 235909006712 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 235909006713 binding surface 235909006714 TPR motif; other site 235909006715 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 235909006716 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 235909006717 hinge; other site 235909006718 active site 235909006719 prephenate dehydrogenase; Validated; Region: PRK06545 235909006720 prephenate dehydrogenase; Validated; Region: PRK08507 235909006721 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 235909006722 histidinol-phosphate aminotransferase; Provisional; Region: PRK03158 235909006723 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 235909006724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909006725 homodimer interface [polypeptide binding]; other site 235909006726 catalytic residue [active] 235909006727 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 235909006728 substrate binding site [chemical binding]; other site 235909006729 active site 235909006730 catalytic residues [active] 235909006731 heterodimer interface [polypeptide binding]; other site 235909006732 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 235909006733 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 235909006734 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909006735 catalytic residue [active] 235909006736 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 235909006737 active site 235909006738 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 235909006739 active site 235909006740 ribulose/triose binding site [chemical binding]; other site 235909006741 phosphate binding site [ion binding]; other site 235909006742 substrate (anthranilate) binding pocket [chemical binding]; other site 235909006743 product (indole) binding pocket [chemical binding]; other site 235909006744 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 235909006745 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 235909006746 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 235909006747 anthranilate synthase component I; Provisional; Region: PRK13569 235909006748 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 235909006749 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 235909006750 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 235909006751 homotrimer interaction site [polypeptide binding]; other site 235909006752 active site 235909006753 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 235909006754 active site 235909006755 dimer interface [polypeptide binding]; other site 235909006756 metal binding site [ion binding]; metal-binding site 235909006757 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 235909006758 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 235909006759 Tetramer interface [polypeptide binding]; other site 235909006760 active site 235909006761 FMN-binding site [chemical binding]; other site 235909006762 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 235909006763 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 235909006764 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 235909006765 S-adenosylmethionine binding site [chemical binding]; other site 235909006766 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 235909006767 active site 235909006768 multimer interface [polypeptide binding]; other site 235909006769 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 235909006770 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 235909006771 substrate binding pocket [chemical binding]; other site 235909006772 chain length determination region; other site 235909006773 substrate-Mg2+ binding site; other site 235909006774 catalytic residues [active] 235909006775 aspartate-rich region 1; other site 235909006776 active site lid residues [active] 235909006777 aspartate-rich region 2; other site 235909006778 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 235909006779 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 235909006780 S-adenosylmethionine binding site [chemical binding]; other site 235909006781 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 235909006782 transcription attenuation protein MtrB; Provisional; Region: PRK13251 235909006783 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 235909006784 homodecamer interface [polypeptide binding]; other site 235909006785 GTP cyclohydrolase I; Provisional; Region: PLN03044 235909006786 active site 235909006787 putative catalytic site residues [active] 235909006788 zinc binding site [ion binding]; other site 235909006789 GTP-CH-I/GFRP interaction surface; other site 235909006790 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 235909006791 IHF dimer interface [polypeptide binding]; other site 235909006792 IHF - DNA interface [nucleotide binding]; other site 235909006793 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 235909006794 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 235909006795 Protein of unknown function (DUF2768); Region: DUF2768; pfam10966 235909006796 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 235909006797 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 235909006798 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 235909006799 GTP-binding protein Der; Reviewed; Region: PRK00093 235909006800 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 235909006801 G1 box; other site 235909006802 GTP/Mg2+ binding site [chemical binding]; other site 235909006803 Switch I region; other site 235909006804 G2 box; other site 235909006805 Switch II region; other site 235909006806 G3 box; other site 235909006807 G4 box; other site 235909006808 G5 box; other site 235909006809 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 235909006810 G1 box; other site 235909006811 GTP/Mg2+ binding site [chemical binding]; other site 235909006812 Switch I region; other site 235909006813 G2 box; other site 235909006814 G3 box; other site 235909006815 Switch II region; other site 235909006816 G4 box; other site 235909006817 G5 box; other site 235909006818 YIEGIA protein; Region: YIEGIA; pfam14045 235909006819 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 235909006820 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 235909006821 RNA binding site [nucleotide binding]; other site 235909006822 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 235909006823 RNA binding site [nucleotide binding]; other site 235909006824 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 235909006825 RNA binding site [nucleotide binding]; other site 235909006826 S1_RPS1_repeat_hs4: 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_hs4; cd05692 235909006827 RNA binding site [nucleotide binding]; other site 235909006828 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 235909006829 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 235909006830 putative acyl-acceptor binding pocket; other site 235909006831 cytidylate kinase; Provisional; Region: cmk; PRK00023 235909006832 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 235909006833 CMP-binding site; other site 235909006834 The sites determining sugar specificity; other site 235909006835 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 235909006836 Flagellar protein YcgR; Region: YcgR_2; pfam12945 235909006837 PilZ domain; Region: PilZ; pfam07238 235909006838 germination protein YpeB; Region: spore_YpeB; TIGR02889 235909006839 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 235909006840 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 235909006841 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 235909006842 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 235909006843 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 235909006844 active site 235909006845 homotetramer interface [polypeptide binding]; other site 235909006846 homodimer interface [polypeptide binding]; other site 235909006847 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 235909006848 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 235909006849 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 235909006850 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 235909006851 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 235909006852 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 235909006853 NAD(P) binding site [chemical binding]; other site 235909006854 adaptor protein; Provisional; Region: PRK02899 235909006855 Protein of unknown function (DUF2663); Region: DUF2663; pfam10864 235909006856 CotJB protein; Region: CotJB; pfam12652 235909006857 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 235909006858 dimanganese center [ion binding]; other site 235909006859 Protein of unknown function (DUF2663); Region: DUF2663; pfam10864 235909006860 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 235909006861 CAAX protease self-immunity; Region: Abi; pfam02517 235909006862 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 235909006863 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 235909006864 ATP binding site [chemical binding]; other site 235909006865 putative Mg++ binding site [ion binding]; other site 235909006866 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 235909006867 nucleotide binding region [chemical binding]; other site 235909006868 ATP-binding site [chemical binding]; other site 235909006869 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 235909006870 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 235909006871 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 235909006872 dimer interface [polypeptide binding]; other site 235909006873 substrate binding site [chemical binding]; other site 235909006874 metal binding sites [ion binding]; metal-binding site 235909006875 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 235909006876 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 235909006877 ligand binding site [chemical binding]; other site 235909006878 NAD binding site [chemical binding]; other site 235909006879 dimerization interface [polypeptide binding]; other site 235909006880 catalytic site [active] 235909006881 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 235909006882 putative L-serine binding site [chemical binding]; other site 235909006883 histidinol-phosphatase; Provisional; Region: PRK07328 235909006884 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 235909006885 active site 235909006886 dimer interface [polypeptide binding]; other site 235909006887 Probable transposase; Region: OrfB_IS605; pfam01385 235909006888 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 235909006889 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 235909006890 Transposase IS200 like; Region: Y1_Tnp; pfam01797 235909006891 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 235909006892 Transposase; Region: DDE_Tnp_ISL3; pfam01610 235909006893 RNA polymerase sigma factor SigX; Provisional; Region: PRK09639 235909006894 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 235909006895 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 235909006896 DNA binding residues [nucleotide binding] 235909006897 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 235909006898 ATP binding site [chemical binding]; other site 235909006899 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 235909006900 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 235909006901 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 235909006902 catalytic core [active] 235909006903 cobalamin synthase; Reviewed; Region: cobS; PRK00235 235909006904 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; pfam02283 235909006905 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 235909006906 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 235909006907 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909006908 homodimer interface [polypeptide binding]; other site 235909006909 catalytic residue [active] 235909006910 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 235909006911 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 235909006912 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 235909006913 Walker A/P-loop; other site 235909006914 ATP binding site [chemical binding]; other site 235909006915 Q-loop/lid; other site 235909006916 ABC transporter signature motif; other site 235909006917 Walker B; other site 235909006918 D-loop; other site 235909006919 H-loop/switch region; other site 235909006920 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 235909006921 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 235909006922 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 235909006923 putative PBP binding regions; other site 235909006924 ABC-ATPase subunit interface; other site 235909006925 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 235909006926 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 235909006927 putative binding site residues; other site 235909006928 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 235909006929 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 235909006930 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 235909006931 pentamer interface [polypeptide binding]; other site 235909006932 dodecaamer interface [polypeptide binding]; other site 235909006933 amino acid transporter; Region: 2A0306; TIGR00909 235909006934 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 235909006935 Site-specific recombinase; Region: SpecificRecomb; cl15411 235909006936 Response regulator receiver domain; Region: Response_reg; pfam00072 235909006937 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909006938 active site 235909006939 phosphorylation site [posttranslational modification] 235909006940 intermolecular recognition site; other site 235909006941 dimerization interface [polypeptide binding]; other site 235909006942 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 235909006943 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 235909006944 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 235909006945 Histidine kinase; Region: His_kinase; pfam06580 235909006946 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 235909006947 Mg2+ binding site [ion binding]; other site 235909006948 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 235909006949 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 235909006950 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 235909006951 DNA-binding site [nucleotide binding]; DNA binding site 235909006952 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 235909006953 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 235909006954 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 235909006955 active site 235909006956 trimer interface [polypeptide binding]; other site 235909006957 allosteric site; other site 235909006958 active site lid [active] 235909006959 hexamer (dimer of trimers) interface [polypeptide binding]; other site 235909006960 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 235909006961 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 235909006962 active site 235909006963 dimer interface [polypeptide binding]; other site 235909006964 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 235909006965 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 235909006966 dimerization interface [polypeptide binding]; other site 235909006967 PAS domain; Region: PAS; smart00091 235909006968 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 235909006969 dimer interface [polypeptide binding]; other site 235909006970 phosphorylation site [posttranslational modification] 235909006971 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909006972 ATP binding site [chemical binding]; other site 235909006973 Mg2+ binding site [ion binding]; other site 235909006974 G-X-G motif; other site 235909006975 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 235909006976 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909006977 active site 235909006978 phosphorylation site [posttranslational modification] 235909006979 intermolecular recognition site; other site 235909006980 dimerization interface [polypeptide binding]; other site 235909006981 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 235909006982 DNA binding site [nucleotide binding] 235909006983 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 235909006984 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 235909006985 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 235909006986 Double zinc ribbon; Region: DZR; pfam12773 235909006987 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 235909006988 ResB-like family; Region: ResB; pfam05140 235909006989 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 235909006990 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 235909006991 catalytic residues [active] 235909006992 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 235909006993 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 235909006994 RNA binding surface [nucleotide binding]; other site 235909006995 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 235909006996 active site 235909006997 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 235909006998 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 235909006999 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 235909007000 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 235909007001 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 235909007002 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 235909007003 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 235909007004 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 235909007005 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 235909007006 Domain of unknown function (DUF309); Region: DUF309; pfam03745 235909007007 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 235909007008 Coenzyme A binding pocket [chemical binding]; other site 235909007009 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 235909007010 homopentamer interface [polypeptide binding]; other site 235909007011 active site 235909007012 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 235909007013 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 235909007014 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 235909007015 dimerization interface [polypeptide binding]; other site 235909007016 active site 235909007017 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 235909007018 Lumazine binding domain; Region: Lum_binding; pfam00677 235909007019 Lumazine binding domain; Region: Lum_binding; pfam00677 235909007020 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 235909007021 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 235909007022 catalytic motif [active] 235909007023 Zn binding site [ion binding]; other site 235909007024 RibD C-terminal domain; Region: RibD_C; cl17279 235909007025 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; cd00317 235909007026 active site 235909007027 Predicted secreted protein [Function unknown]; Region: COG4086 235909007028 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 235909007029 diaminopimelate decarboxylase; Region: lysA; TIGR01048 235909007030 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 235909007031 active site 235909007032 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 235909007033 substrate binding site [chemical binding]; other site 235909007034 catalytic residues [active] 235909007035 dimer interface [polypeptide binding]; other site 235909007036 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 235909007037 Stage V sporulation protein AE1; Region: SpoVAE; pfam14097 235909007038 SpoVA protein; Region: SpoVA; pfam03862 235909007039 stage V sporulation protein AD; Validated; Region: PRK08304 235909007040 stage V sporulation protein AD; Provisional; Region: PRK12404 235909007041 SpoVA protein; Region: SpoVA; cl04298 235909007042 Stage V sporulation protein AB; Region: SpoVAB; pfam13782 235909007043 Stage V sporulation protein AA; Region: SporV_AA; pfam12164 235909007044 sporulation sigma factor SigF; Validated; Region: PRK05572 235909007045 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 235909007046 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 235909007047 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 235909007048 DNA binding residues [nucleotide binding] 235909007049 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 235909007050 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909007051 ATP binding site [chemical binding]; other site 235909007052 Mg2+ binding site [ion binding]; other site 235909007053 G-X-G motif; other site 235909007054 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cd06844 235909007055 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 235909007056 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 235909007057 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 235909007058 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 235909007059 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 235909007060 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 235909007061 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 235909007062 purine nucleoside phosphorylase; Provisional; Region: PRK08202 235909007063 phosphopentomutase; Provisional; Region: PRK05362 235909007064 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 235909007065 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 235909007066 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 235909007067 active site 235909007068 Int/Topo IB signature motif; other site 235909007069 Protein of unknown function (DUF4227); Region: DUF4227; pfam14004 235909007070 ferric uptake regulator; Provisional; Region: fur; PRK09462 235909007071 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 235909007072 metal binding site 2 [ion binding]; metal-binding site 235909007073 putative DNA binding helix; other site 235909007074 metal binding site 1 [ion binding]; metal-binding site 235909007075 dimer interface [polypeptide binding]; other site 235909007076 structural Zn2+ binding site [ion binding]; other site 235909007077 stage II sporulation protein M; Region: spo_II_M; TIGR02831 235909007078 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 235909007079 PHP-associated; Region: PHP_C; pfam13263 235909007080 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 235909007081 dimer interface [polypeptide binding]; other site 235909007082 ADP-ribose binding site [chemical binding]; other site 235909007083 active site 235909007084 nudix motif; other site 235909007085 metal binding site [ion binding]; metal-binding site 235909007086 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 235909007087 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 235909007088 active site 235909007089 catalytic tetrad [active] 235909007090 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 235909007091 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 235909007092 putative substrate translocation pore; other site 235909007093 Protein of unknown function (DUF2552); Region: DUF2552; pfam10827 235909007094 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 235909007095 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 235909007096 YqzH-like protein; Region: YqzH; pfam14164 235909007097 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 235909007098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 235909007099 NAD(P) binding site [chemical binding]; other site 235909007100 active site 235909007101 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 235909007102 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK07679 235909007103 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 235909007104 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 235909007105 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 235909007106 active site 235909007107 FMN binding site [chemical binding]; other site 235909007108 substrate binding site [chemical binding]; other site 235909007109 homotetramer interface [polypeptide binding]; other site 235909007110 catalytic residue [active] 235909007111 ribonuclease Z; Region: RNase_Z; TIGR02651 235909007112 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 235909007113 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 235909007114 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 235909007115 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 235909007116 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 235909007117 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 235909007118 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 235909007119 beta-galactosidase; Region: BGL; TIGR03356 235909007120 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 235909007121 Probable transposase; Region: OrfB_IS605; pfam01385 235909007122 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 235909007123 Uncharacterized conserved protein [Function unknown]; Region: COG3391 235909007124 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 235909007125 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909007126 active site 235909007127 phosphorylation site [posttranslational modification] 235909007128 intermolecular recognition site; other site 235909007129 dimerization interface [polypeptide binding]; other site 235909007130 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 235909007131 DNA binding site [nucleotide binding] 235909007132 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 235909007133 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909007134 ATP binding site [chemical binding]; other site 235909007135 Mg2+ binding site [ion binding]; other site 235909007136 G-X-G motif; other site 235909007137 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 235909007138 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 235909007139 Walker A/P-loop; other site 235909007140 ATP binding site [chemical binding]; other site 235909007141 Q-loop/lid; other site 235909007142 ABC transporter signature motif; other site 235909007143 Walker B; other site 235909007144 D-loop; other site 235909007145 H-loop/switch region; other site 235909007146 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 235909007147 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 235909007148 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 235909007149 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 235909007150 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 235909007151 peptidase T-like protein; Region: PepT-like; TIGR01883 235909007152 metal binding site [ion binding]; metal-binding site 235909007153 putative dimer interface [polypeptide binding]; other site 235909007154 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 235909007155 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 235909007156 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 235909007157 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 235909007158 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 235909007159 dimer interface [polypeptide binding]; other site 235909007160 substrate binding site [chemical binding]; other site 235909007161 metal binding site [ion binding]; metal-binding site 235909007162 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 235909007163 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 235909007164 Predicted membrane protein [Function unknown]; Region: COG4129 235909007165 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 235909007166 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 235909007167 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 235909007168 YwpF-like protein; Region: YwpF; pfam14183 235909007169 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 235909007170 Walker A/P-loop; other site 235909007171 ATP binding site [chemical binding]; other site 235909007172 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 235909007173 Probable transposase; Region: OrfB_IS605; pfam01385 235909007174 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 235909007175 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 235909007176 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 235909007177 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 235909007178 Walker A/P-loop; other site 235909007179 ATP binding site [chemical binding]; other site 235909007180 Q-loop/lid; other site 235909007181 ABC transporter signature motif; other site 235909007182 Walker B; other site 235909007183 D-loop; other site 235909007184 H-loop/switch region; other site 235909007185 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 235909007186 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 235909007187 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 235909007188 Walker A/P-loop; other site 235909007189 ATP binding site [chemical binding]; other site 235909007190 Q-loop/lid; other site 235909007191 ABC transporter signature motif; other site 235909007192 Walker B; other site 235909007193 D-loop; other site 235909007194 H-loop/switch region; other site 235909007195 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p; Region: HIRAN; smart00910 235909007196 Disulphide isomerase; Region: Disulph_isomer; pfam06491 235909007197 membrane ATPase/protein kinase; Provisional; Region: PRK09435 235909007198 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 235909007199 Walker A; other site 235909007200 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 235909007201 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 235909007202 active site 235909007203 substrate binding site [chemical binding]; other site 235909007204 coenzyme B12 binding site [chemical binding]; other site 235909007205 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 235909007206 B12 binding site [chemical binding]; other site 235909007207 cobalt ligand [ion binding]; other site 235909007208 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 235909007209 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 235909007210 heterodimer interface [polypeptide binding]; other site 235909007211 substrate interaction site [chemical binding]; other site 235909007212 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 235909007213 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 235909007214 putative active site [active] 235909007215 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 235909007216 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 235909007217 dimerization interface [polypeptide binding]; other site 235909007218 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 235909007219 dimer interface [polypeptide binding]; other site 235909007220 phosphorylation site [posttranslational modification] 235909007221 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909007222 ATP binding site [chemical binding]; other site 235909007223 Mg2+ binding site [ion binding]; other site 235909007224 G-X-G motif; other site 235909007225 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 235909007226 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909007227 active site 235909007228 phosphorylation site [posttranslational modification] 235909007229 intermolecular recognition site; other site 235909007230 dimerization interface [polypeptide binding]; other site 235909007231 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 235909007232 DNA binding site [nucleotide binding] 235909007233 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 235909007234 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 235909007235 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 235909007236 2-oxoisovalerate dehydrogenase E2 component; Region: PLN02528 235909007237 E3 interaction surface; other site 235909007238 lipoyl attachment site [posttranslational modification]; other site 235909007239 e3 binding domain; Region: E3_binding; pfam02817 235909007240 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 235909007241 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 235909007242 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 235909007243 alpha subunit interface [polypeptide binding]; other site 235909007244 TPP binding site [chemical binding]; other site 235909007245 heterodimer interface [polypeptide binding]; other site 235909007246 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 235909007247 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 235909007248 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 235909007249 tetramer interface [polypeptide binding]; other site 235909007250 TPP-binding site [chemical binding]; other site 235909007251 heterodimer interface [polypeptide binding]; other site 235909007252 phosphorylation loop region [posttranslational modification] 235909007253 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 235909007254 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 235909007255 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 235909007256 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 235909007257 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 235909007258 nucleotide binding site [chemical binding]; other site 235909007259 Acetokinase family; Region: Acetate_kinase; cl17229 235909007260 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 235909007261 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 235909007262 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 235909007263 NAD binding site [chemical binding]; other site 235909007264 Phe binding site; other site 235909007265 phosphate butyryltransferase; Validated; Region: PRK07742 235909007266 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 235909007267 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 235909007268 putative active site [active] 235909007269 heme pocket [chemical binding]; other site 235909007270 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 235909007271 putative active site [active] 235909007272 heme pocket [chemical binding]; other site 235909007273 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 235909007274 Walker A motif; other site 235909007275 ATP binding site [chemical binding]; other site 235909007276 Walker B motif; other site 235909007277 arginine finger; other site 235909007278 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 235909007279 Protein of unknown function (DUF2627); Region: DUF2627; pfam11118 235909007280 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 235909007281 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 235909007282 active site 235909007283 catalytic site [active] 235909007284 metal binding site [ion binding]; metal-binding site 235909007285 dimer interface [polypeptide binding]; other site 235909007286 YycC-like protein; Region: YycC; pfam14174 235909007287 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 235909007288 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909007289 active site 235909007290 phosphorylation site [posttranslational modification] 235909007291 intermolecular recognition site; other site 235909007292 dimerization interface [polypeptide binding]; other site 235909007293 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 235909007294 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 235909007295 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 235909007296 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 235909007297 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 235909007298 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 235909007299 Walker A/P-loop; other site 235909007300 ATP binding site [chemical binding]; other site 235909007301 Q-loop/lid; other site 235909007302 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 235909007303 ABC transporter signature motif; other site 235909007304 Walker B; other site 235909007305 D-loop; other site 235909007306 H-loop/switch region; other site 235909007307 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 235909007308 arginine repressor; Provisional; Region: PRK04280 235909007309 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 235909007310 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 235909007311 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 235909007312 RNA binding surface [nucleotide binding]; other site 235909007313 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 235909007314 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 235909007315 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 235909007316 TPP-binding site; other site 235909007317 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 235909007318 PYR/PP interface [polypeptide binding]; other site 235909007319 dimer interface [polypeptide binding]; other site 235909007320 TPP binding site [chemical binding]; other site 235909007321 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 235909007322 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 235909007323 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 235909007324 substrate binding pocket [chemical binding]; other site 235909007325 chain length determination region; other site 235909007326 substrate-Mg2+ binding site; other site 235909007327 catalytic residues [active] 235909007328 aspartate-rich region 1; other site 235909007329 active site lid residues [active] 235909007330 aspartate-rich region 2; other site 235909007331 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14063 235909007332 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 235909007333 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 235909007334 generic binding surface II; other site 235909007335 generic binding surface I; other site 235909007336 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 235909007337 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 235909007338 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 235909007339 homodimer interface [polypeptide binding]; other site 235909007340 NADP binding site [chemical binding]; other site 235909007341 substrate binding site [chemical binding]; other site 235909007342 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 235909007343 putative RNA binding site [nucleotide binding]; other site 235909007344 Asp23 family; Region: Asp23; pfam03780 235909007345 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 235909007346 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 235909007347 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 235909007348 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 235909007349 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 235909007350 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 235909007351 carboxyltransferase (CT) interaction site; other site 235909007352 biotinylation site [posttranslational modification]; other site 235909007353 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 235909007354 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 235909007355 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 235909007356 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 235909007357 stage III sporulation protein AD; Region: spore_III_AD; TIGR02849 235909007358 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 235909007359 stage III sporulation protein SpoAB; Provisional; Region: PRK08307 235909007360 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 235909007361 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 235909007362 Walker A motif; other site 235909007363 ATP binding site [chemical binding]; other site 235909007364 Walker B motif; other site 235909007365 Protein of unknown function (DUF2619); Region: DUF2619; pfam10942 235909007366 elongation factor P; Validated; Region: PRK00529 235909007367 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 235909007368 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 235909007369 RNA binding site [nucleotide binding]; other site 235909007370 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 235909007371 RNA binding site [nucleotide binding]; other site 235909007372 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 235909007373 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 235909007374 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 235909007375 active site 235909007376 Conserved membrane protein YqhR; Region: YqhR; pfam11085 235909007377 Predicted metal-dependent enzyme [General function prediction only]; Region: COG3872 235909007378 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 235909007379 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 235909007380 active site 235909007381 nucleophile elbow; other site 235909007382 manganese transport transcriptional regulator; Provisional; Region: PRK03902 235909007383 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 235909007384 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 235909007385 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 235909007386 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 235909007387 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 235909007388 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 235909007389 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 235909007390 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 235909007391 active site 235909007392 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08115 235909007393 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 235909007394 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 235909007395 active site 235909007396 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 235909007397 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 235909007398 active site residue [active] 235909007399 MarR family; Region: MarR_2; pfam12802 235909007400 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 235909007401 ROK family; Region: ROK; pfam00480 235909007402 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 235909007403 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 235909007404 tetramer interface [polypeptide binding]; other site 235909007405 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909007406 catalytic residue [active] 235909007407 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 235909007408 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 235909007409 tetramer interface [polypeptide binding]; other site 235909007410 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909007411 catalytic residue [active] 235909007412 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 235909007413 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 235909007414 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 235909007415 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 235909007416 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 235909007417 ATP binding site [chemical binding]; other site 235909007418 putative Mg++ binding site [ion binding]; other site 235909007419 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 235909007420 nucleotide binding region [chemical binding]; other site 235909007421 ATP-binding site [chemical binding]; other site 235909007422 Bacterial protein YqhG of unknown function; Region: YqhG; pfam11079 235909007423 YqzE-like protein; Region: YqzE; pfam14038 235909007424 ComG operon protein 7; Region: ComGG; pfam14173 235909007425 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 235909007426 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 235909007427 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 235909007428 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 235909007429 Type II/IV secretion system protein; Region: T2SE; pfam00437 235909007430 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 235909007431 Walker A motif; other site 235909007432 ATP binding site [chemical binding]; other site 235909007433 Walker B motif; other site 235909007434 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 235909007435 putative DNA binding site [nucleotide binding]; other site 235909007436 dimerization interface [polypeptide binding]; other site 235909007437 Predicted transcriptional regulator [Transcription]; Region: COG2345 235909007438 putative Zn2+ binding site [ion binding]; other site 235909007439 Protein of unknown function (DUF2626); Region: DUF2626; pfam11117 235909007440 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 235909007441 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 235909007442 Protein of unknown function (DUF2759); Region: DUF2759; pfam10958 235909007443 Peptidase M14 carboxypeptidase family-like domain of Endopeptidase I; Region: M14_Endopeptidase_I; cd06229 235909007444 putative active site [active] 235909007445 Zn binding site [ion binding]; other site 235909007446 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 235909007447 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 235909007448 nucleotide binding site [chemical binding]; other site 235909007449 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 235909007450 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 235909007451 Rhomboid family; Region: Rhomboid; pfam01694 235909007452 Integral membrane protein DUF92; Region: DUF92; pfam01940 235909007453 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 235909007454 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 235909007455 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 235909007456 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 235909007457 YceG-like family; Region: YceG; pfam02618 235909007458 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 235909007459 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 235909007460 Walker A/P-loop; other site 235909007461 ATP binding site [chemical binding]; other site 235909007462 Q-loop/lid; other site 235909007463 ABC transporter signature motif; other site 235909007464 Walker B; other site 235909007465 D-loop; other site 235909007466 H-loop/switch region; other site 235909007467 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 235909007468 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 235909007469 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 235909007470 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 235909007471 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 235909007472 Major Facilitator Superfamily; Region: MFS_1; pfam07690 235909007473 putative substrate translocation pore; other site 235909007474 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 235909007475 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 235909007476 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 235909007477 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 235909007478 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 235909007479 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 235909007480 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 235909007481 dimer interface [polypeptide binding]; other site 235909007482 conserved gate region; other site 235909007483 putative PBP binding loops; other site 235909007484 ABC-ATPase subunit interface; other site 235909007485 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 235909007486 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 235909007487 dimer interface [polypeptide binding]; other site 235909007488 conserved gate region; other site 235909007489 putative PBP binding loops; other site 235909007490 ABC-ATPase subunit interface; other site 235909007491 phosphate binding protein; Region: ptsS_2; TIGR02136 235909007492 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 235909007493 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 235909007494 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 235909007495 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 235909007496 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 235909007497 Uncharacterized conserved protein [Function unknown]; Region: COG5663 235909007498 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 235909007499 metal binding site 2 [ion binding]; metal-binding site 235909007500 putative DNA binding helix; other site 235909007501 metal binding site 1 [ion binding]; metal-binding site 235909007502 dimer interface [polypeptide binding]; other site 235909007503 structural Zn2+ binding site [ion binding]; other site 235909007504 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 235909007505 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 235909007506 ABC-ATPase subunit interface; other site 235909007507 dimer interface [polypeptide binding]; other site 235909007508 putative PBP binding regions; other site 235909007509 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 235909007510 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 235909007511 Uncharacterized conserved protein [Function unknown]; Region: COG1284 235909007512 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 235909007513 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 235909007514 Protein of unknown function (DUF2624); Region: DUF2624; pfam11116 235909007515 endonuclease IV; Provisional; Region: PRK01060 235909007516 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 235909007517 AP (apurinic/apyrimidinic) site pocket; other site 235909007518 DNA interaction; other site 235909007519 Metal-binding active site; metal-binding site 235909007520 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 235909007521 DEAD-like helicases superfamily; Region: DEXDc; smart00487 235909007522 ATP binding site [chemical binding]; other site 235909007523 Mg++ binding site [ion binding]; other site 235909007524 motif III; other site 235909007525 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 235909007526 nucleotide binding region [chemical binding]; other site 235909007527 ATP-binding site [chemical binding]; other site 235909007528 YqfQ-like protein; Region: YqfQ; pfam14181 235909007529 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 235909007530 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 235909007531 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 235909007532 Uncharacterized conserved protein [Function unknown]; Region: COG0327 235909007533 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 235909007534 Uncharacterized conserved protein [Function unknown]; Region: COG0327 235909007535 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 235909007536 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 235909007537 Family of unknown function (DUF633); Region: DUF633; pfam04816 235909007538 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 235909007539 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 235909007540 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 235909007541 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 235909007542 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 235909007543 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 235909007544 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 235909007545 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 235909007546 DNA binding residues [nucleotide binding] 235909007547 DNA primase; Validated; Region: dnaG; PRK05667 235909007548 CHC2 zinc finger; Region: zf-CHC2; pfam01807 235909007549 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 235909007550 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 235909007551 active site 235909007552 metal binding site [ion binding]; metal-binding site 235909007553 interdomain interaction site; other site 235909007554 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 235909007555 PEP synthetase regulatory protein; Provisional; Region: PRK05339 235909007556 HTH domain; Region: HTH_11; pfam08279 235909007557 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_4; cd04617 235909007558 FOG: CBS domain [General function prediction only]; Region: COG0517 235909007559 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 235909007560 Recombination protein O N terminal; Region: RecO_N; pfam11967 235909007561 Recombination protein O C terminal; Region: RecO_C; pfam02565 235909007562 YqzL-like protein; Region: YqzL; pfam14006 235909007563 GTPase Era; Reviewed; Region: era; PRK00089 235909007564 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 235909007565 G1 box; other site 235909007566 GTP/Mg2+ binding site [chemical binding]; other site 235909007567 Switch I region; other site 235909007568 G2 box; other site 235909007569 Switch II region; other site 235909007570 G3 box; other site 235909007571 G4 box; other site 235909007572 G5 box; other site 235909007573 KH domain; Region: KH_2; pfam07650 235909007574 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 235909007575 active site 235909007576 catalytic motif [active] 235909007577 Zn binding site [ion binding]; other site 235909007578 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 235909007579 metal-binding heat shock protein; Provisional; Region: PRK00016 235909007580 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 235909007581 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 235909007582 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 235909007583 Zn2+ binding site [ion binding]; other site 235909007584 Mg2+ binding site [ion binding]; other site 235909007585 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 235909007586 PhoH-like protein; Region: PhoH; pfam02562 235909007587 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 235909007588 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 235909007589 sporulation protein YqfC; Region: spore_yqfC; TIGR02856 235909007590 Yqey-like protein; Region: YqeY; pfam09424 235909007591 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 235909007592 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 235909007593 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 235909007594 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 235909007595 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 235909007596 intersubunit interface [polypeptide binding]; other site 235909007597 active site 235909007598 catalytic residue [active] 235909007599 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 235909007600 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 235909007601 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 235909007602 FeS/SAM binding site; other site 235909007603 TRAM domain; Region: TRAM; pfam01938 235909007604 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 235909007605 RNA methyltransferase, RsmE family; Region: TIGR00046 235909007606 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 235909007607 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 235909007608 S-adenosylmethionine binding site [chemical binding]; other site 235909007609 chaperone protein DnaJ; Provisional; Region: PRK14280 235909007610 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 235909007611 HSP70 interaction site [polypeptide binding]; other site 235909007612 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 235909007613 substrate binding site [polypeptide binding]; other site 235909007614 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 235909007615 Zn binding sites [ion binding]; other site 235909007616 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 235909007617 dimer interface [polypeptide binding]; other site 235909007618 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 235909007619 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 235909007620 nucleotide binding site [chemical binding]; other site 235909007621 NEF interaction site [polypeptide binding]; other site 235909007622 SBD interface [polypeptide binding]; other site 235909007623 heat shock protein GrpE; Provisional; Region: PRK14140 235909007624 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 235909007625 dimer interface [polypeptide binding]; other site 235909007626 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 235909007627 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 235909007628 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 235909007629 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 235909007630 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 235909007631 FeS/SAM binding site; other site 235909007632 HemN C-terminal domain; Region: HemN_C; pfam06969 235909007633 GTP-binding protein LepA; Provisional; Region: PRK05433 235909007634 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 235909007635 G1 box; other site 235909007636 putative GEF interaction site [polypeptide binding]; other site 235909007637 GTP/Mg2+ binding site [chemical binding]; other site 235909007638 Switch I region; other site 235909007639 G2 box; other site 235909007640 G3 box; other site 235909007641 Switch II region; other site 235909007642 G4 box; other site 235909007643 G5 box; other site 235909007644 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 235909007645 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 235909007646 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 235909007647 Protein of unknown function (DUF3679); Region: DUF3679; pfam12438 235909007648 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 235909007649 stage II sporulation protein P; Region: spore_II_P; TIGR02867 235909007650 germination protease; Provisional; Region: PRK02858 235909007651 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 235909007652 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 235909007653 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 235909007654 YqzM-like protein; Region: YqzM; pfam14141 235909007655 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 235909007656 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 235909007657 Competence protein; Region: Competence; pfam03772 235909007658 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 235909007659 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 235909007660 catalytic motif [active] 235909007661 Zn binding site [ion binding]; other site 235909007662 SLBB domain; Region: SLBB; pfam10531 235909007663 comEA protein; Region: comE; TIGR01259 235909007664 late competence protein ComER; Validated; Region: PRK07680 235909007665 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 235909007666 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 235909007667 S-adenosylmethionine binding site [chemical binding]; other site 235909007668 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 235909007669 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 235909007670 Zn2+ binding site [ion binding]; other site 235909007671 Mg2+ binding site [ion binding]; other site 235909007672 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 235909007673 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 235909007674 active site 235909007675 (T/H)XGH motif; other site 235909007676 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 235909007677 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 235909007678 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 235909007679 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 235909007680 shikimate binding site; other site 235909007681 NAD(P) binding site [chemical binding]; other site 235909007682 GTPase YqeH; Provisional; Region: PRK13796 235909007683 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 235909007684 GTP/Mg2+ binding site [chemical binding]; other site 235909007685 G4 box; other site 235909007686 G5 box; other site 235909007687 G1 box; other site 235909007688 Switch I region; other site 235909007689 G2 box; other site 235909007690 G3 box; other site 235909007691 Switch II region; other site 235909007692 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 235909007693 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 235909007694 active site 235909007695 motif I; other site 235909007696 motif II; other site 235909007697 Sporulation inhibitor A; Region: Sda; pfam08970 235909007698 phosphatidylserine decarboxylase; Provisional; Region: PRK03140 235909007699 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 235909007700 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 235909007701 flagellar motor protein MotA; Validated; Region: PRK08124 235909007702 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 235909007703 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 235909007704 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 235909007705 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 235909007706 ligand binding site [chemical binding]; other site 235909007707 sporulation integral membrane protein YtvI; Region: spore_ytvI; TIGR02872 235909007708 Domain of unknown function DUF20; Region: UPF0118; pfam01594 235909007709 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 235909007710 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 235909007711 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 235909007712 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 235909007713 sporulation sigma factor SigK; Reviewed; Region: PRK05803 235909007714 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 235909007715 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 235909007716 DNA binding residues [nucleotide binding] 235909007717 YrhC-like protein; Region: YrhC; pfam14143 235909007718 cystathionine beta-lyase; Provisional; Region: PRK07671 235909007719 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 235909007720 homodimer interface [polypeptide binding]; other site 235909007721 substrate-cofactor binding pocket; other site 235909007722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909007723 catalytic residue [active] 235909007724 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 235909007725 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 235909007726 dimer interface [polypeptide binding]; other site 235909007727 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909007728 catalytic residue [active] 235909007729 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 235909007730 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 235909007731 Methyltransferase domain; Region: Methyltransf_23; pfam13489 235909007732 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 235909007733 S-adenosylmethionine binding site [chemical binding]; other site 235909007734 Protein of unknown function (DUF2536); Region: DUF2536; pfam10750 235909007735 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 235909007736 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 235909007737 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 235909007738 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 235909007739 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 235909007740 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 235909007741 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 235909007742 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 235909007743 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 235909007744 Sugar specificity; other site 235909007745 Pyrimidine base specificity; other site 235909007746 ATP-binding site [chemical binding]; other site 235909007747 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 235909007748 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 235909007749 Peptidase family U32; Region: Peptidase_U32; pfam01136 235909007750 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 235909007751 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 235909007752 Peptidase family U32; Region: Peptidase_U32; pfam01136 235909007753 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 235909007754 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 235909007755 S-adenosylmethionine binding site [chemical binding]; other site 235909007756 YceG-like family; Region: YceG; pfam02618 235909007757 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 235909007758 dimerization interface [polypeptide binding]; other site 235909007759 hypothetical protein; Provisional; Region: PRK13678 235909007760 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 235909007761 hypothetical protein; Provisional; Region: PRK05473 235909007762 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 235909007763 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 235909007764 motif 1; other site 235909007765 active site 235909007766 motif 2; other site 235909007767 motif 3; other site 235909007768 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 235909007769 DHHA1 domain; Region: DHHA1; pfam02272 235909007770 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 235909007771 Domain of unknown function DUF20; Region: UPF0118; pfam01594 235909007772 PRC-barrel domain; Region: PRC; pfam05239 235909007773 PRC-barrel domain; Region: PRC; pfam05239 235909007774 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 235909007775 AAA domain; Region: AAA_30; pfam13604 235909007776 Family description; Region: UvrD_C_2; pfam13538 235909007777 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 235909007778 binding surface 235909007779 TPR repeat; Region: TPR_11; pfam13414 235909007780 TPR motif; other site 235909007781 TPR repeat; Region: TPR_11; pfam13414 235909007782 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 235909007783 binding surface 235909007784 TPR motif; other site 235909007785 TPR repeat; Region: TPR_11; pfam13414 235909007786 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 235909007787 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 235909007788 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 235909007789 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 235909007790 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 235909007791 catalytic residue [active] 235909007792 Predicted transcriptional regulator [Transcription]; Region: COG1959 235909007793 Transcriptional regulator; Region: Rrf2; pfam02082 235909007794 Predicted membrane protein [Function unknown]; Region: COG2364 235909007795 recombination factor protein RarA; Reviewed; Region: PRK13342 235909007796 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 235909007797 Walker A motif; other site 235909007798 ATP binding site [chemical binding]; other site 235909007799 Walker B motif; other site 235909007800 arginine finger; other site 235909007801 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 235909007802 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 235909007803 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 235909007804 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 235909007805 Protein export membrane protein; Region: SecD_SecF; cl14618 235909007806 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 235909007807 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 235909007808 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 235909007809 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 235909007810 putative ATP binding site [chemical binding]; other site 235909007811 putative substrate interface [chemical binding]; other site 235909007812 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 235909007813 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 235909007814 dimer interface [polypeptide binding]; other site 235909007815 anticodon binding site; other site 235909007816 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 235909007817 homodimer interface [polypeptide binding]; other site 235909007818 motif 1; other site 235909007819 active site 235909007820 motif 2; other site 235909007821 GAD domain; Region: GAD; pfam02938 235909007822 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 235909007823 motif 3; other site 235909007824 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 235909007825 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 235909007826 dimer interface [polypeptide binding]; other site 235909007827 motif 1; other site 235909007828 active site 235909007829 motif 2; other site 235909007830 motif 3; other site 235909007831 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 235909007832 anticodon binding site; other site 235909007833 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 235909007834 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 235909007835 catalytic residue [active] 235909007836 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 235909007837 catalytic residues [active] 235909007838 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 235909007839 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 235909007840 peroxiredoxin; Region: AhpC; TIGR03137 235909007841 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 235909007842 dimer interface [polypeptide binding]; other site 235909007843 decamer (pentamer of dimers) interface [polypeptide binding]; other site 235909007844 catalytic triad [active] 235909007845 peroxidatic and resolving cysteines [active] 235909007846 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 235909007847 putative active site [active] 235909007848 dimerization interface [polypeptide binding]; other site 235909007849 putative tRNAtyr binding site [nucleotide binding]; other site 235909007850 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 235909007851 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 235909007852 Zn2+ binding site [ion binding]; other site 235909007853 Mg2+ binding site [ion binding]; other site 235909007854 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 235909007855 synthetase active site [active] 235909007856 NTP binding site [chemical binding]; other site 235909007857 metal binding site [ion binding]; metal-binding site 235909007858 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 235909007859 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 235909007860 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 235909007861 active site 235909007862 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 235909007863 DHH family; Region: DHH; pfam01368 235909007864 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 235909007865 DHHA1 domain; Region: DHHA1; pfam02272 235909007866 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 235909007867 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 235909007868 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 235909007869 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 235909007870 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 235909007871 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 235909007872 Protein export membrane protein; Region: SecD_SecF; pfam02355 235909007873 Post-transcriptional regulator; Region: Post_transc_reg; pfam13797 235909007874 stage V sporulation protein B; Region: spore_V_B; TIGR02900 235909007875 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 235909007876 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 235909007877 Preprotein translocase subunit; Region: YajC; pfam02699 235909007878 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 235909007879 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 235909007880 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 235909007881 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 235909007882 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 235909007883 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 235909007884 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 235909007885 Walker A motif; other site 235909007886 ATP binding site [chemical binding]; other site 235909007887 Walker B motif; other site 235909007888 arginine finger; other site 235909007889 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 235909007890 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 235909007891 RuvA N terminal domain; Region: RuvA_N; pfam01330 235909007892 Bypass of Forespore C, N terminal; Region: BOFC_N; pfam08977 235909007893 BofC C-terminal domain; Region: BofC_C; pfam08955 235909007894 hypothetical protein; Validated; Region: PRK00110 235909007895 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 235909007896 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 235909007897 NAD synthetase; Provisional; Region: PRK13980 235909007898 homodimer interface [polypeptide binding]; other site 235909007899 NAD binding pocket [chemical binding]; other site 235909007900 ATP binding pocket [chemical binding]; other site 235909007901 Mg binding site [ion binding]; other site 235909007902 active-site loop [active] 235909007903 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 235909007904 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 235909007905 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 235909007906 quinolinate synthetase; Provisional; Region: PRK09375 235909007907 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK08072 235909007908 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 235909007909 dimerization interface [polypeptide binding]; other site 235909007910 active site 235909007911 L-aspartate oxidase; Provisional; Region: PRK08071 235909007912 L-aspartate oxidase; Provisional; Region: PRK06175 235909007913 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 235909007914 cysteine desulfurase; Provisional; Region: PRK02948 235909007915 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 235909007916 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 235909007917 catalytic residue [active] 235909007918 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 235909007919 HTH domain; Region: HTH_11; pfam08279 235909007920 3H domain; Region: 3H; pfam02829 235909007921 prephenate dehydratase; Provisional; Region: PRK11898 235909007922 Prephenate dehydratase; Region: PDT; pfam00800 235909007923 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 235909007924 putative L-Phe binding site [chemical binding]; other site 235909007925 hypothetical protein; Provisional; Region: PRK04435 235909007926 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 235909007927 GTPase CgtA; Reviewed; Region: obgE; PRK12297 235909007928 GTP1/OBG; Region: GTP1_OBG; pfam01018 235909007929 Obg GTPase; Region: Obg; cd01898 235909007930 G1 box; other site 235909007931 GTP/Mg2+ binding site [chemical binding]; other site 235909007932 Switch I region; other site 235909007933 G2 box; other site 235909007934 G3 box; other site 235909007935 Switch II region; other site 235909007936 G4 box; other site 235909007937 G5 box; other site 235909007938 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 235909007939 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 235909007940 hypothetical protein; Provisional; Region: PRK14553 235909007941 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 235909007942 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 235909007943 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 235909007944 Peptidase family M50; Region: Peptidase_M50; pfam02163 235909007945 active site 235909007946 putative substrate binding region [chemical binding]; other site 235909007947 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 235909007948 Peptidase family M23; Region: Peptidase_M23; pfam01551 235909007949 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 235909007950 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 235909007951 Switch I; other site 235909007952 Switch II; other site 235909007953 septum formation inhibitor; Reviewed; Region: minC; PRK00513 235909007954 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 235909007955 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 235909007956 rod shape-determining protein MreC; Provisional; Region: PRK13922 235909007957 rod shape-determining protein MreC; Region: MreC; pfam04085 235909007958 rod shape-determining protein MreB; Provisional; Region: PRK13927 235909007959 MreB and similar proteins; Region: MreB_like; cd10225 235909007960 nucleotide binding site [chemical binding]; other site 235909007961 Mg binding site [ion binding]; other site 235909007962 putative protofilament interaction site [polypeptide binding]; other site 235909007963 RodZ interaction site [polypeptide binding]; other site 235909007964 hypothetical protein; Reviewed; Region: PRK00024 235909007965 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 235909007966 helix-hairpin-helix signature motif; other site 235909007967 active site 235909007968 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 235909007969 MPN+ (JAMM) motif; other site 235909007970 Zinc-binding site [ion binding]; other site 235909007971 Maf-like protein; Region: Maf; pfam02545 235909007972 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 235909007973 active site 235909007974 dimer interface [polypeptide binding]; other site 235909007975 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 235909007976 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 235909007977 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 235909007978 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 235909007979 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 235909007980 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 235909007981 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 235909007982 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 235909007983 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 235909007984 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 235909007985 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 235909007986 Walker A motif; other site 235909007987 ATP binding site [chemical binding]; other site 235909007988 Walker B motif; other site 235909007989 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 235909007990 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 235909007991 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 235909007992 Walker A motif; other site 235909007993 ATP binding site [chemical binding]; other site 235909007994 Walker B motif; other site 235909007995 VanW like protein; Region: VanW; pfam04294 235909007996 G5 domain; Region: G5; pfam07501 235909007997 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 235909007998 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 235909007999 metal ion-dependent adhesion site (MIDAS); other site 235909008000 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 235909008001 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 235909008002 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 235909008003 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 235909008004 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 235909008005 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 235909008006 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 235909008007 active site 235909008008 HIGH motif; other site 235909008009 nucleotide binding site [chemical binding]; other site 235909008010 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 235909008011 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 235909008012 active site 235909008013 KMSKS motif; other site 235909008014 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 235909008015 tRNA binding surface [nucleotide binding]; other site 235909008016 anticodon binding site; other site 235909008017 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 235909008018 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 235909008019 stage VI sporulation protein D; Region: spore_VI_D; TIGR02907 235909008020 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 235909008021 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 235909008022 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 235909008023 inhibitor-cofactor binding pocket; inhibition site 235909008024 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909008025 catalytic residue [active] 235909008026 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; cd00384 235909008027 dimer interface [polypeptide binding]; other site 235909008028 active site 235909008029 Schiff base residues; other site 235909008030 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 235909008031 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 235909008032 active site 235909008033 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 235909008034 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 235909008035 domain interfaces; other site 235909008036 active site 235909008037 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 235909008038 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 235909008039 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 235909008040 tRNA; other site 235909008041 putative tRNA binding site [nucleotide binding]; other site 235909008042 putative NADP binding site [chemical binding]; other site 235909008043 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 235909008044 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 235909008045 G1 box; other site 235909008046 GTP/Mg2+ binding site [chemical binding]; other site 235909008047 Switch I region; other site 235909008048 G2 box; other site 235909008049 G3 box; other site 235909008050 Switch II region; other site 235909008051 G4 box; other site 235909008052 G5 box; other site 235909008053 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 235909008054 Found in ATP-dependent protease La (LON); Region: LON; smart00464 235909008055 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 235909008056 Walker A motif; other site 235909008057 ATP binding site [chemical binding]; other site 235909008058 Walker B motif; other site 235909008059 arginine finger; other site 235909008060 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 235909008061 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 235909008062 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 235909008063 Walker A motif; other site 235909008064 ATP binding site [chemical binding]; other site 235909008065 Walker B motif; other site 235909008066 arginine finger; other site 235909008067 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 235909008068 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 235909008069 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 235909008070 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 235909008071 Walker A motif; other site 235909008072 ATP binding site [chemical binding]; other site 235909008073 Walker B motif; other site 235909008074 arginine finger; other site 235909008075 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 235909008076 trigger factor; Provisional; Region: tig; PRK01490 235909008077 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 235909008078 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 235909008079 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 235909008080 binding surface 235909008081 Tetratricopeptide repeat; Region: TPR_16; pfam13432 235909008082 TPR motif; other site 235909008083 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 235909008084 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 235909008085 substrate binding site [chemical binding]; other site 235909008086 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 235909008087 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 235909008088 substrate binding site [chemical binding]; other site 235909008089 ligand binding site [chemical binding]; other site 235909008090 tartrate dehydrogenase; Region: TTC; TIGR02089 235909008091 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 235909008092 2-isopropylmalate synthase; Validated; Region: PRK00915 235909008093 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 235909008094 active site 235909008095 catalytic residues [active] 235909008096 metal binding site [ion binding]; metal-binding site 235909008097 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 235909008098 ketol-acid reductoisomerase; Provisional; Region: PRK05479 235909008099 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 235909008100 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 235909008101 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 235909008102 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 235909008103 putative valine binding site [chemical binding]; other site 235909008104 dimer interface [polypeptide binding]; other site 235909008105 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 235909008106 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07710 235909008107 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 235909008108 PYR/PP interface [polypeptide binding]; other site 235909008109 dimer interface [polypeptide binding]; other site 235909008110 TPP binding site [chemical binding]; other site 235909008111 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 235909008112 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 235909008113 TPP-binding site [chemical binding]; other site 235909008114 dimer interface [polypeptide binding]; other site 235909008115 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 235909008116 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 235909008117 homodimer interface [polypeptide binding]; other site 235909008118 substrate-cofactor binding pocket; other site 235909008119 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909008120 catalytic residue [active] 235909008121 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467; cl01853 235909008122 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 235909008123 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 235909008124 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 235909008125 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 235909008126 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 235909008127 active site 235909008128 metal binding site [ion binding]; metal-binding site 235909008129 homotetramer interface [polypeptide binding]; other site 235909008130 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 235909008131 active site 235909008132 dimerization interface [polypeptide binding]; other site 235909008133 ribonuclease PH; Reviewed; Region: rph; PRK00173 235909008134 Ribonuclease PH; Region: RNase_PH_bact; cd11362 235909008135 hexamer interface [polypeptide binding]; other site 235909008136 active site 235909008137 Spore germination protein [General function prediction only]; Region: COG5401 235909008138 Sporulation and spore germination; Region: Germane; pfam10646 235909008139 Sporulation and spore germination; Region: Germane; pfam10646 235909008140 glutamate racemase; Provisional; Region: PRK00865 235909008141 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 235909008142 MarR family; Region: MarR; pfam01047 235909008143 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 235909008144 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 235909008145 DNA binding residues [nucleotide binding] 235909008146 dimerization interface [polypeptide binding]; other site 235909008147 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 235909008148 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 235909008149 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 235909008150 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 235909008151 L-aspartate oxidase; Provisional; Region: PRK06175 235909008152 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 235909008153 Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus subtilis...; Region: SQR_TypeB_1_TM; cd03497 235909008154 putative Iron-sulfur protein interface [polypeptide binding]; other site 235909008155 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 235909008156 proximal heme binding site [chemical binding]; other site 235909008157 distal heme binding site [chemical binding]; other site 235909008158 putative dimer interface [polypeptide binding]; other site 235909008159 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 235909008160 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 235909008161 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 235909008162 GIY-YIG motif/motif A; other site 235909008163 active site 235909008164 catalytic site [active] 235909008165 putative DNA binding site [nucleotide binding]; other site 235909008166 metal binding site [ion binding]; metal-binding site 235909008167 UvrB/uvrC motif; Region: UVR; pfam02151 235909008168 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 235909008169 Iron permease FTR1 family; Region: FTR1; cl00475 235909008170 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 235909008171 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 235909008172 Ligand binding site; other site 235909008173 Putative Catalytic site; other site 235909008174 DXD motif; other site 235909008175 Sulfatase; Region: Sulfatase; cl17466 235909008176 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 235909008177 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 235909008178 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 235909008179 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 235909008180 NAD(P) binding site [chemical binding]; other site 235909008181 active site 235909008182 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 235909008183 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 235909008184 catalytic residues [active] 235909008185 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 235909008186 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 235909008187 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 235909008188 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 235909008189 Ligand binding site [chemical binding]; other site 235909008190 Electron transfer flavoprotein domain; Region: ETF; pfam01012 235909008191 enoyl-CoA hydratase; Provisional; Region: PRK07658 235909008192 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 235909008193 substrate binding site [chemical binding]; other site 235909008194 oxyanion hole (OAH) forming residues; other site 235909008195 trimer interface [polypeptide binding]; other site 235909008196 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 235909008197 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 235909008198 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 235909008199 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 235909008200 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 235909008201 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 235909008202 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 235909008203 acyl-activating enzyme (AAE) consensus motif; other site 235909008204 putative AMP binding site [chemical binding]; other site 235909008205 putative active site [active] 235909008206 putative CoA binding site [chemical binding]; other site 235909008207 Predicted membrane protein [Function unknown]; Region: COG3766 235909008208 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 235909008209 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 235909008210 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 235909008211 MutS domain III; Region: MutS_III; pfam05192 235909008212 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 235909008213 Walker A/P-loop; other site 235909008214 ATP binding site [chemical binding]; other site 235909008215 Q-loop/lid; other site 235909008216 ABC transporter signature motif; other site 235909008217 Walker B; other site 235909008218 D-loop; other site 235909008219 H-loop/switch region; other site 235909008220 Smr domain; Region: Smr; pfam01713 235909008221 hypothetical protein; Provisional; Region: PRK08609 235909008222 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 235909008223 active site 235909008224 primer binding site [nucleotide binding]; other site 235909008225 NTP binding site [chemical binding]; other site 235909008226 metal binding triad [ion binding]; metal-binding site 235909008227 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 235909008228 active site 235909008229 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 235909008230 Colicin V production protein; Region: Colicin_V; pfam02674 235909008231 cell division protein ZapA; Provisional; Region: PRK14126 235909008232 ribonuclease HIII; Provisional; Region: PRK00996 235909008233 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 235909008234 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 235909008235 RNA/DNA hybrid binding site [nucleotide binding]; other site 235909008236 active site 235909008237 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 235909008238 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 235909008239 potential catalytic triad [active] 235909008240 conserved cys residue [active] 235909008241 MMPL family; Region: MMPL; pfam03176 235909008242 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 235909008243 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 235909008244 MarR family; Region: MarR; pfam01047 235909008245 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 235909008246 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; cl15837 235909008247 active site 235909008248 dimer interface [polypeptide binding]; other site 235909008249 camphor resistance protein CrcB; Provisional; Region: PRK14205 235909008250 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 235909008251 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 235909008252 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 235909008253 Helix-turn-helix domain; Region: HTH_17; pfam12728 235909008254 PBP superfamily domain; Region: PBP_like; pfam12727 235909008255 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 235909008256 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 235909008257 putative tRNA-binding site [nucleotide binding]; other site 235909008258 B3/4 domain; Region: B3_4; pfam03483 235909008259 tRNA synthetase B5 domain; Region: B5; smart00874 235909008260 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 235909008261 dimer interface [polypeptide binding]; other site 235909008262 motif 1; other site 235909008263 motif 3; other site 235909008264 motif 2; other site 235909008265 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 235909008266 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 235909008267 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 235909008268 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 235909008269 dimer interface [polypeptide binding]; other site 235909008270 motif 1; other site 235909008271 active site 235909008272 motif 2; other site 235909008273 motif 3; other site 235909008274 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 235909008275 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 235909008276 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 235909008277 methionine sulfoxide reductase A; Provisional; Region: PRK14054 235909008278 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 235909008279 active site 235909008280 NTP binding site [chemical binding]; other site 235909008281 metal binding triad [ion binding]; metal-binding site 235909008282 antibiotic binding site [chemical binding]; other site 235909008283 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 235909008284 small acid-soluble spore protein SspI; Provisional; Region: PRK02955 235909008285 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 235909008286 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 235909008287 oligomer interface [polypeptide binding]; other site 235909008288 active site 235909008289 metal binding site [ion binding]; metal-binding site 235909008290 dUTPase; Region: dUTPase_2; pfam08761 235909008291 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 235909008292 active site 235909008293 homodimer interface [polypeptide binding]; other site 235909008294 metal binding site [ion binding]; metal-binding site 235909008295 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 235909008296 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 235909008297 23S rRNA binding site [nucleotide binding]; other site 235909008298 L21 binding site [polypeptide binding]; other site 235909008299 L13 binding site [polypeptide binding]; other site 235909008300 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 235909008301 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 235909008302 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 235909008303 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 235909008304 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 235909008305 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 235909008306 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 235909008307 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 235909008308 active site 235909008309 dimer interface [polypeptide binding]; other site 235909008310 motif 1; other site 235909008311 motif 2; other site 235909008312 motif 3; other site 235909008313 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 235909008314 anticodon binding site; other site 235909008315 putative sporulation protein YtxC; Region: spo_ytxC; TIGR02834 235909008316 primosomal protein DnaI; Reviewed; Region: PRK08939 235909008317 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 235909008318 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 235909008319 Walker A motif; other site 235909008320 ATP binding site [chemical binding]; other site 235909008321 Walker B motif; other site 235909008322 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 235909008323 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 235909008324 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 235909008325 ATP cone domain; Region: ATP-cone; pfam03477 235909008326 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 235909008327 S-adenosylmethionine decarboxylase proenzyme; Provisional; Region: PRK03124 235909008328 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 235909008329 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 235909008330 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 235909008331 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 235909008332 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 235909008333 CoA-binding site [chemical binding]; other site 235909008334 ATP-binding [chemical binding]; other site 235909008335 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 235909008336 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 235909008337 DNA binding site [nucleotide binding] 235909008338 catalytic residue [active] 235909008339 H2TH interface [polypeptide binding]; other site 235909008340 putative catalytic residues [active] 235909008341 turnover-facilitating residue; other site 235909008342 intercalation triad [nucleotide binding]; other site 235909008343 8OG recognition residue [nucleotide binding]; other site 235909008344 putative reading head residues; other site 235909008345 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 235909008346 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 235909008347 DNA polymerase I; Provisional; Region: PRK05755 235909008348 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 235909008349 active site 235909008350 metal binding site 1 [ion binding]; metal-binding site 235909008351 putative 5' ssDNA interaction site; other site 235909008352 metal binding site 3; metal-binding site 235909008353 metal binding site 2 [ion binding]; metal-binding site 235909008354 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 235909008355 putative DNA binding site [nucleotide binding]; other site 235909008356 putative metal binding site [ion binding]; other site 235909008357 DEDDy 3'-5' exonuclease domain of family-A DNA polymerases; Region: DNA_polA_exo; cd06128 235909008358 active site 235909008359 catalytic site [active] 235909008360 substrate binding site [chemical binding]; other site 235909008361 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 235909008362 active site 235909008363 DNA binding site [nucleotide binding] 235909008364 catalytic site [active] 235909008365 HAMP domain; Region: HAMP; pfam00672 235909008366 dimerization interface [polypeptide binding]; other site 235909008367 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 235909008368 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 235909008369 putative active site [active] 235909008370 heme pocket [chemical binding]; other site 235909008371 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 235909008372 dimer interface [polypeptide binding]; other site 235909008373 phosphorylation site [posttranslational modification] 235909008374 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909008375 ATP binding site [chemical binding]; other site 235909008376 Mg2+ binding site [ion binding]; other site 235909008377 G-X-G motif; other site 235909008378 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 235909008379 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909008380 active site 235909008381 phosphorylation site [posttranslational modification] 235909008382 intermolecular recognition site; other site 235909008383 dimerization interface [polypeptide binding]; other site 235909008384 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 235909008385 DNA binding site [nucleotide binding] 235909008386 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 235909008387 active site 2 [active] 235909008388 active site 1 [active] 235909008389 malate dehydrogenase; Reviewed; Region: PRK06223 235909008390 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 235909008391 NAD(P) binding site [chemical binding]; other site 235909008392 dimer interface [polypeptide binding]; other site 235909008393 tetramer (dimer of dimers) interface [polypeptide binding]; other site 235909008394 substrate binding site [chemical binding]; other site 235909008395 isocitrate dehydrogenase; Reviewed; Region: PRK07006 235909008396 isocitrate dehydrogenase; Validated; Region: PRK07362 235909008397 Bacillus subtilis (Bs) citrate synthase (CS)-II_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). 2MCS catalyzes the...; Region: BSuCS-II_like; cd06110 235909008398 dimer interface [polypeptide binding]; other site 235909008399 Citrate synthase; Region: Citrate_synt; pfam00285 235909008400 active site 235909008401 citrylCoA binding site [chemical binding]; other site 235909008402 oxalacetate/citrate binding site [chemical binding]; other site 235909008403 coenzyme A binding site [chemical binding]; other site 235909008404 catalytic triad [active] 235909008405 Protein of unknown function (DUF441); Region: DUF441; pfam04284 235909008406 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 235909008407 pyruvate kinase; Provisional; Region: PRK06354 235909008408 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 235909008409 domain interfaces; other site 235909008410 active site 235909008411 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 235909008412 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 235909008413 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 235909008414 active site 235909008415 ADP/pyrophosphate binding site [chemical binding]; other site 235909008416 dimerization interface [polypeptide binding]; other site 235909008417 allosteric effector site; other site 235909008418 fructose-1,6-bisphosphate binding site; other site 235909008419 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 235909008420 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 235909008421 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 235909008422 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 235909008423 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 235909008424 Transcriptional regulators [Transcription]; Region: FadR; COG2186 235909008425 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 235909008426 DNA-binding site [nucleotide binding]; DNA binding site 235909008427 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06920 235909008428 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 235909008429 active site 235909008430 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 235909008431 generic binding surface II; other site 235909008432 generic binding surface I; other site 235909008433 Sporulation protein YtrH; Region: Spore_YtrH; pfam14034 235909008434 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 235909008435 DHH family; Region: DHH; pfam01368 235909008436 DHHA1 domain; Region: DHHA1; pfam02272 235909008437 YtpI-like protein; Region: YtpI; pfam14007 235909008438 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 235909008439 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 235909008440 DNA-binding site [nucleotide binding]; DNA binding site 235909008441 DRTGG domain; Region: DRTGG; pfam07085 235909008442 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 235909008443 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 235909008444 active site 2 [active] 235909008445 active site 1 [active] 235909008446 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 235909008447 metal-dependent hydrolase; Provisional; Region: PRK00685 235909008448 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 235909008449 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 235909008450 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 235909008451 active site 235909008452 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 235909008453 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 235909008454 hexamer interface [polypeptide binding]; other site 235909008455 ligand binding site [chemical binding]; other site 235909008456 putative active site [active] 235909008457 NAD(P) binding site [chemical binding]; other site 235909008458 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 235909008459 classical (c) SDRs; Region: SDR_c; cd05233 235909008460 NAD(P) binding site [chemical binding]; other site 235909008461 active site 235909008462 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 235909008463 Ligand Binding Site [chemical binding]; other site 235909008464 argininosuccinate lyase; Provisional; Region: PRK00855 235909008465 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 235909008466 active sites [active] 235909008467 tetramer interface [polypeptide binding]; other site 235909008468 argininosuccinate synthase; Provisional; Region: PRK13820 235909008469 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 235909008470 ANP binding site [chemical binding]; other site 235909008471 Substrate Binding Site II [chemical binding]; other site 235909008472 Substrate Binding Site I [chemical binding]; other site 235909008473 acetyl-CoA synthetase; Provisional; Region: PRK04319 235909008474 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 235909008475 active site 235909008476 acyl-activating enzyme (AAE) consensus motif; other site 235909008477 putative CoA binding site [chemical binding]; other site 235909008478 AMP binding site [chemical binding]; other site 235909008479 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 235909008480 dimerization interface [polypeptide binding]; other site 235909008481 putative DNA binding site [nucleotide binding]; other site 235909008482 putative Zn2+ binding site [ion binding]; other site 235909008483 hypothetical protein; Provisional; Region: PRK07206 235909008484 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 235909008485 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 235909008486 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 235909008487 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 235909008488 Major Facilitator Superfamily; Region: MFS_1; pfam07690 235909008489 putative substrate translocation pore; other site 235909008490 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 235909008491 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 235909008492 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 235909008493 catalytic residue [active] 235909008494 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 235909008495 MPT binding site; other site 235909008496 trimer interface [polypeptide binding]; other site 235909008497 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 235909008498 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 235909008499 DNA binding residues [nucleotide binding] 235909008500 dimerization interface [polypeptide binding]; other site 235909008501 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 235909008502 Ribonucleotide Reductase R2-like protein, Mn/Fe-binding domain; Region: RNRR2_Rv0233_like; cd07911 235909008503 active site 235909008504 diiron metal binding site [ion binding]; other site 235909008505 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 235909008506 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 235909008507 NAD(P) binding site [chemical binding]; other site 235909008508 catalytic residues [active] 235909008509 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 235909008510 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 235909008511 NAD binding site [chemical binding]; other site 235909008512 catalytic Zn binding site [ion binding]; other site 235909008513 substrate binding site [chemical binding]; other site 235909008514 structural Zn binding site [ion binding]; other site 235909008515 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 235909008516 ABC1 family; Region: ABC1; cl17513 235909008517 Transmembrane proteins 14C; Region: Tmemb_14; cl02346 235909008518 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 235909008519 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 235909008520 dimer interface [polypeptide binding]; other site 235909008521 active site 235909008522 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 235909008523 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 235909008524 NAD(P) binding site [chemical binding]; other site 235909008525 active site 235909008526 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 235909008527 enoyl-CoA hydratase; Provisional; Region: PRK06688 235909008528 substrate binding site [chemical binding]; other site 235909008529 oxyanion hole (OAH) forming residues; other site 235909008530 trimer interface [polypeptide binding]; other site 235909008531 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 235909008532 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 235909008533 active site 235909008534 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 235909008535 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 235909008536 active site 235909008537 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 235909008538 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 235909008539 acyl-activating enzyme (AAE) consensus motif; other site 235909008540 putative AMP binding site [chemical binding]; other site 235909008541 putative active site [active] 235909008542 putative CoA binding site [chemical binding]; other site 235909008543 SCP-2 sterol transfer family; Region: SCP2; pfam02036 235909008544 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 235909008545 propionate/acetate kinase; Provisional; Region: PRK12379 235909008546 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 235909008547 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 235909008548 S-adenosylmethionine binding site [chemical binding]; other site 235909008549 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 235909008550 dimer interface [polypeptide binding]; other site 235909008551 catalytic triad [active] 235909008552 peroxidatic and resolving cysteines [active] 235909008553 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 235909008554 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 235909008555 RDD family; Region: RDD; pfam06271 235909008556 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 235909008557 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 235909008558 tandem repeat interface [polypeptide binding]; other site 235909008559 oligomer interface [polypeptide binding]; other site 235909008560 active site residues [active] 235909008561 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03501 235909008562 ATP-NAD kinase; Region: NAD_kinase; pfam01513 235909008563 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 235909008564 Medium-chain acyl-CoA synthetase (MACS or ACSM); Region: MACS_like; cd05972 235909008565 active site 235909008566 acyl-activating enzyme (AAE) consensus motif; other site 235909008567 putative CoA binding site [chemical binding]; other site 235909008568 AMP binding site [chemical binding]; other site 235909008569 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 235909008570 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 235909008571 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 235909008572 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 235909008573 Ligand Binding Site [chemical binding]; other site 235909008574 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 235909008575 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 235909008576 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 235909008577 catalytic residue [active] 235909008578 septation ring formation regulator EzrA; Provisional; Region: PRK04778 235909008579 histidinol-phosphatase; Reviewed; Region: PRK08123 235909008580 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 235909008581 active site 235909008582 dimer interface [polypeptide binding]; other site 235909008583 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 235909008584 GAF domain; Region: GAF_2; pfam13185 235909008585 GAF domain; Region: GAF_3; pfam13492 235909008586 GAF domain; Region: GAF_2; pfam13185 235909008587 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 235909008588 GAF domain; Region: GAF_3; pfam13492 235909008589 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 235909008590 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 235909008591 metal binding site [ion binding]; metal-binding site 235909008592 active site 235909008593 I-site; other site 235909008594 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 235909008595 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 235909008596 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 235909008597 RNA binding surface [nucleotide binding]; other site 235909008598 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 235909008599 catalytic core domain of tyrosinyl-tRNA and tryptophanyl-tRNA synthetase; Region: Tyr_Trp_RS_core; cd00395 235909008600 active site 235909008601 HIGH motif; other site 235909008602 dimer interface [polypeptide binding]; other site 235909008603 KMSKS motif; other site 235909008604 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 235909008605 RNA binding surface [nucleotide binding]; other site 235909008606 Transglycosylase; Region: Transgly; pfam00912 235909008607 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 235909008608 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 235909008609 acetyl-CoA synthetase; Provisional; Region: PRK04319 235909008610 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 235909008611 Uncharacterized subfamily of Acetyl-CoA synthetase like family (ACS); Region: MACS_like_4; cd05969 235909008612 active site 235909008613 acyl-activating enzyme (AAE) consensus motif; other site 235909008614 putative CoA binding site [chemical binding]; other site 235909008615 AMP binding site [chemical binding]; other site 235909008616 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 235909008617 Coenzyme A binding pocket [chemical binding]; other site 235909008618 FOG: CBS domain [General function prediction only]; Region: COG0517 235909008619 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc; cd04584 235909008620 C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB; Region: ACT_AcuB; cd04883 235909008621 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 235909008622 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 235909008623 active site 235909008624 Zn binding site [ion binding]; other site 235909008625 catabolite control protein A; Region: ccpA; TIGR01481 235909008626 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 235909008627 DNA binding site [nucleotide binding] 235909008628 domain linker motif; other site 235909008629 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 235909008630 dimerization interface [polypeptide binding]; other site 235909008631 effector binding site; other site 235909008632 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 235909008633 Chorismate mutase type II; Region: CM_2; cl00693 235909008634 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 235909008635 Protein of unknown function (DUF2847); Region: DUF2847; pfam11009 235909008636 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 235909008637 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 235909008638 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 235909008639 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 235909008640 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 235909008641 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 235909008642 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 235909008643 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 235909008644 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 235909008645 putative tRNA-binding site [nucleotide binding]; other site 235909008646 hypothetical protein; Provisional; Region: PRK13668 235909008647 NTPase; Reviewed; Region: PRK03114 235909008648 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 235909008649 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 235909008650 oligomer interface [polypeptide binding]; other site 235909008651 active site 235909008652 metal binding site [ion binding]; metal-binding site 235909008653 Predicted small secreted protein [Function unknown]; Region: COG5584 235909008654 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 235909008655 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 235909008656 S-adenosylmethionine binding site [chemical binding]; other site 235909008657 YtzH-like protein; Region: YtzH; pfam14165 235909008658 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 235909008659 Phosphotransferase enzyme family; Region: APH; pfam01636 235909008660 active site 235909008661 ATP binding site [chemical binding]; other site 235909008662 substrate binding site [chemical binding]; other site 235909008663 pullulanase, type I; Region: pulA_typeI; TIGR02104 235909008664 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 235909008665 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 235909008666 Ca binding site [ion binding]; other site 235909008667 active site 235909008668 catalytic site [active] 235909008669 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 235909008670 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 235909008671 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 235909008672 sugar efflux transporter; Region: 2A0120; TIGR00899 235909008673 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 235909008674 putative substrate translocation pore; other site 235909008675 dipeptidase PepV; Reviewed; Region: PRK07318 235909008676 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 235909008677 active site 235909008678 metal binding site [ion binding]; metal-binding site 235909008679 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 235909008680 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 235909008681 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 235909008682 RNA binding surface [nucleotide binding]; other site 235909008683 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 235909008684 active site 235909008685 uracil binding [chemical binding]; other site 235909008686 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 235909008687 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 235909008688 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 235909008689 HI0933-like protein; Region: HI0933_like; pfam03486 235909008690 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 235909008691 Protein of unknown function (DUF2758); Region: DUF2758; pfam10957 235909008692 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 235909008693 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 235909008694 active site 235909008695 Zn binding site [ion binding]; other site 235909008696 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 235909008697 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 235909008698 non-specific DNA binding site [nucleotide binding]; other site 235909008699 salt bridge; other site 235909008700 sequence-specific DNA binding site [nucleotide binding]; other site 235909008701 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 235909008702 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 235909008703 active site residue [active] 235909008704 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 235909008705 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 235909008706 HIGH motif; other site 235909008707 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 235909008708 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 235909008709 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 235909008710 active site 235909008711 KMSKS motif; other site 235909008712 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 235909008713 tRNA binding surface [nucleotide binding]; other site 235909008714 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 235909008715 Major Facilitator Superfamily; Region: MFS_1; pfam07690 235909008716 Major Facilitator Superfamily; Region: MFS_1; pfam07690 235909008717 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 235909008718 Protein of unknown function (DUF2524); Region: DUF2524; pfam10732 235909008719 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 235909008720 S-adenosylmethionine binding site [chemical binding]; other site 235909008721 Protein of unknown function (DUF2600); Region: DUF2600; pfam10776 235909008722 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 235909008723 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 235909008724 trimer interface [polypeptide binding]; other site 235909008725 putative metal binding site [ion binding]; other site 235909008726 S-adenosylmethionine synthetase; Validated; Region: PRK05250 235909008727 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 235909008728 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 235909008729 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 235909008730 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 235909008731 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 235909008732 active site 235909008733 substrate-binding site [chemical binding]; other site 235909008734 metal-binding site [ion binding] 235909008735 ATP binding site [chemical binding]; other site 235909008736 H+ Antiporter protein; Region: 2A0121; TIGR00900 235909008737 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 235909008738 putative substrate translocation pore; other site 235909008739 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 235909008740 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 235909008741 Protein of unknown function (DUF2584); Region: DUF2584; pfam10763 235909008742 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 235909008743 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 235909008744 NMT1-like family; Region: NMT1_2; pfam13379 235909008745 NMT1/THI5 like; Region: NMT1; pfam09084 235909008746 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 235909008747 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 235909008748 Walker A/P-loop; other site 235909008749 ATP binding site [chemical binding]; other site 235909008750 Q-loop/lid; other site 235909008751 ABC transporter signature motif; other site 235909008752 Walker B; other site 235909008753 D-loop; other site 235909008754 H-loop/switch region; other site 235909008755 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 235909008756 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 235909008757 dimer interface [polypeptide binding]; other site 235909008758 conserved gate region; other site 235909008759 putative PBP binding loops; other site 235909008760 ABC-ATPase subunit interface; other site 235909008761 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 235909008762 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_8; cd04665 235909008763 nudix motif; other site 235909008764 Holin family; Region: Phage_holin_4; pfam05105 235909008765 Ferritin-like domain; Region: Ferritin; pfam00210 235909008766 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 235909008767 dimerization interface [polypeptide binding]; other site 235909008768 DPS ferroxidase diiron center [ion binding]; other site 235909008769 ion pore; other site 235909008770 Tumour necrosis factor receptor superfamily member 19; Region: RELT; pfam12606 235909008771 S-ribosylhomocysteinase; Provisional; Region: PRK02260 235909008772 Haemolytic domain; Region: Haemolytic; pfam01809 235909008773 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 235909008774 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 235909008775 metal binding site [ion binding]; metal-binding site 235909008776 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 235909008777 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 235909008778 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 235909008779 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 235909008780 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 235909008781 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 235909008782 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 235909008783 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 235909008784 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 235909008785 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 235909008786 acyl-activating enzyme (AAE) consensus motif; other site 235909008787 putative AMP binding site [chemical binding]; other site 235909008788 putative active site [active] 235909008789 putative CoA binding site [chemical binding]; other site 235909008790 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 235909008791 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 235909008792 substrate binding site [chemical binding]; other site 235909008793 oxyanion hole (OAH) forming residues; other site 235909008794 trimer interface [polypeptide binding]; other site 235909008795 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 235909008796 PGAP1-like protein; Region: PGAP1; pfam07819 235909008797 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 235909008798 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 235909008799 dimer interface [polypeptide binding]; other site 235909008800 tetramer interface [polypeptide binding]; other site 235909008801 PYR/PP interface [polypeptide binding]; other site 235909008802 TPP binding site [chemical binding]; other site 235909008803 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 235909008804 TPP-binding site; other site 235909008805 salicylate biosynthesis isochorismate synthase; Validated; Region: PRK07054 235909008806 chorismate binding enzyme; Region: Chorismate_bind; cl10555 235909008807 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 235909008808 UbiA prenyltransferase family; Region: UbiA; pfam01040 235909008809 regulatory protein, yteA family; Region: bacill_yteA; TIGR02890 235909008810 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 235909008811 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 235909008812 Probable transposase; Region: OrfB_IS605; pfam01385 235909008813 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 235909008814 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 235909008815 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 235909008816 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 235909008817 putative acetyltransferase YhhY; Provisional; Region: PRK10140 235909008818 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 235909008819 Coenzyme A binding pocket [chemical binding]; other site 235909008820 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 235909008821 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 235909008822 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 235909008823 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 235909008824 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 235909008825 Proline dehydrogenase; Region: Pro_dh; cl03282 235909008826 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 235909008827 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 235909008828 Glutamate binding site [chemical binding]; other site 235909008829 homodimer interface [polypeptide binding]; other site 235909008830 NAD binding site [chemical binding]; other site 235909008831 catalytic residues [active] 235909008832 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 235909008833 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 235909008834 active site 235909008835 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 235909008836 Cupin domain; Region: Cupin_2; pfam07883 235909008837 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 235909008838 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 235909008839 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 235909008840 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 235909008841 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 235909008842 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 235909008843 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 235909008844 non-specific DNA binding site [nucleotide binding]; other site 235909008845 salt bridge; other site 235909008846 sequence-specific DNA binding site [nucleotide binding]; other site 235909008847 Cupin domain; Region: Cupin_2; pfam07883 235909008848 benzoate transport; Region: 2A0115; TIGR00895 235909008849 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 235909008850 putative substrate translocation pore; other site 235909008851 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 235909008852 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 235909008853 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 235909008854 ABC-ATPase subunit interface; other site 235909008855 dimer interface [polypeptide binding]; other site 235909008856 putative PBP binding regions; other site 235909008857 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 235909008858 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 235909008859 ABC-ATPase subunit interface; other site 235909008860 dimer interface [polypeptide binding]; other site 235909008861 putative PBP binding regions; other site 235909008862 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 235909008863 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 235909008864 siderophore binding site; other site 235909008865 V-type ATP synthase subunit I; Validated; Region: PRK05771 235909008866 Protein of unknown function (DUF3221); Region: DUF3221; pfam11518 235909008867 Transposase; Region: DEDD_Tnp_IS110; pfam01548 235909008868 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 235909008869 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 235909008870 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 235909008871 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 235909008872 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 235909008873 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 235909008874 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 235909008875 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 235909008876 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 235909008877 Winged helix-turn helix; Region: HTH_29; pfam13551 235909008878 Homeodomain-like domain; Region: HTH_32; pfam13565 235909008879 Integrase core domain; Region: rve; pfam00665 235909008880 Integrase core domain; Region: rve_3; pfam13683 235909008881 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 235909008882 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 235909008883 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 235909008884 active site 235909008885 DNA binding site [nucleotide binding] 235909008886 Int/Topo IB signature motif; other site 235909008887 transglutaminase; Provisional; Region: tgl; PRK03187 235909008888 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 235909008889 EamA-like transporter family; Region: EamA; pfam00892 235909008890 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 235909008891 MgtC family; Region: MgtC; pfam02308 235909008892 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 235909008893 Staphylococcal nuclease homologues; Region: SNc; smart00318 235909008894 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 235909008895 Catalytic site; other site 235909008896 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 235909008897 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 235909008898 Coenzyme A binding pocket [chemical binding]; other site 235909008899 Ion channel; Region: Ion_trans_2; pfam07885 235909008900 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 235909008901 TrkA-N domain; Region: TrkA_N; pfam02254 235909008902 YugN-like family; Region: YugN; pfam08868 235909008903 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 235909008904 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 235909008905 active site 235909008906 dimer interface [polypeptide binding]; other site 235909008907 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 235909008908 dimer interface [polypeptide binding]; other site 235909008909 active site 235909008910 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 235909008911 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 235909008912 dimer interface [polypeptide binding]; other site 235909008913 active site 235909008914 metal binding site [ion binding]; metal-binding site 235909008915 Domain of unknown function (DUF378); Region: DUF378; pfam04070 235909008916 general stress protein 13; Validated; Region: PRK08059 235909008917 S1_RPS1_repeat_hs4: 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_hs4; cd05692 235909008918 RNA binding site [nucleotide binding]; other site 235909008919 hypothetical protein; Validated; Region: PRK07682 235909008920 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 235909008921 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909008922 homodimer interface [polypeptide binding]; other site 235909008923 catalytic residue [active] 235909008924 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 235909008925 AsnC family; Region: AsnC_trans_reg; pfam01037 235909008926 Domain of unknown function (DUF1871); Region: DUF1871; pfam08958 235909008927 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 235909008928 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 235909008929 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909008930 homodimer interface [polypeptide binding]; other site 235909008931 catalytic residue [active] 235909008932 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 235909008933 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 235909008934 E-class dimer interface [polypeptide binding]; other site 235909008935 P-class dimer interface [polypeptide binding]; other site 235909008936 active site 235909008937 Cu2+ binding site [ion binding]; other site 235909008938 Zn2+ binding site [ion binding]; other site 235909008939 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 235909008940 active site 235909008941 catalytic site [active] 235909008942 substrate binding site [chemical binding]; other site 235909008943 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 235909008944 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 235909008945 transmembrane helices; other site 235909008946 DDE superfamily endonuclease; Region: DDE_5; cl17874 235909008947 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 235909008948 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 235909008949 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 235909008950 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 235909008951 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 235909008952 multifunctional aminopeptidase A; Provisional; Region: PRK00913 235909008953 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 235909008954 interface (dimer of trimers) [polypeptide binding]; other site 235909008955 Substrate-binding/catalytic site; other site 235909008956 Zn-binding sites [ion binding]; other site 235909008957 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 235909008958 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 235909008959 cobalamin binding residues [chemical binding]; other site 235909008960 putative BtuC binding residues; other site 235909008961 dimer interface [polypeptide binding]; other site 235909008962 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 235909008963 Putative membrane protein; Region: YuiB; pfam14068 235909008964 chaperone protein DnaJ; Provisional; Region: PRK14279 235909008965 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 235909008966 nudix motif; other site 235909008967 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 235909008968 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 235909008969 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 235909008970 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 235909008971 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 235909008972 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 235909008973 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 235909008974 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 235909008975 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 235909008976 hypothetical protein; Provisional; Region: PRK13669 235909008977 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 235909008978 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 235909008979 Protein of unknown function (DUF1462); Region: DUF1462; pfam07315 235909008980 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 235909008981 homoserine kinase; Provisional; Region: PRK01212 235909008982 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 235909008983 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 235909008984 threonine synthase; Reviewed; Region: PRK06721 235909008985 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 235909008986 homodimer interface [polypeptide binding]; other site 235909008987 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909008988 catalytic residue [active] 235909008989 homoserine dehydrogenase; Provisional; Region: PRK06349 235909008990 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 235909008991 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 235909008992 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 235909008993 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 235909008994 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 235909008995 dimerization interface [polypeptide binding]; other site 235909008996 ligand binding site [chemical binding]; other site 235909008997 NADP binding site [chemical binding]; other site 235909008998 catalytic site [active] 235909008999 spore coat protein YutH; Region: spore_yutH; TIGR02905 235909009000 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 235909009001 tetramer interfaces [polypeptide binding]; other site 235909009002 binuclear metal-binding site [ion binding]; other site 235909009003 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 235909009004 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 235909009005 active site 235909009006 motif I; other site 235909009007 motif II; other site 235909009008 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 235909009009 Uncharacterized conserved protein [Function unknown]; Region: COG2445 235909009010 Protein of unknown function (DUF3055); Region: DUF3055; pfam11256 235909009011 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 235909009012 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 235909009013 lipoyl synthase; Provisional; Region: PRK05481 235909009014 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 235909009015 FeS/SAM binding site; other site 235909009016 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 235909009017 Peptidase family M23; Region: Peptidase_M23; pfam01551 235909009018 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 235909009019 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 235909009020 Walker A/P-loop; other site 235909009021 ATP binding site [chemical binding]; other site 235909009022 Q-loop/lid; other site 235909009023 ABC transporter signature motif; other site 235909009024 Walker B; other site 235909009025 D-loop; other site 235909009026 H-loop/switch region; other site 235909009027 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 235909009028 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 235909009029 Walker A/P-loop; other site 235909009030 ATP binding site [chemical binding]; other site 235909009031 Q-loop/lid; other site 235909009032 ABC transporter signature motif; other site 235909009033 Walker B; other site 235909009034 D-loop; other site 235909009035 H-loop/switch region; other site 235909009036 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 235909009037 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 235909009038 TM-ABC transporter signature motif; other site 235909009039 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 235909009040 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 235909009041 TM-ABC transporter signature motif; other site 235909009042 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 235909009043 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 235909009044 putative ligand binding site [chemical binding]; other site 235909009045 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 235909009046 Uncharacterized conserved protein [Function unknown]; Region: COG3377 235909009047 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 235909009048 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 235909009049 active site 235909009050 metal binding site [ion binding]; metal-binding site 235909009051 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 235909009052 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 235909009053 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 235909009054 Uncharacterized conserved protein [Function unknown]; Region: COG1801 235909009055 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 235909009056 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 235909009057 Transposase [DNA replication, recombination, and repair]; Region: COG5421 235909009058 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 235909009059 FeS assembly protein SufB; Region: sufB; TIGR01980 235909009060 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 235909009061 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 235909009062 trimerization site [polypeptide binding]; other site 235909009063 active site 235909009064 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 235909009065 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 235909009066 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 235909009067 catalytic residue [active] 235909009068 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 235909009069 FeS assembly protein SufD; Region: sufD; TIGR01981 235909009070 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 235909009071 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 235909009072 Walker A/P-loop; other site 235909009073 ATP binding site [chemical binding]; other site 235909009074 Q-loop/lid; other site 235909009075 ABC transporter signature motif; other site 235909009076 Walker B; other site 235909009077 D-loop; other site 235909009078 H-loop/switch region; other site 235909009079 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 235909009080 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 235909009081 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 235909009082 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 235909009083 dimer interface [polypeptide binding]; other site 235909009084 conserved gate region; other site 235909009085 ABC-ATPase subunit interface; other site 235909009086 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 235909009087 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 235909009088 Walker A/P-loop; other site 235909009089 ATP binding site [chemical binding]; other site 235909009090 Q-loop/lid; other site 235909009091 ABC transporter signature motif; other site 235909009092 Walker B; other site 235909009093 D-loop; other site 235909009094 H-loop/switch region; other site 235909009095 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 235909009096 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 235909009097 catalytic residues [active] 235909009098 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 235909009099 putative active site [active] 235909009100 putative metal binding site [ion binding]; other site 235909009101 Protein of unknown function (DUF2553); Region: DUF2553; pfam10830 235909009102 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 235909009103 lipoyl attachment site [posttranslational modification]; other site 235909009104 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 235909009105 ArsC family; Region: ArsC; pfam03960 235909009106 putative ArsC-like catalytic residues; other site 235909009107 putative TRX-like catalytic residues [active] 235909009108 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 235909009109 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 235909009110 active site 235909009111 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 235909009112 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 235909009113 dimer interface [polypeptide binding]; other site 235909009114 active site 235909009115 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 235909009116 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 235909009117 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 235909009118 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 235909009119 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 235909009120 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 235909009121 substrate binding site [chemical binding]; other site 235909009122 oxyanion hole (OAH) forming residues; other site 235909009123 trimer interface [polypeptide binding]; other site 235909009124 YuzL-like protein; Region: YuzL; pfam14115 235909009125 Proline dehydrogenase; Region: Pro_dh; cl03282 235909009126 Coat F domain; Region: Coat_F; pfam07875 235909009127 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06916 235909009128 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 235909009129 inhibitor-cofactor binding pocket; inhibition site 235909009130 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909009131 catalytic residue [active] 235909009132 AAA domain; Region: AAA_26; pfam13500 235909009133 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 235909009134 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 235909009135 ADP binding site [chemical binding]; other site 235909009136 BioY family; Region: BioY; pfam02632 235909009137 pyruvate kinase; Provisional; Region: PRK14725 235909009138 active site 235909009139 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 235909009140 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 235909009141 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 235909009142 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 235909009143 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 235909009144 Walker A/P-loop; other site 235909009145 ATP binding site [chemical binding]; other site 235909009146 Q-loop/lid; other site 235909009147 ABC transporter signature motif; other site 235909009148 Walker B; other site 235909009149 D-loop; other site 235909009150 H-loop/switch region; other site 235909009151 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 235909009152 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 235909009153 Walker A/P-loop; other site 235909009154 ATP binding site [chemical binding]; other site 235909009155 Q-loop/lid; other site 235909009156 ABC transporter signature motif; other site 235909009157 Walker B; other site 235909009158 D-loop; other site 235909009159 H-loop/switch region; other site 235909009160 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 235909009161 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 235909009162 TM-ABC transporter signature motif; other site 235909009163 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 235909009164 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 235909009165 TM-ABC transporter signature motif; other site 235909009166 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 235909009167 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 235909009168 putative ligand binding site [chemical binding]; other site 235909009169 Transcriptional regulators [Transcription]; Region: GntR; COG1802 235909009170 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 235909009171 DNA-binding site [nucleotide binding]; DNA binding site 235909009172 FCD domain; Region: FCD; pfam07729 235909009173 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 235909009174 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 235909009175 NAD binding site [chemical binding]; other site 235909009176 catalytic residues [active] 235909009177 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 235909009178 putative substrate binding pocket [chemical binding]; other site 235909009179 trimer interface [polypeptide binding]; other site 235909009180 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 235909009181 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 235909009182 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 235909009183 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 235909009184 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 235909009185 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 235909009186 dimer interface [polypeptide binding]; other site 235909009187 active site 235909009188 catalytic residue [active] 235909009189 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 235909009190 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 235909009191 tetramer interface [polypeptide binding]; other site 235909009192 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 235909009193 tetramer interface [polypeptide binding]; other site 235909009194 active site 235909009195 metal binding site [ion binding]; metal-binding site 235909009196 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-1; TIGR02309 235909009197 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 235909009198 Transcriptional regulator [Transcription]; Region: LysR; COG0583 235909009199 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 235909009200 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 235909009201 dimerization interface [polypeptide binding]; other site 235909009202 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 235909009203 dimanganese center [ion binding]; other site 235909009204 Protein of unknown function (DUF2642); Region: DUF2642; pfam10842 235909009205 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 235909009206 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 235909009207 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 235909009208 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 235909009209 DNA binding residues [nucleotide binding] 235909009210 dimerization interface [polypeptide binding]; other site 235909009211 Staygreen protein; Region: Staygreen; pfam12638 235909009212 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 235909009213 SmpB-tmRNA interface; other site 235909009214 ribonuclease R; Region: RNase_R; TIGR02063 235909009215 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 235909009216 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 235909009217 RNB domain; Region: RNB; pfam00773 235909009218 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 235909009219 RNA binding site [nucleotide binding]; other site 235909009220 Esterase/lipase [General function prediction only]; Region: COG1647 235909009221 Preprotein translocase SecG subunit; Region: SecG; pfam03840 235909009222 N-methyl D-aspartate receptor 2B3 C-terminus; Region: NMDAR2_C; pfam10565 235909009223 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 235909009224 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 235909009225 substrate binding pocket [chemical binding]; other site 235909009226 catalytic triad [active] 235909009227 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 235909009228 enolase; Provisional; Region: eno; PRK00077 235909009229 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 235909009230 dimer interface [polypeptide binding]; other site 235909009231 metal binding site [ion binding]; metal-binding site 235909009232 substrate binding pocket [chemical binding]; other site 235909009233 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 235909009234 phosphoglyceromutase; Provisional; Region: PRK05434 235909009235 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 235909009236 triosephosphate isomerase; Provisional; Region: PRK14565 235909009237 substrate binding site [chemical binding]; other site 235909009238 dimer interface [polypeptide binding]; other site 235909009239 catalytic triad [active] 235909009240 Phosphoglycerate kinase; Region: PGK; pfam00162 235909009241 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 235909009242 substrate binding site [chemical binding]; other site 235909009243 hinge regions; other site 235909009244 ADP binding site [chemical binding]; other site 235909009245 catalytic site [active] 235909009246 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 235909009247 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 235909009248 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 235909009249 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 235909009250 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 235909009251 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 235909009252 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 235909009253 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 235909009254 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 235909009255 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 235909009256 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 235909009257 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 235909009258 oligomer interface [polypeptide binding]; other site 235909009259 active site residues [active] 235909009260 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 235909009261 dimerization domain swap beta strand [polypeptide binding]; other site 235909009262 regulatory protein interface [polypeptide binding]; other site 235909009263 active site 235909009264 regulatory phosphorylation site [posttranslational modification]; other site 235909009265 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 235909009266 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 235909009267 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 235909009268 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 235909009269 phosphate binding site [ion binding]; other site 235909009270 putative substrate binding pocket [chemical binding]; other site 235909009271 dimer interface [polypeptide binding]; other site 235909009272 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 235909009273 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 235909009274 putative active site [active] 235909009275 nucleotide binding site [chemical binding]; other site 235909009276 nudix motif; other site 235909009277 putative metal binding site [ion binding]; other site 235909009278 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 235909009279 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 235909009280 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 235909009281 TPR repeat; Region: TPR_11; pfam13414 235909009282 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 235909009283 binding surface 235909009284 TPR motif; other site 235909009285 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 235909009286 binding surface 235909009287 TPR motif; other site 235909009288 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 235909009289 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 235909009290 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 235909009291 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 235909009292 metal binding site [ion binding]; metal-binding site 235909009293 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 235909009294 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 235909009295 substrate binding site [chemical binding]; other site 235909009296 glutamase interaction surface [polypeptide binding]; other site 235909009297 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 235909009298 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 235909009299 catalytic residues [active] 235909009300 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 235909009301 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 235909009302 putative active site [active] 235909009303 oxyanion strand; other site 235909009304 catalytic triad [active] 235909009305 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 235909009306 putative active site pocket [active] 235909009307 4-fold oligomerization interface [polypeptide binding]; other site 235909009308 metal binding residues [ion binding]; metal-binding site 235909009309 3-fold/trimer interface [polypeptide binding]; other site 235909009310 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 235909009311 histidinol dehydrogenase; Region: hisD; TIGR00069 235909009312 NAD binding site [chemical binding]; other site 235909009313 dimerization interface [polypeptide binding]; other site 235909009314 product binding site; other site 235909009315 substrate binding site [chemical binding]; other site 235909009316 zinc binding site [ion binding]; other site 235909009317 catalytic residues [active] 235909009318 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 235909009319 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 235909009320 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 235909009321 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 235909009322 dimer interface [polypeptide binding]; other site 235909009323 motif 1; other site 235909009324 active site 235909009325 motif 2; other site 235909009326 motif 3; other site 235909009327 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 235909009328 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 235909009329 trimer interface [polypeptide binding]; other site 235909009330 active site 235909009331 substrate binding site [chemical binding]; other site 235909009332 CoA binding site [chemical binding]; other site 235909009333 pyrophosphatase PpaX; Provisional; Region: PRK13288 235909009334 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 235909009335 active site 235909009336 motif I; other site 235909009337 motif II; other site 235909009338 Nucleoside recognition; Region: Gate; pfam07670 235909009339 Nucleoside recognition; Region: Gate; pfam07670 235909009340 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 235909009341 HPr kinase/phosphorylase; Provisional; Region: PRK05428 235909009342 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 235909009343 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 235909009344 Hpr binding site; other site 235909009345 active site 235909009346 homohexamer subunit interaction site [polypeptide binding]; other site 235909009347 Predicted membrane protein [Function unknown]; Region: COG1950 235909009348 Tic20-like protein; Region: Tic20; pfam09685 235909009349 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 235909009350 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 235909009351 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 235909009352 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 235909009353 excinuclease ABC subunit B; Provisional; Region: PRK05298 235909009354 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 235909009355 ATP binding site [chemical binding]; other site 235909009356 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 235909009357 nucleotide binding region [chemical binding]; other site 235909009358 ATP-binding site [chemical binding]; other site 235909009359 Ultra-violet resistance protein B; Region: UvrB; pfam12344 235909009360 Uncharacterized protein conserved in bacteria (DUF2198); Region: DUF2198; pfam09964 235909009361 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 235909009362 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 235909009363 polar chromosome segregation protein; Reviewed; Region: racA; PRK13182 235909009364 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 235909009365 DNA binding residues [nucleotide binding] 235909009366 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 235909009367 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 235909009368 Ligand binding site; other site 235909009369 Putative Catalytic site; other site 235909009370 DXD motif; other site 235909009371 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 235909009372 C-terminal peptidase (prc); Region: prc; TIGR00225 235909009373 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 235909009374 protein binding site [polypeptide binding]; other site 235909009375 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 235909009376 Catalytic dyad [active] 235909009377 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 235909009378 Pirin-related protein [General function prediction only]; Region: COG1741 235909009379 Pirin; Region: Pirin; pfam02678 235909009380 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 235909009381 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 235909009382 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 235909009383 DNA binding residues [nucleotide binding] 235909009384 dimer interface [polypeptide binding]; other site 235909009385 mercury binding site [ion binding]; other site 235909009386 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 235909009387 metal-binding site [ion binding] 235909009388 mercuric reductase; Region: MerA; TIGR02053 235909009389 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 235909009390 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 235909009391 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 235909009392 MerE protein; Region: MerE; cl04911 235909009393 carboxylesterase BioH; Provisional; Region: PRK10349 235909009394 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 235909009395 Protein-interacting V-domain of mammalian Alix and related domains; Region: V_Alix_like; cl14654 235909009396 Translation initiation factor eIF3 subunit; Region: eIF3_subunit; pfam08597 235909009397 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 235909009398 Peptidase family M23; Region: Peptidase_M23; pfam01551 235909009399 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 235909009400 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 235909009401 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 235909009402 ATP-binding cassette domain of the cell division transporter; Region: ABC_FtsE_transporter; cd03292 235909009403 Walker A/P-loop; other site 235909009404 ATP binding site [chemical binding]; other site 235909009405 Q-loop/lid; other site 235909009406 ABC transporter signature motif; other site 235909009407 Walker B; other site 235909009408 D-loop; other site 235909009409 H-loop/switch region; other site 235909009410 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 235909009411 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 235909009412 Uncharacterized conserved protein [Function unknown]; Region: COG1284 235909009413 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 235909009414 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 235909009415 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 235909009416 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 235909009417 peptide chain release factor 2; Provisional; Region: PRK06746 235909009418 This domain is found in peptide chain release factors; Region: PCRF; smart00937 235909009419 RF-1 domain; Region: RF-1; pfam00472 235909009420 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 235909009421 DEAD/DEAH box helicase; Region: DEAD; pfam00270 235909009422 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 235909009423 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 235909009424 nucleotide binding region [chemical binding]; other site 235909009425 ATP-binding site [chemical binding]; other site 235909009426 Uncharacterized conserved protein (DUF2036); Region: DUF2036; pfam09724 235909009427 SEC-C motif; Region: SEC-C; pfam02810 235909009428 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 235909009429 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 235909009430 30S subunit binding site; other site 235909009431 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 235909009432 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 235909009433 Zn2+ binding site [ion binding]; other site 235909009434 Mg2+ binding site [ion binding]; other site 235909009435 Flagellar protein FliT; Region: FliT; pfam05400 235909009436 flagellar protein FliS; Validated; Region: fliS; PRK05685 235909009437 flagellar capping protein; Validated; Region: fliD; PRK07737 235909009438 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 235909009439 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 235909009440 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 235909009441 flagellar protein FlaG; Provisional; Region: PRK07738 235909009442 Transposase [DNA replication, recombination, and repair]; Region: COG5421 235909009443 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 235909009444 ADP-ribose binding site [chemical binding]; other site 235909009445 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 235909009446 Transposase [DNA replication, recombination, and repair]; Region: COG5421 235909009447 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 235909009448 ligand binding site; other site 235909009449 tetramer interface; other site 235909009450 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 235909009451 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 235909009452 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 235909009453 Substrate binding site; other site 235909009454 metal-binding site 235909009455 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 235909009456 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 235909009457 putative trimer interface [polypeptide binding]; other site 235909009458 putative CoA binding site [chemical binding]; other site 235909009459 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 235909009460 NeuB family; Region: NeuB; pfam03102 235909009461 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 235909009462 NeuB binding interface [polypeptide binding]; other site 235909009463 putative substrate binding site [chemical binding]; other site 235909009464 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 235909009465 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 235909009466 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_4; cd08651 235909009467 putative active site [active] 235909009468 putative substrate binding site [chemical binding]; other site 235909009469 putative cosubstrate binding site; other site 235909009470 catalytic site [active] 235909009471 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 235909009472 active site 235909009473 hexamer interface [polypeptide binding]; other site 235909009474 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 235909009475 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 235909009476 active site 235909009477 homodimer interface [polypeptide binding]; other site 235909009478 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 235909009479 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 235909009480 inhibitor-cofactor binding pocket; inhibition site 235909009481 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909009482 catalytic residue [active] 235909009483 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 235909009484 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 235909009485 NAD binding site [chemical binding]; other site 235909009486 substrate binding site [chemical binding]; other site 235909009487 active site 235909009488 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 235909009489 flagellin; Provisional; Region: PRK12804 235909009490 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 235909009491 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 235909009492 carbon storage regulator; Provisional; Region: PRK01712 235909009493 flagellar assembly protein FliW; Provisional; Region: PRK13285 235909009494 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 235909009495 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 235909009496 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 235909009497 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 235909009498 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 235909009499 FlgN protein; Region: FlgN; pfam05130 235909009500 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 235909009501 flagellar operon protein TIGR03826; Region: YvyF 235909009502 Protein of unknown function (DUF327); Region: DUF327; pfam03885 235909009503 flagellin; Validated; Region: PRK08026 235909009504 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 235909009505 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 235909009506 Flagellar protein FliS; Region: FliS; cl00654 235909009507 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 235909009508 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 235909009509 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 235909009510 active site 235909009511 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 235909009512 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 235909009513 ATP binding site [chemical binding]; other site 235909009514 putative Mg++ binding site [ion binding]; other site 235909009515 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 235909009516 nucleotide binding region [chemical binding]; other site 235909009517 ATP-binding site [chemical binding]; other site 235909009518 EDD domain protein, DegV family; Region: DegV; TIGR00762 235909009519 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 235909009520 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 235909009521 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909009522 active site 235909009523 phosphorylation site [posttranslational modification] 235909009524 intermolecular recognition site; other site 235909009525 dimerization interface [polypeptide binding]; other site 235909009526 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 235909009527 DNA binding residues [nucleotide binding] 235909009528 dimerization interface [polypeptide binding]; other site 235909009529 Sensor protein DegS; Region: DegS; pfam05384 235909009530 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 235909009531 Histidine kinase; Region: HisKA_3; pfam07730 235909009532 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909009533 ATP binding site [chemical binding]; other site 235909009534 Mg2+ binding site [ion binding]; other site 235909009535 G-X-G motif; other site 235909009536 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 235909009537 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 235909009538 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 235909009539 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 235909009540 Bacterial SH3 domain; Region: SH3_3; pfam08239 235909009541 Bacterial SH3 domain; Region: SH3_3; pfam08239 235909009542 Bacterial SH3 domain homologues; Region: SH3b; smart00287 235909009543 Bacterial SH3 domain; Region: SH3_3; pfam08239 235909009544 Bacterial SH3 domain; Region: SH3_3; pfam08239 235909009545 Bacterial SH3 domain homologues; Region: SH3b; smart00287 235909009546 Bacterial SH3 domain homologues; Region: SH3b; smart00287 235909009547 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 235909009548 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 235909009549 active site 235909009550 metal binding site [ion binding]; metal-binding site 235909009551 Bacterial SH3 domain; Region: SH3_3; cl17532 235909009552 Bacterial SH3 domain homologues; Region: SH3b; smart00287 235909009553 Stage II sporulation protein; Region: SpoIID; pfam08486 235909009554 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 235909009555 putative glycosyl transferase; Provisional; Region: PRK10307 235909009556 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 235909009557 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 235909009558 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 235909009559 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 235909009560 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 235909009561 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 235909009562 active site 235909009563 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 235909009564 homodimer interface [polypeptide binding]; other site 235909009565 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 235909009566 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 235909009567 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 235909009568 putative trimer interface [polypeptide binding]; other site 235909009569 putative CoA binding site [chemical binding]; other site 235909009570 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 235909009571 putative trimer interface [polypeptide binding]; other site 235909009572 putative active site [active] 235909009573 putative substrate binding site [chemical binding]; other site 235909009574 putative CoA binding site [chemical binding]; other site 235909009575 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 235909009576 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 235909009577 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 235909009578 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 235909009579 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 235909009580 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 235909009581 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 235909009582 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 235909009583 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 235909009584 inhibitor-cofactor binding pocket; inhibition site 235909009585 pyridoxal 5'-phosphate binding site [chemical binding]; other site 235909009586 catalytic residue [active] 235909009587 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 235909009588 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 235909009589 Mg++ binding site [ion binding]; other site 235909009590 putative catalytic motif [active] 235909009591 substrate binding site [chemical binding]; other site 235909009592 preprotein translocase subunit SecA; Reviewed; Region: PRK09200 235909009593 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 235909009594 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 235909009595 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 235909009596 nucleotide binding region [chemical binding]; other site 235909009597 ATP-binding site [chemical binding]; other site 235909009598 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 235909009599 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 235909009600 C-terminal peptidase (prc); Region: prc; TIGR00225 235909009601 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 235909009602 protein binding site [polypeptide binding]; other site 235909009603 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 235909009604 Catalytic dyad [active] 235909009605 Bacterial Ig-like domain; Region: Big_5; pfam13205 235909009606 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 235909009607 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 235909009608 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 235909009609 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 235909009610 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 235909009611 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 235909009612 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 235909009613 X25 domain of Bacillus acidopullulyticus pullulanase and similar proteins; Region: X25_BaPul_like; cd12962 235909009614 X25 domain of Bacillus acidopullulyticus pullulanase and similar proteins; Region: X25_BaPul_like; cd12962 235909009615 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 235909009616 homodimer interface [polypeptide binding]; other site 235909009617 maltodextrin glucosidase; Provisional; Region: PRK10785 235909009618 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 235909009619 active site 235909009620 homodimer interface [polypeptide binding]; other site 235909009621 catalytic site [active] 235909009622 Aamy_C domain; Region: Aamy_C; smart00632 235909009623 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 235909009624 Interdomain contacts; other site 235909009625 Cytokine receptor motif; other site 235909009626 Starch binding domain; Region: CBM_2; smart01065 235909009627 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 235909009628 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 235909009629 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 235909009630 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 235909009631 active site 235909009632 metal binding site [ion binding]; metal-binding site 235909009633 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 235909009634 Domain of unknown function (DUF955); Region: DUF955; cl01076 235909009635 CopC domain; Region: CopC; cl01012 235909009636 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 235909009637 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 235909009638 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 235909009639 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 235909009640 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 235909009641 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 235909009642 NlpC/P60 family; Region: NLPC_P60; pfam00877 235909009643 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 235909009644 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 235909009645 non-specific DNA binding site [nucleotide binding]; other site 235909009646 salt bridge; other site 235909009647 sequence-specific DNA binding site [nucleotide binding]; other site 235909009648 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 235909009649 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 235909009650 dimer interface [polypeptide binding]; other site 235909009651 ssDNA binding site [nucleotide binding]; other site 235909009652 tetramer (dimer of dimers) interface [polypeptide binding]; other site 235909009653 YwpF-like protein; Region: YwpF; pfam14183 235909009654 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 235909009655 active site 235909009656 catalytic site [active] 235909009657 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 235909009658 aspartate kinase; Reviewed; Region: PRK09034 235909009659 AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in...; Region: AAK_AKiii-YclM-BS; cd04245 235909009660 putative catalytic residues [active] 235909009661 putative nucleotide binding site [chemical binding]; other site 235909009662 putative aspartate binding site [chemical binding]; other site 235909009663 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 235909009664 allosteric regulatory residue; other site 235909009665 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 235909009666 Protein of unknown function (DUF1284); Region: DUF1284; pfam06935 235909009667 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 235909009668 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 235909009669 NAD(P) binding site [chemical binding]; other site 235909009670 catalytic residues [active] 235909009671 Protein of unknown function (DUF779); Region: DUF779; pfam05610 235909009672 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 235909009673 Major Facilitator Superfamily; Region: MFS_1; pfam07690 235909009674 putative substrate translocation pore; other site 235909009675 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 235909009676 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 235909009677 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 235909009678 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 235909009679 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 235909009680 nucleotide binding site [chemical binding]; other site 235909009681 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 235909009682 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 235909009683 dimer interface [polypeptide binding]; other site 235909009684 conserved gate region; other site 235909009685 putative PBP binding loops; other site 235909009686 ABC-ATPase subunit interface; other site 235909009687 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 235909009688 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 235909009689 dimer interface [polypeptide binding]; other site 235909009690 conserved gate region; other site 235909009691 putative PBP binding loops; other site 235909009692 ABC-ATPase subunit interface; other site 235909009693 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 235909009694 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 235909009695 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 235909009696 Response regulator receiver domain; Region: Response_reg; pfam00072 235909009697 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909009698 active site 235909009699 phosphorylation site [posttranslational modification] 235909009700 intermolecular recognition site; other site 235909009701 dimerization interface [polypeptide binding]; other site 235909009702 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 235909009703 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 235909009704 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 235909009705 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 235909009706 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 235909009707 dimerization interface [polypeptide binding]; other site 235909009708 Histidine kinase; Region: His_kinase; pfam06580 235909009709 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909009710 ATP binding site [chemical binding]; other site 235909009711 Mg2+ binding site [ion binding]; other site 235909009712 G-X-G motif; other site 235909009713 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 235909009714 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 235909009715 ligand binding site [chemical binding]; other site 235909009716 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 235909009717 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 235909009718 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 235909009719 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 235909009720 NAD binding site [chemical binding]; other site 235909009721 sugar binding site [chemical binding]; other site 235909009722 divalent metal binding site [ion binding]; other site 235909009723 tetramer (dimer of dimers) interface [polypeptide binding]; other site 235909009724 dimer interface [polypeptide binding]; other site 235909009725 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 235909009726 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 235909009727 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 235909009728 putative active site [active] 235909009729 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 235909009730 beta-galactosidase; Region: BGL; TIGR03356 235909009731 FAD binding domain; Region: FAD_binding_4; pfam01565 235909009732 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 235909009733 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 235909009734 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 235909009735 alpha subunit interface [polypeptide binding]; other site 235909009736 TPP binding site [chemical binding]; other site 235909009737 heterodimer interface [polypeptide binding]; other site 235909009738 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 235909009739 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 235909009740 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 235909009741 TPP-binding site [chemical binding]; other site 235909009742 tetramer interface [polypeptide binding]; other site 235909009743 heterodimer interface [polypeptide binding]; other site 235909009744 phosphorylation loop region [posttranslational modification] 235909009745 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 235909009746 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 235909009747 E3 interaction surface; other site 235909009748 lipoyl attachment site [posttranslational modification]; other site 235909009749 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 235909009750 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 235909009751 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 235909009752 putative metal binding site [ion binding]; other site 235909009753 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 235909009754 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 235909009755 Domain of unknown function (DUF4275); Region: DUF4275; pfam14101 235909009756 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 235909009757 Low molecular weight phosphatase family; Region: LMWPc; cd00115 235909009758 active site 235909009759 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 235909009760 arsenical-resistance protein; Region: acr3; TIGR00832 235909009761 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 235909009762 dimerization interface [polypeptide binding]; other site 235909009763 putative DNA binding site [nucleotide binding]; other site 235909009764 putative Zn2+ binding site [ion binding]; other site 235909009765 Protein of unknown function (DUF1360); Region: DUF1360; pfam07098 235909009766 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 235909009767 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 235909009768 ligand binding site [chemical binding]; other site 235909009769 dimerization interface [polypeptide binding]; other site 235909009770 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 235909009771 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 235909009772 TM-ABC transporter signature motif; other site 235909009773 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 235909009774 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 235909009775 Walker A/P-loop; other site 235909009776 ATP binding site [chemical binding]; other site 235909009777 Q-loop/lid; other site 235909009778 ABC transporter signature motif; other site 235909009779 Walker B; other site 235909009780 D-loop; other site 235909009781 H-loop/switch region; other site 235909009782 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 235909009783 D-ribose pyranase; Provisional; Region: PRK11797 235909009784 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 235909009785 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 235909009786 substrate binding site [chemical binding]; other site 235909009787 dimer interface [polypeptide binding]; other site 235909009788 ATP binding site [chemical binding]; other site 235909009789 Transcriptional regulators [Transcription]; Region: PurR; COG1609 235909009790 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 235909009791 DNA binding site [nucleotide binding] 235909009792 domain linker motif; other site 235909009793 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 235909009794 dimerization interface [polypeptide binding]; other site 235909009795 ligand binding site [chemical binding]; other site 235909009796 sodium binding site [ion binding]; other site 235909009797 Predicted integral membrane protein [Function unknown]; Region: COG5652 235909009798 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG1848 235909009799 putative active site [active] 235909009800 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 235909009801 Integrase core domain; Region: rve; pfam00665 235909009802 DDE domain; Region: DDE_Tnp_IS240; pfam13610 235909009803 Integrase core domain; Region: rve_3; cl15866 235909009804 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 235909009805 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 235909009806 H+ Antiporter protein; Region: 2A0121; TIGR00900 235909009807 putative substrate translocation pore; other site 235909009808 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 235909009809 Transposase [DNA replication, recombination, and repair]; Region: COG5421 235909009810 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 235909009811 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 235909009812 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 235909009813 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 235909009814 metal binding site [ion binding]; metal-binding site 235909009815 dimer interface [polypeptide binding]; other site 235909009816 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 235909009817 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 235909009818 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 235909009819 Ligand Binding Site [chemical binding]; other site 235909009820 K+-transporting ATPase, c chain [Inorganic ion transport and metabolism]; Region: KdpC; COG2156 235909009821 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 235909009822 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 235909009823 Soluble P-type ATPase [General function prediction only]; Region: COG4087 235909009824 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 235909009825 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 235909009826 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 235909009827 metal binding site [ion binding]; metal-binding site 235909009828 dimer interface [polypeptide binding]; other site 235909009829 amidase, hydantoinase/carbamoylase family; Region: hydantase; TIGR01879 235909009830 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 235909009831 active site 235909009832 metal binding site [ion binding]; metal-binding site 235909009833 dimer interface [polypeptide binding]; other site 235909009834 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 235909009835 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 235909009836 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 235909009837 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 235909009838 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 235909009839 Bacterial SH3 domain homologues; Region: SH3b; smart00287 235909009840 Bacterial SH3 domain; Region: SH3_3; pfam08239 235909009841 Bacterial SH3 domain; Region: SH3_3; pfam08239 235909009842 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 235909009843 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 235909009844 active site 235909009845 metal binding site [ion binding]; metal-binding site 235909009846 SEC-C motif; Region: SEC-C; pfam02810 235909009847 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 235909009848 SEC-C motif; Region: SEC-C; pfam02810 235909009849 SEC-C motif; Region: SEC-C; pfam02810 235909009850 Uncharacterized conserved protein [Function unknown]; Region: COG4715 235909009851 SNF2 Helicase protein; Region: DUF3670; pfam12419 235909009852 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 235909009853 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 235909009854 ATP binding site [chemical binding]; other site 235909009855 putative Mg++ binding site [ion binding]; other site 235909009856 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 235909009857 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 235909009858 nucleotide binding region [chemical binding]; other site 235909009859 ATP-binding site [chemical binding]; other site 235909009860 Protein of unknown function (DUF1861); Region: DUF1861; pfam08950 235909009861 Macro domain, Unknown family 2. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases)...; Region: Macro_2; cd03330 235909009862 putative ADP-ribose binding site [chemical binding]; other site 235909009863 Protein of unknown function, DUF488; Region: DUF488; cl01246 235909009864 AAA domain; Region: AAA_21; pfam13304 235909009865 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 235909009866 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 235909009867 active site 235909009868 tetramer interface; other site 235909009869 Predicted glycosylase [Carbohydrate transport and metabolism]; Region: COG2152 235909009870 active site 235909009871 Protein of unknown function (DUF1861); Region: DUF1861; pfam08950 235909009872 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 235909009873 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 235909009874 dimer interface [polypeptide binding]; other site 235909009875 conserved gate region; other site 235909009876 ABC-ATPase subunit interface; other site 235909009877 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 235909009878 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 235909009879 dimer interface [polypeptide binding]; other site 235909009880 conserved gate region; other site 235909009881 putative PBP binding loops; other site 235909009882 ABC-ATPase subunit interface; other site 235909009883 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 235909009884 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 235909009885 Transcriptional regulators [Transcription]; Region: PurR; COG1609 235909009886 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 235909009887 DNA binding site [nucleotide binding] 235909009888 domain linker motif; other site 235909009889 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_1; cd06277 235909009890 putative dimerization interface [polypeptide binding]; other site 235909009891 putative ligand binding site [chemical binding]; other site 235909009892 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 235909009893 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 235909009894 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 235909009895 EamA-like transporter family; Region: EamA; pfam00892 235909009896 EamA-like transporter family; Region: EamA; pfam00892 235909009897 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 235909009898 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 235909009899 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 235909009900 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 235909009901 Protein of unknown function DUF262; Region: DUF262; pfam03235 235909009902 Uncharacterized conserved protein [Function unknown]; Region: COG1479 235909009903 Uncharacterized conserved protein [Function unknown]; Region: COG3472 235909009904 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 235909009905 Coenzyme A binding pocket [chemical binding]; other site 235909009906 Protein of unknown function (DUF2283); Region: DUF2283; pfam10049 235909009907 Transposase IS200 like; Region: Y1_Tnp; cl00848 235909009908 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 235909009909 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 235909009910 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 235909009911 Walker A motif; other site 235909009912 ATP binding site [chemical binding]; other site 235909009913 Walker B motif; other site 235909009914 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 235909009915 HipA N-terminal domain; Region: Couple_hipA; cl11853 235909009916 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p; Region: HIRAN; smart00910 235909009917 HipA-like C-terminal domain; Region: HipA_C; pfam07804 235909009918 Caspase domain; Region: Peptidase_C14; pfam00656 235909009919 Uncharacterized conserved protein [Function unknown]; Region: COG1479 235909009920 Protein of unknown function DUF262; Region: DUF262; pfam03235 235909009921 Protein of unknown function DUF262; Region: DUF262; pfam03235 235909009922 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 235909009923 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 235909009924 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 235909009925 NAD binding site [chemical binding]; other site 235909009926 homodimer interface [polypeptide binding]; other site 235909009927 active site 235909009928 substrate binding site [chemical binding]; other site 235909009929 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 235909009930 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 235909009931 active site 235909009932 substrate binding site [chemical binding]; other site 235909009933 metal binding site [ion binding]; metal-binding site 235909009934 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 235909009935 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 235909009936 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 235909009937 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 235909009938 Bacterial sugar transferase; Region: Bac_transf; cl00939 235909009939 Transposase; Region: DEDD_Tnp_IS110; pfam01548 235909009940 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 235909009941 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 235909009942 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 235909009943 Transposase [DNA replication, recombination, and repair]; Region: COG5421 235909009944 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 235909009945 Transposase [DNA replication, recombination, and repair]; Region: COG5421 235909009946 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 235909009947 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 235909009948 active site 235909009949 Cupin domain; Region: Cupin_2; cl17218 235909009950 Helix-turn-helix domain; Region: HTH_28; pfam13518 235909009951 Winged helix-turn helix; Region: HTH_29; pfam13551 235909009952 Winged helix-turn helix; Region: HTH_33; pfam13592 235909009953 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 235909009954 DDE superfamily endonuclease; Region: DDE_3; pfam13358 235909009955 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 235909009956 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 235909009957 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 235909009958 active site 235909009959 CoA binding site [chemical binding]; other site 235909009960 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 235909009961 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 235909009962 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 235909009963 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 235909009964 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 235909009965 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 235909009966 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 235909009967 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 235909009968 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 235909009969 active site 235909009970 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 235909009971 O-Antigen ligase; Region: Wzy_C; pfam04932 235909009972 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_b; cd04185 235909009973 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 235909009974 Probable Catalytic site; other site 235909009975 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 235909009976 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 235909009977 UDP-galactopyranose mutase; Region: GLF; pfam03275 235909009978 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 235909009979 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 235909009980 Bacterial sugar transferase; Region: Bac_transf; cl00939 235909009981 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 235909009982 Bacterial sugar transferase; Region: Bac_transf; pfam02397 235909009983 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 235909009984 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 235909009985 active site 235909009986 tetramer interface; other site 235909009987 Predicted membrane protein [Function unknown]; Region: COG1511 235909009988 AAA domain; Region: AAA_21; pfam13304 235909009989 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 235909009990 membrane-bound transcriptional regulator LytR; Provisional; Region: PRK09379 235909009991 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; cd00229 235909009992 active site 235909009993 oxyanion hole [active] 235909009994 catalytic triad [active] 235909009995 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 235909009996 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 235909009997 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 235909009998 Chain length determinant protein; Region: Wzz; cl15801 235909009999 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 235909010000 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 235909010001 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 235909010002 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 235909010003 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 235909010004 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 235909010005 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 235909010006 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 235909010007 rod shape-determining protein Mbl; Provisional; Region: PRK13928 235909010008 MreB and similar proteins; Region: MreB_like; cd10225 235909010009 nucleotide binding site [chemical binding]; other site 235909010010 Mg binding site [ion binding]; other site 235909010011 putative protofilament interaction site [polypeptide binding]; other site 235909010012 RodZ interaction site [polypeptide binding]; other site 235909010013 Stage III sporulation protein D; Region: SpoIIID; pfam12116 235909010014 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 235909010015 Chromate transporter; Region: Chromate_transp; pfam02417 235909010016 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 235909010017 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 235909010018 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 235909010019 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 235909010020 Peptidase family M23; Region: Peptidase_M23; pfam01551 235909010021 stage II sporulation protein D; Region: spore_II_D; TIGR02870 235909010022 Stage II sporulation protein; Region: SpoIID; pfam08486 235909010023 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 235909010024 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 235909010025 hinge; other site 235909010026 active site 235909010027 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 235909010028 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 235909010029 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 235909010030 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 235909010031 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 235909010032 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 235909010033 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 235909010034 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 235909010035 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 235909010036 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 235909010037 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 235909010038 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 235909010039 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 235909010040 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 235909010041 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 235909010042 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 235909010043 NADH dehydrogenase subunit D; Provisional; Region: PRK12322 235909010044 NADH dehydrogenase subunit C; Validated; Region: PRK07735 235909010045 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 235909010046 NADH dehydrogenase subunit B; Validated; Region: PRK06411 235909010047 NADH dehydrogenase subunit A; Validated; Region: PRK07756 235909010048 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 235909010049 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 235909010050 gamma subunit interface [polypeptide binding]; other site 235909010051 epsilon subunit interface [polypeptide binding]; other site 235909010052 LBP interface [polypeptide binding]; other site 235909010053 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 235909010054 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 235909010055 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 235909010056 alpha subunit interaction interface [polypeptide binding]; other site 235909010057 Walker A motif; other site 235909010058 ATP binding site [chemical binding]; other site 235909010059 Walker B motif; other site 235909010060 inhibitor binding site; inhibition site 235909010061 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 235909010062 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 235909010063 core domain interface [polypeptide binding]; other site 235909010064 delta subunit interface [polypeptide binding]; other site 235909010065 epsilon subunit interface [polypeptide binding]; other site 235909010066 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 235909010067 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 235909010068 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 235909010069 beta subunit interaction interface [polypeptide binding]; other site 235909010070 Walker A motif; other site 235909010071 ATP binding site [chemical binding]; other site 235909010072 Walker B motif; other site 235909010073 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 235909010074 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 235909010075 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 235909010076 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 235909010077 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 235909010078 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 235909010079 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 235909010080 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 235909010081 ATP synthase I chain; Region: ATP_synt_I; cl09170 235909010082 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 235909010083 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 235909010084 active site 235909010085 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 235909010086 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 235909010087 dimer interface [polypeptide binding]; other site 235909010088 active site 235909010089 glycine-pyridoxal phosphate binding site [chemical binding]; other site 235909010090 folate binding site [chemical binding]; other site 235909010091 hypothetical protein; Provisional; Region: PRK13690 235909010092 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 235909010093 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 235909010094 dimerization interface [polypeptide binding]; other site 235909010095 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 235909010096 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 235909010097 dimer interface [polypeptide binding]; other site 235909010098 putative CheW interface [polypeptide binding]; other site 235909010099 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 235909010100 Low molecular weight phosphatase family; Region: LMWPc; cd00115 235909010101 active site 235909010102 Predicted membrane protein [Function unknown]; Region: COG1971 235909010103 Domain of unknown function DUF; Region: DUF204; pfam02659 235909010104 Domain of unknown function DUF; Region: DUF204; pfam02659 235909010105 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 235909010106 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 235909010107 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 235909010108 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 235909010109 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 235909010110 S-adenosylmethionine binding site [chemical binding]; other site 235909010111 peptide chain release factor 1; Validated; Region: prfA; PRK00591 235909010112 This domain is found in peptide chain release factors; Region: PCRF; smart00937 235909010113 RF-1 domain; Region: RF-1; pfam00472 235909010114 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 235909010115 thymidine kinase; Provisional; Region: PRK04296 235909010116 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 235909010117 transcription termination factor Rho; Provisional; Region: rho; PRK09376 235909010118 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 235909010119 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 235909010120 RNA binding site [nucleotide binding]; other site 235909010121 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 235909010122 multimer interface [polypeptide binding]; other site 235909010123 Walker A motif; other site 235909010124 ATP binding site [chemical binding]; other site 235909010125 Walker B motif; other site 235909010126 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 235909010127 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 235909010128 putative active site [active] 235909010129 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 235909010130 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 235909010131 hinge; other site 235909010132 active site 235909010133 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 235909010134 active site 235909010135 intersubunit interactions; other site 235909010136 catalytic residue [active] 235909010137 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 235909010138 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 235909010139 intersubunit interface [polypeptide binding]; other site 235909010140 active site 235909010141 zinc binding site [ion binding]; other site 235909010142 Na+ binding site [ion binding]; other site 235909010143 Response regulator receiver domain; Region: Response_reg; pfam00072 235909010144 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909010145 active site 235909010146 phosphorylation site [posttranslational modification] 235909010147 intermolecular recognition site; other site 235909010148 dimerization interface [polypeptide binding]; other site 235909010149 Protein of unknown function (DUF2529); Region: DUF2529; pfam10740 235909010150 CTP synthetase; Validated; Region: pyrG; PRK05380 235909010151 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 235909010152 Catalytic site [active] 235909010153 active site 235909010154 UTP binding site [chemical binding]; other site 235909010155 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 235909010156 active site 235909010157 putative oxyanion hole; other site 235909010158 catalytic triad [active] 235909010159 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 235909010160 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 235909010161 B12 binding site [chemical binding]; other site 235909010162 cobalt ligand [ion binding]; other site 235909010163 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 235909010164 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 235909010165 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, unknown subfamily 1; composed of uncharacterized bacterial proteins containing a C-terminal MCM domain. MCM catalyzes the isomerization of methylmalonyl-CoA to succinyl-CoA. The...; Region: MM_CoA_mutase_1; cd03678 235909010166 putative active site [active] 235909010167 putative substrate binding site [chemical binding]; other site 235909010168 putative coenzyme B12 binding site [chemical binding]; other site 235909010169 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 235909010170 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 235909010171 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 235909010172 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 235909010173 FAD binding site [chemical binding]; other site 235909010174 homotetramer interface [polypeptide binding]; other site 235909010175 substrate binding pocket [chemical binding]; other site 235909010176 catalytic base [active] 235909010177 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 235909010178 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 235909010179 FAD binding site [chemical binding]; other site 235909010180 homotetramer interface [polypeptide binding]; other site 235909010181 substrate binding pocket [chemical binding]; other site 235909010182 catalytic base [active] 235909010183 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 235909010184 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 235909010185 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 235909010186 acetyl-CoA acetyltransferase; Provisional; Region: PRK08235 235909010187 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 235909010188 dimer interface [polypeptide binding]; other site 235909010189 active site 235909010190 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 235909010191 4Fe-4S binding domain; Region: Fer4; cl02805 235909010192 Cysteine-rich domain; Region: CCG; pfam02754 235909010193 Cysteine-rich domain; Region: CCG; pfam02754 235909010194 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 235909010195 PLD-like domain; Region: PLDc_2; pfam13091 235909010196 putative active site [active] 235909010197 catalytic site [active] 235909010198 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 235909010199 PLD-like domain; Region: PLDc_2; pfam13091 235909010200 putative active site [active] 235909010201 catalytic site [active] 235909010202 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 235909010203 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 235909010204 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 235909010205 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 235909010206 active site 235909010207 HIGH motif; other site 235909010208 KMSK motif region; other site 235909010209 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 235909010210 tRNA binding surface [nucleotide binding]; other site 235909010211 anticodon binding site; other site 235909010212 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 235909010213 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 235909010214 agmatinase; Region: agmatinase; TIGR01230 235909010215 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 235909010216 putative active site [active] 235909010217 Mn binding site [ion binding]; other site 235909010218 spermidine synthase; Provisional; Region: PRK00811 235909010219 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 235909010220 Transglycosylase; Region: Transgly; pfam00912 235909010221 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 235909010222 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 235909010223 YwhD family; Region: YwhD; pfam08741 235909010224 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 235909010225 Peptidase family M50; Region: Peptidase_M50; pfam02163 235909010226 active site 235909010227 putative substrate binding region [chemical binding]; other site 235909010228 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cd00491 235909010229 active site 1 [active] 235909010230 dimer interface [polypeptide binding]; other site 235909010231 hexamer interface [polypeptide binding]; other site 235909010232 active site 2 [active] 235909010233 Uncharacterized conserved protein [Function unknown]; Region: COG3465 235909010234 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 235909010235 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 235909010236 Zn2+ binding site [ion binding]; other site 235909010237 Mg2+ binding site [ion binding]; other site 235909010238 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 235909010239 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 235909010240 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 235909010241 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 235909010242 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 235909010243 putative heme peroxidase; Provisional; Region: PRK12276 235909010244 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 235909010245 Spore coat protein (Spore_GerQ); Region: Spore_GerQ; pfam09671 235909010246 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 235909010247 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 235909010248 ligand binding site [chemical binding]; other site 235909010249 active site 235909010250 UGI interface [polypeptide binding]; other site 235909010251 catalytic site [active] 235909010252 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 235909010253 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 235909010254 anti sigma factor interaction site; other site 235909010255 regulatory phosphorylation site [posttranslational modification]; other site 235909010256 serine-protein kinase RsbW; Provisional; Region: PRK04069 235909010257 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 235909010258 ATP binding site [chemical binding]; other site 235909010259 Mg2+ binding site [ion binding]; other site 235909010260 G-X-G motif; other site 235909010261 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 235909010262 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 235909010263 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 235909010264 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 235909010265 DNA binding residues [nucleotide binding] 235909010266 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 235909010267 PAS domain; Region: PAS_9; pfam13426 235909010268 putative active site [active] 235909010269 heme pocket [chemical binding]; other site 235909010270 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 235909010271 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 235909010272 PemK-like protein; Region: PemK; pfam02452 235909010273 azoreductase; Reviewed; Region: PRK00170 235909010274 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 235909010275 glycyl-tRNA synthetase; Provisional; Region: PRK04173 235909010276 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 235909010277 motif 1; other site 235909010278 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 235909010279 active site 235909010280 motif 2; other site 235909010281 motif 3; other site 235909010282 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 235909010283 anticodon binding site; other site 235909010284 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 235909010285 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 235909010286 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 235909010287 active site 235909010288 benzoate transport; Region: 2A0115; TIGR00895 235909010289 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 235909010290 putative substrate translocation pore; other site 235909010291 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 235909010292 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 235909010293 PBP superfamily domain; Region: PBP_like_2; cl17296 235909010294 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 235909010295 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 235909010296 dimer interface [polypeptide binding]; other site 235909010297 conserved gate region; other site 235909010298 putative PBP binding loops; other site 235909010299 ABC-ATPase subunit interface; other site 235909010300 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 235909010301 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 235909010302 dimer interface [polypeptide binding]; other site 235909010303 conserved gate region; other site 235909010304 putative PBP binding loops; other site 235909010305 ABC-ATPase subunit interface; other site 235909010306 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 235909010307 Transposase; Region: DEDD_Tnp_IS110; pfam01548 235909010308 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 235909010309 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 235909010310 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 235909010311 Transposase; Region: HTH_Tnp_1; pfam01527 235909010312 putative transposase OrfB; Reviewed; Region: PHA02517 235909010313 HTH-like domain; Region: HTH_21; pfam13276 235909010314 Integrase core domain; Region: rve; pfam00665 235909010315 Integrase core domain; Region: rve_2; pfam13333 235909010316 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 235909010317 Transposase; Region: DDE_Tnp_ISL3; pfam01610 235909010318 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 235909010319 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 235909010320 substrate binding [chemical binding]; other site 235909010321 active site 235909010322 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 235909010323 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 235909010324 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 235909010325 active site turn [active] 235909010326 phosphorylation site [posttranslational modification] 235909010327 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 235909010328 transcriptional antiterminator BglG; Provisional; Region: PRK09772 235909010329 CAT RNA binding domain; Region: CAT_RBD; pfam03123 235909010330 PRD domain; Region: PRD; pfam00874 235909010331 PRD domain; Region: PRD; pfam00874 235909010332 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 235909010333 HPr interaction site; other site 235909010334 glycerol kinase (GK) interaction site [polypeptide binding]; other site 235909010335 active site 235909010336 phosphorylation site [posttranslational modification] 235909010337 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 235909010338 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 235909010339 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 235909010340 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 235909010341 hexamer interface [polypeptide binding]; other site 235909010342 ligand binding site [chemical binding]; other site 235909010343 putative active site [active] 235909010344 NAD(P) binding site [chemical binding]; other site 235909010345 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 235909010346 putative active site [active] 235909010347 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 235909010348 dimer interface [polypeptide binding]; other site 235909010349 substrate binding site [chemical binding]; other site 235909010350 ATP binding site [chemical binding]; other site 235909010351 Predicted amidohydrolase [General function prediction only]; Region: COG0388 235909010352 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 235909010353 putative active site [active] 235909010354 catalytic triad [active] 235909010355 putative dimer interface [polypeptide binding]; other site 235909010356 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 235909010357 Na binding site [ion binding]; other site 235909010358 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 235909010359 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 235909010360 substrate binding pocket [chemical binding]; other site 235909010361 membrane-bound complex binding site; other site 235909010362 hinge residues; other site 235909010363 amine acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family; Region: HEQRo_perm_3TM; TIGR01726 235909010364 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 235909010365 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 235909010366 dimer interface [polypeptide binding]; other site 235909010367 conserved gate region; other site 235909010368 putative PBP binding loops; other site 235909010369 ABC-ATPase subunit interface; other site 235909010370 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 235909010371 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 235909010372 Walker A/P-loop; other site 235909010373 ATP binding site [chemical binding]; other site 235909010374 Q-loop/lid; other site 235909010375 ABC transporter signature motif; other site 235909010376 Walker B; other site 235909010377 D-loop; other site 235909010378 H-loop/switch region; other site 235909010379 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 235909010380 cytochrome aa3 quinol oxidase, subunit IV; Region: QoxD; TIGR02901 235909010381 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 235909010382 Subunit I/III interface [polypeptide binding]; other site 235909010383 Subunit III/IV interface [polypeptide binding]; other site 235909010384 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 235909010385 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 235909010386 D-pathway; other site 235909010387 Putative ubiquinol binding site [chemical binding]; other site 235909010388 Low-spin heme (heme b) binding site [chemical binding]; other site 235909010389 Putative water exit pathway; other site 235909010390 Binuclear center (heme o3/CuB) [ion binding]; other site 235909010391 K-pathway; other site 235909010392 Putative proton exit pathway; other site 235909010393 cytochrome aa3 quinol oxidase, subunit II; Region: QOXA; TIGR01432 235909010394 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 235909010395 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 235909010396 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 235909010397 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 235909010398 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 235909010399 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 235909010400 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 235909010401 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 235909010402 [2Fe-2S] cluster binding site [ion binding]; other site 235909010403 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 235909010404 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 235909010405 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 235909010406 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 235909010407 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 235909010408 metal binding site [ion binding]; metal-binding site 235909010409 active site 235909010410 I-site; other site 235909010411 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 235909010412 CxxH/CxxC protein, BA_5709 family; Region: CxxH_BA5709; TIGR04129 235909010413 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 235909010414 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 235909010415 protein binding site [polypeptide binding]; other site 235909010416 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 235909010417 YycH protein; Region: YycI; pfam09648 235909010418 YycH protein; Region: YycH; pfam07435 235909010419 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 235909010420 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 235909010421 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 235909010422 dimerization interface [polypeptide binding]; other site 235909010423 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 235909010424 putative active site [active] 235909010425 heme pocket [chemical binding]; other site 235909010426 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 235909010427 dimer interface [polypeptide binding]; other site 235909010428 phosphorylation site [posttranslational modification] 235909010429 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 235909010430 ATP binding site [chemical binding]; other site 235909010431 Mg2+ binding site [ion binding]; other site 235909010432 G-X-G motif; other site 235909010433 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 235909010434 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 235909010435 active site 235909010436 phosphorylation site [posttranslational modification] 235909010437 intermolecular recognition site; other site 235909010438 dimerization interface [polypeptide binding]; other site 235909010439 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 235909010440 DNA binding site [nucleotide binding] 235909010441 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 235909010442 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 235909010443 GDP-binding site [chemical binding]; other site 235909010444 ACT binding site; other site 235909010445 IMP binding site; other site 235909010446 replicative DNA helicase; Provisional; Region: PRK05748 235909010447 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 235909010448 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 235909010449 Walker A motif; other site 235909010450 ATP binding site [chemical binding]; other site 235909010451 Walker B motif; other site 235909010452 DNA binding loops [nucleotide binding] 235909010453 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 235909010454 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 235909010455 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 235909010456 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 235909010457 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 235909010458 DHH family; Region: DHH; pfam01368 235909010459 DHHA1 domain; Region: DHHA1; pfam02272 235909010460 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 235909010461 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 235909010462 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 235909010463 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 235909010464 dimer interface [polypeptide binding]; other site 235909010465 ssDNA binding site [nucleotide binding]; other site 235909010466 tetramer (dimer of dimers) interface [polypeptide binding]; other site 235909010467 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 235909010468 GTP-binding protein YchF; Reviewed; Region: PRK09601 235909010469 YchF GTPase; Region: YchF; cd01900 235909010470 G1 box; other site 235909010471 GTP/Mg2+ binding site [chemical binding]; other site 235909010472 Switch I region; other site 235909010473 G2 box; other site 235909010474 Switch II region; other site 235909010475 G3 box; other site 235909010476 G4 box; other site 235909010477 G5 box; other site 235909010478 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 235909010479 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 235909010480 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 235909010481 putative [4Fe-4S] binding site [ion binding]; other site 235909010482 putative molybdopterin cofactor binding site [chemical binding]; other site 235909010483 Molybdopterin-Binding, C-terminal (MopB_CT) 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-...; Region: MopB_CT; cl09929 235909010484 molybdopterin cofactor binding site; other site 235909010485 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 235909010486 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 235909010487 Mechanosensitive ion channel; Region: MS_channel; pfam00924 235909010488 putative sporulation protein YyaC; Region: spore_YyaC; TIGR02841 235909010489 Protein of unknown function (DUF554); Region: DUF554; pfam04474 235909010490 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 235909010491 ParB-like nuclease domain; Region: ParB; smart00470 235909010492 KorB domain; Region: KorB; pfam08535 235909010493 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 235909010494 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 235909010495 P-loop; other site 235909010496 Magnesium ion binding site [ion binding]; other site 235909010497 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 235909010498 Magnesium ion binding site [ion binding]; other site 235909010499 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 235909010500 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 235909010501 ParB-like nuclease domain; Region: ParBc; pfam02195 235909010502 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 235909010503 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 235909010504 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 235909010505 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 235909010506 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 235909010507 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 235909010508 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 235909010509 trmE is a tRNA modification GTPase; Region: trmE; cd04164 235909010510 G1 box; other site 235909010511 GTP/Mg2+ binding site [chemical binding]; other site 235909010512 Switch I region; other site 235909010513 G2 box; other site 235909010514 Switch II region; other site 235909010515 G3 box; other site 235909010516 G4 box; other site 235909010517 G5 box; other site 235909010518 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 235909010519 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 235909010520 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 235909010521 G-X-X-G motif; other site 235909010522 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 235909010523 RxxxH motif; other site 235909010524 OxaA-like protein precursor; Validated; Region: PRK02944 235909010525 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 235909010526 ribonuclease P; Reviewed; Region: rnpA; PRK00499 235909010527 Ribosomal protein L34; Region: Ribosomal_L34; cl00370