-- dump date 20140619_061109 -- class Genbank::misc_feature -- table misc_feature_note -- id note 756499000001 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 756499000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 756499000003 DnaA N-terminal domain; Region: DnaA_N; pfam11638 756499000004 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 756499000005 Walker A motif; other site 756499000006 ATP binding site [chemical binding]; other site 756499000007 Walker B motif; other site 756499000008 arginine finger; other site 756499000009 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 756499000010 DnaA box-binding interface [nucleotide binding]; other site 756499000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 756499000012 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 756499000013 putative DNA binding surface [nucleotide binding]; other site 756499000014 dimer interface [polypeptide binding]; other site 756499000015 beta-clamp/clamp loader binding surface; other site 756499000016 beta-clamp/translesion DNA polymerase binding surface; other site 756499000017 recombination protein F; Reviewed; Region: recF; PRK00064 756499000018 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 756499000019 Walker A/P-loop; other site 756499000020 ATP binding site [chemical binding]; other site 756499000021 Q-loop/lid; other site 756499000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499000023 ABC transporter signature motif; other site 756499000024 Walker B; other site 756499000025 D-loop; other site 756499000026 H-loop/switch region; other site 756499000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 756499000028 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499000029 ATP binding site [chemical binding]; other site 756499000030 Mg2+ binding site [ion binding]; other site 756499000031 G-X-G motif; other site 756499000032 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 756499000033 anchoring element; other site 756499000034 dimer interface [polypeptide binding]; other site 756499000035 ATP binding site [chemical binding]; other site 756499000036 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 756499000037 active site 756499000038 putative metal-binding site [ion binding]; other site 756499000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 756499000040 DNA gyrase subunit A; Validated; Region: PRK05560 756499000041 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 756499000042 CAP-like domain; other site 756499000043 active site 756499000044 primary dimer interface [polypeptide binding]; other site 756499000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 756499000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 756499000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 756499000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 756499000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 756499000050 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 756499000051 conserved cys residue [active] 756499000052 seryl-tRNA synthetase; Provisional; Region: PRK05431 756499000053 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 756499000054 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 756499000055 dimer interface [polypeptide binding]; other site 756499000056 active site 756499000057 motif 1; other site 756499000058 motif 2; other site 756499000059 motif 3; other site 756499000060 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 756499000061 nucleoside/Zn binding site; other site 756499000062 dimer interface [polypeptide binding]; other site 756499000063 catalytic motif [active] 756499000064 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 756499000065 Helix-turn-helix domain; Region: HTH_28; pfam13518 756499000066 Helix-turn-helix domain; Region: HTH_28; pfam13518 756499000067 putative transposase OrfB; Reviewed; Region: PHA02517 756499000068 HTH-like domain; Region: HTH_21; pfam13276 756499000069 Integrase core domain; Region: rve; pfam00665 756499000070 Integrase core domain; Region: rve_2; pfam13333 756499000071 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 756499000072 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 756499000073 DNA binding residues [nucleotide binding] 756499000074 dimer interface [polypeptide binding]; other site 756499000075 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 756499000076 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 756499000077 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 756499000078 S-adenosylmethionine binding site [chemical binding]; other site 756499000079 RNA polymerase sigma factor; Provisional; Region: PRK12522 756499000080 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499000081 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 756499000082 DNA binding residues [nucleotide binding] 756499000083 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 756499000084 Domain of unknown function (DUF4418); Region: DUF4418; pfam14387 756499000085 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 756499000086 FtsX-like permease family; Region: FtsX; pfam02687 756499000087 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 756499000088 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 756499000089 Walker A/P-loop; other site 756499000090 ATP binding site [chemical binding]; other site 756499000091 Q-loop/lid; other site 756499000092 ABC transporter signature motif; other site 756499000093 Walker B; other site 756499000094 D-loop; other site 756499000095 H-loop/switch region; other site 756499000096 PQQ-like domain; Region: PQQ_2; pfam13360 756499000097 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 756499000098 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 756499000099 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 756499000100 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 756499000101 molybdopterin cofactor binding site; other site 756499000102 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 756499000103 molybdopterin cofactor binding site; other site 756499000104 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499000105 4Fe-4S binding domain; Region: Fer4; cl02805 756499000106 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 756499000107 FMN-binding domain; Region: FMN_bind; cl01081 756499000108 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 756499000109 non-specific DNA binding site [nucleotide binding]; other site 756499000110 salt bridge; other site 756499000111 sequence-specific DNA binding site [nucleotide binding]; other site 756499000112 Heme exporter protein D (CcmD); Region: CcmD; cl11475 756499000113 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 756499000114 B12 binding site [chemical binding]; other site 756499000115 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 756499000116 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 756499000117 FeS/SAM binding site; other site 756499000118 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 756499000119 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499000120 Coenzyme A binding pocket [chemical binding]; other site 756499000121 conjugal transfer protein TrbB; Provisional; Region: PRK13728; cl17283 756499000122 YoaP-like; Region: YoaP; pfam14268 756499000123 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 756499000124 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 756499000125 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 756499000126 Walker A motif; other site 756499000127 ATP binding site [chemical binding]; other site 756499000128 Walker B motif; other site 756499000129 arginine finger; other site 756499000130 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 756499000131 hypothetical protein; Validated; Region: PRK00153 756499000132 recombination protein RecR; Reviewed; Region: recR; PRK00076 756499000133 RecR protein; Region: RecR; pfam02132 756499000134 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 756499000135 putative active site [active] 756499000136 putative metal-binding site [ion binding]; other site 756499000137 tetramer interface [polypeptide binding]; other site 756499000138 SigmaK-factor processing regulatory protein BofA; Region: BofA; cl06466 756499000139 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 756499000140 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 756499000141 dimer interface [polypeptide binding]; other site 756499000142 PYR/PP interface [polypeptide binding]; other site 756499000143 TPP binding site [chemical binding]; other site 756499000144 substrate binding site [chemical binding]; other site 756499000145 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 756499000146 Domain of unknown function; Region: EKR; smart00890 756499000147 4Fe-4S binding domain; Region: Fer4_6; pfam12837 756499000148 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 756499000149 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 756499000150 TPP-binding site [chemical binding]; other site 756499000151 dimer interface [polypeptide binding]; other site 756499000152 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 756499000153 reductive dehalogenase; Region: RDH; TIGR02486 756499000154 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 756499000155 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 756499000156 ligand binding site [chemical binding]; other site 756499000157 flexible hinge region; other site 756499000158 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 756499000159 reductive dehalogenase; Region: RDH; TIGR02486 756499000160 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 756499000161 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 756499000162 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 756499000163 FMN-binding domain; Region: FMN_bind; pfam04205 756499000164 4Fe-4S binding domain; Region: Fer4_5; pfam12801 756499000165 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 756499000166 dinuclear metal binding motif [ion binding]; other site 756499000167 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 756499000168 Spore germination protein; Region: Spore_permease; cl17796 756499000169 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 756499000170 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 756499000171 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 756499000172 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 756499000173 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 756499000174 catalytic residue [active] 756499000175 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 756499000176 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 756499000177 DNA polymerase III subunit delta'; Validated; Region: PRK08485 756499000178 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 756499000179 Protein of unknown function (DUF972); Region: DUF972; pfam06156 756499000180 Predicted methyltransferases [General function prediction only]; Region: COG0313 756499000181 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 756499000182 putative SAM binding site [chemical binding]; other site 756499000183 putative homodimer interface [polypeptide binding]; other site 756499000184 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 756499000185 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 756499000186 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 756499000187 active site 756499000188 HIGH motif; other site 756499000189 KMSKS motif; other site 756499000190 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 756499000191 tRNA binding surface [nucleotide binding]; other site 756499000192 anticodon binding site; other site 756499000193 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 756499000194 dimer interface [polypeptide binding]; other site 756499000195 putative tRNA-binding site [nucleotide binding]; other site 756499000196 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 756499000197 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 756499000198 active site 756499000199 G5 domain; Region: G5; pfam07501 756499000200 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 756499000201 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 756499000202 Domain of unknown function (DUF348); Region: DUF348; pfam03990 756499000203 Domain of unknown function (DUF348); Region: DUF348; pfam03990 756499000204 Domain of unknown function (DUF348); Region: DUF348; pfam03990 756499000205 G5 domain; Region: G5; pfam07501 756499000206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 756499000207 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 756499000208 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 756499000209 active site 756499000210 metal binding site [ion binding]; metal-binding site 756499000211 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 756499000212 active site 756499000213 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 756499000214 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 756499000215 putative active site [active] 756499000216 putative metal binding site [ion binding]; other site 756499000217 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 756499000218 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 756499000219 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 756499000220 S-adenosylmethionine binding site [chemical binding]; other site 756499000221 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 756499000222 FAD binding site [chemical binding]; other site 756499000223 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 756499000224 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 756499000225 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 756499000226 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 756499000227 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 756499000228 dimerization interface [polypeptide binding]; other site 756499000229 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499000230 dimer interface [polypeptide binding]; other site 756499000231 putative CheW interface [polypeptide binding]; other site 756499000232 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 756499000233 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 756499000234 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 756499000235 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 756499000236 dimerization interface [polypeptide binding]; other site 756499000237 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499000238 dimer interface [polypeptide binding]; other site 756499000239 putative CheW interface [polypeptide binding]; other site 756499000240 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 756499000241 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 756499000242 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 756499000243 active site 756499000244 YabG peptidase U57; Region: Peptidase_U57; pfam05582 756499000245 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 756499000246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 756499000247 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 756499000248 proposed catalytic triad [active] 756499000249 active site nucleophile [active] 756499000250 cyanophycin synthetase; Provisional; Region: PRK14016 756499000251 ATP-grasp domain; Region: ATP-grasp_4; cl17255 756499000252 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 756499000253 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 756499000254 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 756499000255 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 756499000256 DNA binding residues [nucleotide binding] 756499000257 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 756499000258 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 756499000259 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 756499000260 Transcriptional regulators [Transcription]; Region: GntR; COG1802 756499000261 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 756499000262 DNA-binding site [nucleotide binding]; DNA binding site 756499000263 FCD domain; Region: FCD; pfam07729 756499000264 pur operon repressor; Provisional; Region: PRK09213 756499000265 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 756499000266 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 756499000267 active site 756499000268 regulatory protein SpoVG; Reviewed; Region: PRK13259 756499000269 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 756499000270 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 756499000271 Substrate binding site; other site 756499000272 Mg++ binding site; other site 756499000273 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 756499000274 active site 756499000275 substrate binding site [chemical binding]; other site 756499000276 CoA binding site [chemical binding]; other site 756499000277 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 756499000278 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 756499000279 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 756499000280 active site 756499000281 Trans-Isoprenyl Diphosphate Synthases; Region: Trans_IPPS; cd00867 756499000282 substrate binding pocket [chemical binding]; other site 756499000283 substrate-Mg2+ binding site; other site 756499000284 aspartate-rich region 1; other site 756499000285 aspartate-rich region 2; other site 756499000286 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 756499000287 protein binding site [polypeptide binding]; other site 756499000288 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499000289 ATP binding site [chemical binding]; other site 756499000290 Mg2+ binding site [ion binding]; other site 756499000291 G-X-G motif; other site 756499000292 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 756499000293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499000294 active site 756499000295 phosphorylation site [posttranslational modification] 756499000296 intermolecular recognition site; other site 756499000297 dimerization interface [polypeptide binding]; other site 756499000298 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 756499000299 DNA binding residues [nucleotide binding] 756499000300 dimerization interface [polypeptide binding]; other site 756499000301 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499000302 Response regulator receiver domain; Region: Response_reg; pfam00072 756499000303 active site 756499000304 phosphorylation site [posttranslational modification] 756499000305 intermolecular recognition site; other site 756499000306 dimerization interface [polypeptide binding]; other site 756499000307 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 756499000308 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 756499000309 non-specific DNA binding site [nucleotide binding]; other site 756499000310 salt bridge; other site 756499000311 sequence-specific DNA binding site [nucleotide binding]; other site 756499000312 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 756499000313 non-specific DNA binding site [nucleotide binding]; other site 756499000314 salt bridge; other site 756499000315 sequence-specific DNA binding site [nucleotide binding]; other site 756499000316 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 756499000317 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 756499000318 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 756499000319 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 756499000320 PRC-barrel domain; Region: PRC; pfam05239 756499000321 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 756499000322 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 756499000323 putative active site [active] 756499000324 catalytic residue [active] 756499000325 YtoQ family protein; Region: YtoQ_fam; TIGR03646 756499000326 PBP superfamily domain; Region: PBP_like_2; pfam12849 756499000327 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 756499000328 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 756499000329 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 756499000330 ATP binding site [chemical binding]; other site 756499000331 putative Mg++ binding site [ion binding]; other site 756499000332 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 756499000333 nucleotide binding region [chemical binding]; other site 756499000334 TRCF domain; Region: TRCF; pfam03461 756499000335 SurA N-terminal domain; Region: SurA_N_3; cl07813 756499000336 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 756499000337 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 756499000338 stage V sporulation protein T; Region: spore_V_T; TIGR02851 756499000339 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 756499000340 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 756499000341 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 756499000342 active site 756499000343 homodimer interface [polypeptide binding]; other site 756499000344 SAM binding site [chemical binding]; other site 756499000345 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 756499000346 homodimer interface [polypeptide binding]; other site 756499000347 metal binding site [ion binding]; metal-binding site 756499000348 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 756499000349 homodimer interface [polypeptide binding]; other site 756499000350 active site 756499000351 putative chemical substrate binding site [chemical binding]; other site 756499000352 metal binding site [ion binding]; metal-binding site 756499000353 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 756499000354 IHF - DNA interface [nucleotide binding]; other site 756499000355 IHF dimer interface [polypeptide binding]; other site 756499000356 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 756499000357 RNA binding surface [nucleotide binding]; other site 756499000358 YabP family; Region: YabP; cl06766 756499000359 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; pfam09578 756499000360 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 756499000361 DNA binding residues [nucleotide binding] 756499000362 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 756499000363 RNA binding site [nucleotide binding]; other site 756499000364 stage II sporulation protein E; Region: spore_II_E; TIGR02865 756499000365 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 756499000366 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 756499000367 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 756499000368 Ligand Binding Site [chemical binding]; other site 756499000369 TilS substrate C-terminal domain; Region: TilS_C; smart00977 756499000370 FtsH Extracellular; Region: FtsH_ext; pfam06480 756499000371 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 756499000372 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 756499000373 Walker A motif; other site 756499000374 ATP binding site [chemical binding]; other site 756499000375 Walker B motif; other site 756499000376 Peptidase family M41; Region: Peptidase_M41; pfam01434 756499000377 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 756499000378 active site 756499000379 multimer interface [polypeptide binding]; other site 756499000380 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 756499000381 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 756499000382 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 756499000383 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 756499000384 Potassium binding sites [ion binding]; other site 756499000385 Cesium cation binding sites [ion binding]; other site 756499000386 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 756499000387 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 756499000388 dihydropteroate synthase; Region: DHPS; TIGR01496 756499000389 substrate binding pocket [chemical binding]; other site 756499000390 dimer interface [polypeptide binding]; other site 756499000391 inhibitor binding site; inhibition site 756499000392 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 756499000393 homooctamer interface [polypeptide binding]; other site 756499000394 active site 756499000395 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 756499000396 catalytic center binding site [active] 756499000397 ATP binding site [chemical binding]; other site 756499000398 Rossmann-like domain; Region: Rossmann-like; pfam10727 756499000399 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 756499000400 pantoate--beta-alanine ligase; Region: panC; TIGR00018 756499000401 Pantoate-beta-alanine ligase; Region: PanC; cd00560 756499000402 active site 756499000403 ATP-binding site [chemical binding]; other site 756499000404 pantoate-binding site; other site 756499000405 HXXH motif; other site 756499000406 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 756499000407 tetramerization interface [polypeptide binding]; other site 756499000408 active site 756499000409 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 756499000410 L-aspartate oxidase; Provisional; Region: PRK06175 756499000411 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 756499000412 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 756499000413 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 756499000414 dimerization interface [polypeptide binding]; other site 756499000415 active site 756499000416 Biotin operon repressor [Transcription]; Region: BirA; COG1654 756499000417 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 756499000418 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 756499000419 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 756499000420 pantothenate kinase; Reviewed; Region: PRK13318 756499000421 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 756499000422 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 756499000423 FMN binding site [chemical binding]; other site 756499000424 active site 756499000425 catalytic residues [active] 756499000426 substrate binding site [chemical binding]; other site 756499000427 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 756499000428 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 756499000429 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 756499000430 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 756499000431 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 756499000432 dimer interface [polypeptide binding]; other site 756499000433 putative anticodon binding site; other site 756499000434 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 756499000435 motif 1; other site 756499000436 active site 756499000437 motif 2; other site 756499000438 motif 3; other site 756499000439 Transposase domain (DUF772); Region: DUF772; pfam05598 756499000440 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 756499000441 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 756499000442 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 756499000443 acyl-activating enzyme (AAE) consensus motif; other site 756499000444 AMP binding site [chemical binding]; other site 756499000445 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 756499000446 Phosphopantetheine attachment site; Region: PP-binding; cl09936 756499000447 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 756499000448 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 756499000449 DltD central region; Region: DltD_M; pfam04918 756499000450 DltD C-terminal region; Region: DltD_C; pfam04914 756499000451 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 756499000452 Transcriptional regulator [Transcription]; Region: LysR; COG0583 756499000453 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 756499000454 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 756499000455 dimerization interface [polypeptide binding]; other site 756499000456 benzoate transport; Region: 2A0115; TIGR00895 756499000457 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 756499000458 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 756499000459 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 756499000460 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 756499000461 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 756499000462 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 756499000463 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 756499000464 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 756499000465 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 756499000466 iron-sulfur cluster [ion binding]; other site 756499000467 [2Fe-2S] cluster binding site [ion binding]; other site 756499000468 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 756499000469 active site 756499000470 DNA binding site [nucleotide binding] 756499000471 Int/Topo IB signature motif; other site 756499000472 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499000473 Zn2+ binding site [ion binding]; other site 756499000474 Mg2+ binding site [ion binding]; other site 756499000475 Domain of unknown function (DUF4191); Region: DUF4191; pfam13829 756499000476 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 756499000477 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 756499000478 DXD motif; other site 756499000479 agmatinase; Region: agmatinase; TIGR01230 756499000480 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 756499000481 putative active site [active] 756499000482 Mn binding site [ion binding]; other site 756499000483 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 756499000484 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 756499000485 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 756499000486 catalytic residue [active] 756499000487 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 756499000488 spermidine synthase; Provisional; Region: PRK00811 756499000489 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 756499000490 S-adenosylmethionine binding site [chemical binding]; other site 756499000491 Hemerythrin; Region: Hemerythrin; cd12107 756499000492 Fe binding site [ion binding]; other site 756499000493 YtxC-like family; Region: YtxC; pfam08812 756499000494 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 756499000495 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 756499000496 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 756499000497 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 756499000498 active site 756499000499 dimer interface [polypeptide binding]; other site 756499000500 motif 1; other site 756499000501 motif 2; other site 756499000502 motif 3; other site 756499000503 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 756499000504 anticodon binding site; other site 756499000505 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 756499000506 Predicted membrane protein [Function unknown]; Region: COG2510 756499000507 Predicted membrane protein [Function unknown]; Region: COG2510 756499000508 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 756499000509 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 756499000510 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 756499000511 B12 binding site [chemical binding]; other site 756499000512 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 756499000513 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 756499000514 GAF domain; Region: GAF_2; pfam13185 756499000515 Sec20; Region: Sec20; pfam03908 756499000516 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499000517 ATP binding site [chemical binding]; other site 756499000518 Mg2+ binding site [ion binding]; other site 756499000519 G-X-G motif; other site 756499000520 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 756499000521 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499000522 active site 756499000523 phosphorylation site [posttranslational modification] 756499000524 intermolecular recognition site; other site 756499000525 dimerization interface [polypeptide binding]; other site 756499000526 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 756499000527 Walker A motif; other site 756499000528 ATP binding site [chemical binding]; other site 756499000529 Walker B motif; other site 756499000530 arginine finger; other site 756499000531 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 756499000532 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 756499000533 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 756499000534 FtsX-like permease family; Region: FtsX; pfam02687 756499000535 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 756499000536 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 756499000537 Walker A/P-loop; other site 756499000538 ATP binding site [chemical binding]; other site 756499000539 Q-loop/lid; other site 756499000540 ABC transporter signature motif; other site 756499000541 Walker B; other site 756499000542 D-loop; other site 756499000543 H-loop/switch region; other site 756499000544 Domain of unknown function (DUF4418); Region: DUF4418; pfam14387 756499000545 4Fe-4S binding domain; Region: Fer4_5; pfam12801 756499000546 4Fe-4S binding domain; Region: Fer4_5; pfam12801 756499000547 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 756499000548 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 756499000549 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 756499000550 iron-sulfur cluster [ion binding]; other site 756499000551 [2Fe-2S] cluster binding site [ion binding]; other site 756499000552 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 756499000553 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 756499000554 interchain domain interface [polypeptide binding]; other site 756499000555 intrachain domain interface; other site 756499000556 heme bH binding site [chemical binding]; other site 756499000557 Qi binding site; other site 756499000558 heme bL binding site [chemical binding]; other site 756499000559 Qo binding site; other site 756499000560 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 756499000561 intrachain domain interface; other site 756499000562 Qi binding site; other site 756499000563 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 756499000564 Qo binding site; other site 756499000565 nitrous-oxide reductase, Sec-dependent; Region: nitrous_NosZ_Gp; TIGR04246 756499000566 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 756499000567 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 756499000568 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 756499000569 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 756499000570 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 756499000571 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 756499000572 NosL; Region: NosL; cl01769 756499000573 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 756499000574 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 756499000575 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499000576 Walker A/P-loop; other site 756499000577 ATP binding site [chemical binding]; other site 756499000578 Q-loop/lid; other site 756499000579 ABC transporter signature motif; other site 756499000580 Walker B; other site 756499000581 D-loop; other site 756499000582 H-loop/switch region; other site 756499000583 Ribosomal protein L20 leader; Desde_0192 756499000584 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 756499000585 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 756499000586 23S rRNA binding site [nucleotide binding]; other site 756499000587 L21 binding site [polypeptide binding]; other site 756499000588 L13 binding site [polypeptide binding]; other site 756499000589 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 756499000590 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 756499000591 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 756499000592 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 756499000593 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 756499000594 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 756499000595 dimer interface [polypeptide binding]; other site 756499000596 motif 1; other site 756499000597 active site 756499000598 motif 2; other site 756499000599 motif 3; other site 756499000600 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 756499000601 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 756499000602 putative tRNA-binding site [nucleotide binding]; other site 756499000603 B3/4 domain; Region: B3_4; pfam03483 756499000604 tRNA synthetase B5 domain; Region: B5; smart00874 756499000605 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 756499000606 dimer interface [polypeptide binding]; other site 756499000607 motif 1; other site 756499000608 motif 3; other site 756499000609 motif 2; other site 756499000610 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 756499000611 Cell division protein ZapA; Region: ZapA; cl01146 756499000612 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 756499000613 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 756499000614 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 756499000615 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 756499000616 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 756499000617 dimer interface [polypeptide binding]; other site 756499000618 conserved gate region; other site 756499000619 putative PBP binding loops; other site 756499000620 ABC-ATPase subunit interface; other site 756499000621 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 756499000622 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 756499000623 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 756499000624 dimer interface [polypeptide binding]; other site 756499000625 conserved gate region; other site 756499000626 putative PBP binding loops; other site 756499000627 ABC-ATPase subunit interface; other site 756499000628 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 756499000629 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 756499000630 Walker A/P-loop; other site 756499000631 ATP binding site [chemical binding]; other site 756499000632 Q-loop/lid; other site 756499000633 ABC transporter signature motif; other site 756499000634 Walker B; other site 756499000635 D-loop; other site 756499000636 H-loop/switch region; other site 756499000637 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 756499000638 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 756499000639 Walker A/P-loop; other site 756499000640 ATP binding site [chemical binding]; other site 756499000641 Q-loop/lid; other site 756499000642 ABC transporter signature motif; other site 756499000643 Walker B; other site 756499000644 D-loop; other site 756499000645 H-loop/switch region; other site 756499000646 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 756499000647 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 756499000648 DNA binding residues [nucleotide binding] 756499000649 drug binding residues [chemical binding]; other site 756499000650 dimer interface [polypeptide binding]; other site 756499000651 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 756499000652 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 756499000653 Major Facilitator Superfamily; Region: MFS_1; pfam07690 756499000654 putative substrate translocation pore; other site 756499000655 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 756499000656 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 756499000657 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 756499000658 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 756499000659 Peptidase family U32; Region: Peptidase_U32; pfam01136 756499000660 Collagenase; Region: DUF3656; pfam12392 756499000661 Peptidase family U32; Region: Peptidase_U32; pfam01136 756499000662 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 756499000663 MutS domain III; Region: MutS_III; pfam05192 756499000664 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 756499000665 Walker A/P-loop; other site 756499000666 ATP binding site [chemical binding]; other site 756499000667 Q-loop/lid; other site 756499000668 ABC transporter signature motif; other site 756499000669 Walker B; other site 756499000670 D-loop; other site 756499000671 H-loop/switch region; other site 756499000672 Smr domain; Region: Smr; pfam01713 756499000673 tricarballylate dehydrogenase; Validated; Region: PRK08274 756499000674 Predicted oxidoreductase [General function prediction only]; Region: COG3573 756499000675 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 756499000676 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 756499000677 Walker A motif; other site 756499000678 ATP binding site [chemical binding]; other site 756499000679 Walker B motif; other site 756499000680 arginine finger; other site 756499000681 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 756499000682 Transglycosylase; Region: Transgly; pfam00912 756499000683 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 756499000684 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 756499000685 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 756499000686 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 756499000687 active site 756499000688 HIGH motif; other site 756499000689 dimer interface [polypeptide binding]; other site 756499000690 KMSKS motif; other site 756499000691 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 756499000692 RNA binding surface [nucleotide binding]; other site 756499000693 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 756499000694 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 756499000695 inhibitor-cofactor binding pocket; inhibition site 756499000696 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499000697 catalytic residue [active] 756499000698 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 756499000699 Ligand binding site; other site 756499000700 Putative Catalytic site; other site 756499000701 DXD motif; other site 756499000702 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 756499000703 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 756499000704 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 756499000705 NMT1-like family; Region: NMT1_2; pfam13379 756499000706 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 756499000707 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 756499000708 ABC-ATPase subunit interface; other site 756499000709 putative PBP binding loops; other site 756499000710 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 756499000711 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 756499000712 Walker A/P-loop; other site 756499000713 ATP binding site [chemical binding]; other site 756499000714 Q-loop/lid; other site 756499000715 ABC transporter signature motif; other site 756499000716 Walker B; other site 756499000717 D-loop; other site 756499000718 H-loop/switch region; other site 756499000719 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 756499000720 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 756499000721 active site residue [active] 756499000722 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 756499000723 active site residue [active] 756499000724 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 756499000725 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 756499000726 CPxP motif; other site 756499000727 Sulphur transport; Region: Sulf_transp; pfam04143 756499000728 Transcriptional regulator [Transcription]; Region: LysR; COG0583 756499000729 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 756499000730 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 756499000731 putative dimerization interface [polypeptide binding]; other site 756499000732 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 756499000733 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 756499000734 NAD binding site [chemical binding]; other site 756499000735 substrate binding site [chemical binding]; other site 756499000736 homodimer interface [polypeptide binding]; other site 756499000737 active site 756499000738 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 756499000739 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 756499000740 substrate binding site; other site 756499000741 tetramer interface; other site 756499000742 Methyltransferase domain; Region: Methyltransf_31; pfam13847 756499000743 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 756499000744 S-adenosylmethionine binding site [chemical binding]; other site 756499000745 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 756499000746 flagellar motor protein MotA; Validated; Region: PRK08124 756499000747 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 756499000748 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 756499000749 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 756499000750 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 756499000751 ligand binding site [chemical binding]; other site 756499000752 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 756499000753 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499000754 dimer interface [polypeptide binding]; other site 756499000755 putative CheW interface [polypeptide binding]; other site 756499000756 hypothetical protein; Validated; Region: PRK02101 756499000757 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499000758 Coenzyme A binding pocket [chemical binding]; other site 756499000759 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 756499000760 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499000761 Coenzyme A binding pocket [chemical binding]; other site 756499000762 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 756499000763 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 756499000764 Spore germination protein; Region: Spore_permease; cl17796 756499000765 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 756499000766 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 756499000767 Spore germination protein; Region: Spore_permease; cl17796 756499000768 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 756499000769 4Fe-4S binding domain; Region: Fer4_5; pfam12801 756499000770 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 756499000771 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 756499000772 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 756499000773 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 756499000774 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 756499000775 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 756499000776 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 756499000777 Cysteine-rich domain; Region: CCG; pfam02754 756499000778 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 756499000779 Anticodon binding domain of tRNAs; Region: HGTP_anticodon2; pfam12745 756499000780 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 756499000781 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 756499000782 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 756499000783 active site residue [active] 756499000784 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 756499000785 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 756499000786 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 756499000787 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 756499000788 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 756499000789 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 756499000790 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 756499000791 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 756499000792 Cysteine-rich domain; Region: CCG; pfam02754 756499000793 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 756499000794 4Fe-4S binding domain; Region: Fer4_6; pfam12837 756499000795 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 756499000796 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 756499000797 DsrC like protein; Region: DsrC; pfam04358 756499000798 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 756499000799 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 756499000800 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 756499000801 catalytic triad [active] 756499000802 Transcriptional regulator [Transcription]; Region: LysR; COG0583 756499000803 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 756499000804 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 756499000805 putative dimerization interface [polypeptide binding]; other site 756499000806 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 756499000807 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_7; cd07585 756499000808 putative active site [active] 756499000809 catalytic triad [active] 756499000810 putative dimer interface [polypeptide binding]; other site 756499000811 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 756499000812 ATP cone domain; Region: ATP-cone; pfam03477 756499000813 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 756499000814 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 756499000815 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 756499000816 active site 756499000817 dimer interface [polypeptide binding]; other site 756499000818 effector binding site; other site 756499000819 TSCPD domain; Region: TSCPD; pfam12637 756499000820 YopX protein; Region: YopX; pfam09643 756499000821 EamA-like transporter family; Region: EamA; pfam00892 756499000822 EamA-like transporter family; Region: EamA; pfam00892 756499000823 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 756499000824 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 756499000825 Mg++ binding site [ion binding]; other site 756499000826 putative catalytic motif [active] 756499000827 substrate binding site [chemical binding]; other site 756499000828 Predicted transcriptional regulators [Transcription]; Region: COG1725 756499000829 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 756499000830 DNA-binding site [nucleotide binding]; DNA binding site 756499000831 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 756499000832 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499000833 Walker A/P-loop; other site 756499000834 ATP binding site [chemical binding]; other site 756499000835 Q-loop/lid; other site 756499000836 ABC transporter signature motif; other site 756499000837 Walker B; other site 756499000838 D-loop; other site 756499000839 H-loop/switch region; other site 756499000840 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 756499000841 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 756499000842 Methyltransferase domain; Region: Methyltransf_11; pfam08241 756499000843 S-adenosylmethionine binding site [chemical binding]; other site 756499000844 Probable zinc-binding domain; Region: zf-trcl; pfam13451 756499000845 CxxC-x17-CxxC domain; Region: cxxc_cxxc_Mbark; TIGR04272 756499000846 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 756499000847 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 756499000848 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 756499000849 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499000850 dimer interface [polypeptide binding]; other site 756499000851 putative CheW interface [polypeptide binding]; other site 756499000852 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 756499000853 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 756499000854 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 756499000855 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499000856 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 756499000857 dimerization interface [polypeptide binding]; other site 756499000858 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 756499000859 dimer interface [polypeptide binding]; other site 756499000860 phosphorylation site [posttranslational modification] 756499000861 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499000862 ATP binding site [chemical binding]; other site 756499000863 Mg2+ binding site [ion binding]; other site 756499000864 G-X-G motif; other site 756499000865 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499000866 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499000867 active site 756499000868 phosphorylation site [posttranslational modification] 756499000869 intermolecular recognition site; other site 756499000870 dimerization interface [polypeptide binding]; other site 756499000871 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 756499000872 DNA binding site [nucleotide binding] 756499000873 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 756499000874 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499000875 4Fe-4S binding domain; Region: Fer4; cl02805 756499000876 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 756499000877 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 756499000878 putative [Fe4-S4] binding site [ion binding]; other site 756499000879 putative molybdopterin cofactor binding site [chemical binding]; other site 756499000880 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 756499000881 putative molybdopterin cofactor binding site; other site 756499000882 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 756499000883 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 756499000884 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 756499000885 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 756499000886 G1 box; other site 756499000887 GTP/Mg2+ binding site [chemical binding]; other site 756499000888 Switch I region; other site 756499000889 G2 box; other site 756499000890 G3 box; other site 756499000891 Switch II region; other site 756499000892 G4 box; other site 756499000893 G5 box; other site 756499000894 Nucleoside recognition; Region: Gate; pfam07670 756499000895 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 756499000896 Nucleoside recognition; Region: Gate; pfam07670 756499000897 FMN-binding domain; Region: FMN_bind; cl01081 756499000898 Predicted oxidoreductase [General function prediction only]; Region: COG3573 756499000899 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 756499000900 L-aspartate oxidase; Provisional; Region: PRK06175 756499000901 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 756499000902 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 756499000903 DNA binding residues [nucleotide binding] 756499000904 dimer interface [polypeptide binding]; other site 756499000905 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 756499000906 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 756499000907 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 756499000908 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 756499000909 Transcriptional regulators [Transcription]; Region: FadR; COG2186 756499000910 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 756499000911 DNA-binding site [nucleotide binding]; DNA binding site 756499000912 FCD domain; Region: FCD; pfam07729 756499000913 phenylhydantoinase; Validated; Region: PRK08323 756499000914 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 756499000915 tetramer interface [polypeptide binding]; other site 756499000916 active site 756499000917 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 756499000918 D-galactonate transporter; Region: 2A0114; TIGR00893 756499000919 putative substrate translocation pore; other site 756499000920 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 756499000921 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 756499000922 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 756499000923 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 756499000924 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 756499000925 Protein of unknown function (DUF3830); Region: DUF3830; pfam12903 756499000926 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 756499000927 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 756499000928 ligand binding site [chemical binding]; other site 756499000929 flexible hinge region; other site 756499000930 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 756499000931 putative switch regulator; other site 756499000932 non-specific DNA interactions [nucleotide binding]; other site 756499000933 DNA binding site [nucleotide binding] 756499000934 sequence specific DNA binding site [nucleotide binding]; other site 756499000935 putative cAMP binding site [chemical binding]; other site 756499000936 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_4; cd07582 756499000937 Predicted amidohydrolase [General function prediction only]; Region: COG0388 756499000938 putative active site [active] 756499000939 catalytic triad [active] 756499000940 putative dimer interface [polypeptide binding]; other site 756499000941 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 756499000942 putative metal binding residues [ion binding]; other site 756499000943 signature motif; other site 756499000944 dimer interface [polypeptide binding]; other site 756499000945 active site 756499000946 polyP binding site; other site 756499000947 substrate binding site [chemical binding]; other site 756499000948 acceptor-phosphate pocket; other site 756499000949 CotH protein; Region: CotH; pfam08757 756499000950 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 756499000951 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 756499000952 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 756499000953 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 756499000954 DXD motif; other site 756499000955 Cellulose synthase-like protein; Region: PLN02893 756499000956 PilZ domain; Region: PilZ; pfam07238 756499000957 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 756499000958 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 756499000959 SERine Proteinase INhibitors (serpins), prokaryotic subgroup. Little information about specific functions is available for this subgroup, most likely they are inhibitory members of the serpin superfamily. In general, serpins exhibit conformational...; Region: bacterial_SERPIN; cd02049 756499000960 reactive center loop; other site 756499000961 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 756499000962 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499000963 Coenzyme A binding pocket [chemical binding]; other site 756499000964 PAS domain; Region: PAS_9; pfam13426 756499000965 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 756499000966 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 756499000967 Walker A motif; other site 756499000968 ATP binding site [chemical binding]; other site 756499000969 Walker B motif; other site 756499000970 arginine finger; other site 756499000971 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 756499000972 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 756499000973 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 756499000974 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 756499000975 4Fe-4S binding domain; Region: Fer4_6; pfam12837 756499000976 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 756499000977 FeS/SAM binding site; other site 756499000978 benzoate transport; Region: 2A0115; TIGR00895 756499000979 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 756499000980 putative substrate translocation pore; other site 756499000981 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 756499000982 putative substrate translocation pore; other site 756499000983 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 756499000984 classical (c) SDRs; Region: SDR_c; cd05233 756499000985 NAD(P) binding site [chemical binding]; other site 756499000986 active site 756499000987 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 756499000988 Uncharacterized family 1; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_1; cd10158 756499000989 putative homodimer interface [polypeptide binding]; other site 756499000990 putative homotetramer interface [polypeptide binding]; other site 756499000991 putative metal binding site [ion binding]; other site 756499000992 putative homodimer-homodimer interface [polypeptide binding]; other site 756499000993 putative allosteric switch controlling residues; other site 756499000994 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 756499000995 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 756499000996 putative metal binding site [ion binding]; other site 756499000997 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 756499000998 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 756499000999 ABC-ATPase subunit interface; other site 756499001000 dimer interface [polypeptide binding]; other site 756499001001 putative PBP binding regions; other site 756499001002 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 756499001003 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 756499001004 Walker A/P-loop; other site 756499001005 ATP binding site [chemical binding]; other site 756499001006 Q-loop/lid; other site 756499001007 ABC transporter signature motif; other site 756499001008 Walker B; other site 756499001009 D-loop; other site 756499001010 H-loop/switch region; other site 756499001011 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 756499001012 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 756499001013 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 756499001014 Putative motility protein; Region: YjfB_motility; pfam14070 756499001015 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 756499001016 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 756499001017 FeS/SAM binding site; other site 756499001018 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 756499001019 ATP cone domain; Region: ATP-cone; pfam03477 756499001020 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 756499001021 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 756499001022 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499001023 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 756499001024 dimer interface [polypeptide binding]; other site 756499001025 phosphorylation site [posttranslational modification] 756499001026 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499001027 ATP binding site [chemical binding]; other site 756499001028 Mg2+ binding site [ion binding]; other site 756499001029 G-X-G motif; other site 756499001030 Response regulator receiver domain; Region: Response_reg; pfam00072 756499001031 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499001032 active site 756499001033 phosphorylation site [posttranslational modification] 756499001034 intermolecular recognition site; other site 756499001035 dimerization interface [polypeptide binding]; other site 756499001036 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 756499001037 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 756499001038 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 756499001039 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 756499001040 ATP-grasp domain; Region: ATP-grasp_4; cl17255 756499001041 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 756499001042 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 756499001043 ATP-grasp domain; Region: ATP-grasp_4; cl17255 756499001044 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 756499001045 IMP binding site; other site 756499001046 dimer interface [polypeptide binding]; other site 756499001047 partial ornithine binding site; other site 756499001048 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 756499001049 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 756499001050 Propanediol utilisation protein PduL; Region: PduL; pfam06130 756499001051 Propanediol utilisation protein PduL; Region: PduL; pfam06130 756499001052 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 756499001053 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 756499001054 putative catalytic cysteine [active] 756499001055 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 756499001056 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 756499001057 Hexamer interface [polypeptide binding]; other site 756499001058 Putative hexagonal pore residue; other site 756499001059 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 756499001060 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 756499001061 Hexamer interface [polypeptide binding]; other site 756499001062 Putative hexagonal pore residue; other site 756499001063 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 756499001064 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 756499001065 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 756499001066 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 756499001067 putative hexamer interface [polypeptide binding]; other site 756499001068 putative hexagonal pore; other site 756499001069 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 756499001070 putative hexamer interface [polypeptide binding]; other site 756499001071 putative hexagonal pore; other site 756499001072 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 756499001073 SLBB domain; Region: SLBB; pfam10531 756499001074 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 756499001075 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 756499001076 Hexamer/Pentamer interface [polypeptide binding]; other site 756499001077 central pore; other site 756499001078 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 756499001079 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 756499001080 nucleotide binding site [chemical binding]; other site 756499001081 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 756499001082 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 756499001083 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 756499001084 PAS domain; Region: PAS_9; pfam13426 756499001085 putative active site [active] 756499001086 heme pocket [chemical binding]; other site 756499001087 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 756499001088 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 756499001089 Walker A motif; other site 756499001090 ATP binding site [chemical binding]; other site 756499001091 Walker B motif; other site 756499001092 arginine finger; other site 756499001093 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 756499001094 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 756499001095 dimer interface [polypeptide binding]; other site 756499001096 active site 756499001097 glycine loop; other site 756499001098 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 756499001099 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 756499001100 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 756499001101 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 756499001102 DctM-like transporters; Region: DctM; pfam06808 756499001103 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 756499001104 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 756499001105 DNA polymerase IV; Reviewed; Region: PRK03103 756499001106 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 756499001107 active site 756499001108 DNA binding site [nucleotide binding] 756499001109 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 756499001110 putative FMN binding site [chemical binding]; other site 756499001111 Protein of unknown function DUF45; Region: DUF45; pfam01863 756499001112 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 756499001113 HlyD family secretion protein; Region: HlyD_3; pfam13437 756499001114 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 756499001115 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 756499001116 Walker A/P-loop; other site 756499001117 ATP binding site [chemical binding]; other site 756499001118 Q-loop/lid; other site 756499001119 ABC transporter signature motif; other site 756499001120 Walker B; other site 756499001121 D-loop; other site 756499001122 H-loop/switch region; other site 756499001123 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 756499001124 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 756499001125 FtsX-like permease family; Region: FtsX; pfam02687 756499001126 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499001127 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499001128 active site 756499001129 phosphorylation site [posttranslational modification] 756499001130 intermolecular recognition site; other site 756499001131 dimerization interface [polypeptide binding]; other site 756499001132 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 756499001133 DNA binding site [nucleotide binding] 756499001134 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499001135 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 756499001136 dimerization interface [polypeptide binding]; other site 756499001137 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 756499001138 dimer interface [polypeptide binding]; other site 756499001139 phosphorylation site [posttranslational modification] 756499001140 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499001141 ATP binding site [chemical binding]; other site 756499001142 Mg2+ binding site [ion binding]; other site 756499001143 G-X-G motif; other site 756499001144 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 756499001145 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 756499001146 Uncharacterized conserved protein [Function unknown]; Region: COG1434 756499001147 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 756499001148 putative active site [active] 756499001149 Transglycosylase; Region: Transgly; pfam00912 756499001150 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 756499001151 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 756499001152 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 756499001153 oligomerization interface [polypeptide binding]; other site 756499001154 active site 756499001155 metal binding site [ion binding]; metal-binding site 756499001156 RNHCP domain; Region: RNHCP; pfam12647 756499001157 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_15; cd04673 756499001158 nudix motif; other site 756499001159 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 756499001160 Major Facilitator Superfamily; Region: MFS_1; pfam07690 756499001161 putative substrate translocation pore; other site 756499001162 Rubrerythrin [Energy production and conversion]; Region: COG1592 756499001163 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 756499001164 binuclear metal center [ion binding]; other site 756499001165 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 756499001166 iron binding site [ion binding]; other site 756499001167 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 756499001168 D-galactonate transporter; Region: 2A0114; TIGR00893 756499001169 putative substrate translocation pore; other site 756499001170 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 756499001171 Ligand Binding Site [chemical binding]; other site 756499001172 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 756499001173 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 756499001174 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 756499001175 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 756499001176 ADP binding site [chemical binding]; other site 756499001177 phosphagen binding site; other site 756499001178 substrate specificity loop; other site 756499001179 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 756499001180 Clp amino terminal domain; Region: Clp_N; pfam02861 756499001181 Clp amino terminal domain; Region: Clp_N; pfam02861 756499001182 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 756499001183 Walker A motif; other site 756499001184 ATP binding site [chemical binding]; other site 756499001185 Walker B motif; other site 756499001186 arginine finger; other site 756499001187 UvrB/uvrC motif; Region: UVR; pfam02151 756499001188 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 756499001189 Walker A motif; other site 756499001190 ATP binding site [chemical binding]; other site 756499001191 Walker B motif; other site 756499001192 arginine finger; other site 756499001193 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 756499001194 DNA repair protein RadA; Provisional; Region: PRK11823 756499001195 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 756499001196 Walker A motif/ATP binding site; other site 756499001197 ATP binding site [chemical binding]; other site 756499001198 Walker B motif; other site 756499001199 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 756499001200 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 756499001201 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 756499001202 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 756499001203 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 756499001204 putative active site [active] 756499001205 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 756499001206 substrate binding site; other site 756499001207 dimer interface; other site 756499001208 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 756499001209 homotrimer interaction site [polypeptide binding]; other site 756499001210 zinc binding site [ion binding]; other site 756499001211 CDP-binding sites; other site 756499001212 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 756499001213 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 756499001214 active site 756499001215 HIGH motif; other site 756499001216 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 756499001217 active site 756499001218 KMSKS motif; other site 756499001219 serine O-acetyltransferase; Region: cysE; TIGR01172 756499001220 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 756499001221 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 756499001222 trimer interface [polypeptide binding]; other site 756499001223 active site 756499001224 substrate binding site [chemical binding]; other site 756499001225 CoA binding site [chemical binding]; other site 756499001226 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 756499001227 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 756499001228 active site 756499001229 HIGH motif; other site 756499001230 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 756499001231 KMSKS motif; other site 756499001232 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 756499001233 tRNA binding surface [nucleotide binding]; other site 756499001234 anticodon binding site; other site 756499001235 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 756499001236 active site 756499001237 metal binding site [ion binding]; metal-binding site 756499001238 dimerization interface [polypeptide binding]; other site 756499001239 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 756499001240 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 756499001241 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 756499001242 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 756499001243 RNA polymerase factor sigma-70; Validated; Region: PRK08295 756499001244 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499001245 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 756499001246 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 756499001247 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 756499001248 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 756499001249 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 756499001250 putative homodimer interface [polypeptide binding]; other site 756499001251 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 756499001252 heterodimer interface [polypeptide binding]; other site 756499001253 homodimer interface [polypeptide binding]; other site 756499001254 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 756499001255 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 756499001256 23S rRNA interface [nucleotide binding]; other site 756499001257 L7/L12 interface [polypeptide binding]; other site 756499001258 putative thiostrepton binding site; other site 756499001259 L25 interface [polypeptide binding]; other site 756499001260 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 756499001261 mRNA/rRNA interface [nucleotide binding]; other site 756499001262 Ribosomal protein L10 leader; Desde_0413 756499001263 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 756499001264 23S rRNA interface [nucleotide binding]; other site 756499001265 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 756499001266 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 756499001267 peripheral dimer interface [polypeptide binding]; other site 756499001268 core dimer interface [polypeptide binding]; other site 756499001269 L10 interface [polypeptide binding]; other site 756499001270 L11 interface [polypeptide binding]; other site 756499001271 putative EF-Tu interaction site [polypeptide binding]; other site 756499001272 putative EF-G interaction site [polypeptide binding]; other site 756499001273 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 756499001274 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 756499001275 RPB12 interaction site [polypeptide binding]; other site 756499001276 RPB1 interaction site [polypeptide binding]; other site 756499001277 RPB10 interaction site [polypeptide binding]; other site 756499001278 RPB11 interaction site [polypeptide binding]; other site 756499001279 RPB3 interaction site [polypeptide binding]; other site 756499001280 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 756499001281 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 756499001282 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 756499001283 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 756499001284 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 756499001285 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 756499001286 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 756499001287 G-loop; other site 756499001288 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 756499001289 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 756499001290 DNA binding site [nucleotide binding] 756499001291 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 756499001292 putative ribosomal protein L7Ae-like; Provisional; Region: PRK13602 756499001293 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 756499001294 S17 interaction site [polypeptide binding]; other site 756499001295 S8 interaction site; other site 756499001296 16S rRNA interaction site [nucleotide binding]; other site 756499001297 streptomycin interaction site [chemical binding]; other site 756499001298 23S rRNA interaction site [nucleotide binding]; other site 756499001299 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 756499001300 30S ribosomal protein S7; Validated; Region: PRK05302 756499001301 elongation factor G; Reviewed; Region: PRK00007 756499001302 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 756499001303 G1 box; other site 756499001304 putative GEF interaction site [polypeptide binding]; other site 756499001305 GTP/Mg2+ binding site [chemical binding]; other site 756499001306 Switch I region; other site 756499001307 G2 box; other site 756499001308 G3 box; other site 756499001309 Switch II region; other site 756499001310 G4 box; other site 756499001311 G5 box; other site 756499001312 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 756499001313 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 756499001314 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 756499001315 elongation factor Tu; Reviewed; Region: PRK00049 756499001316 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 756499001317 G1 box; other site 756499001318 GEF interaction site [polypeptide binding]; other site 756499001319 GTP/Mg2+ binding site [chemical binding]; other site 756499001320 Switch I region; other site 756499001321 G2 box; other site 756499001322 G3 box; other site 756499001323 Switch II region; other site 756499001324 G4 box; other site 756499001325 G5 box; other site 756499001326 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 756499001327 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 756499001328 Antibiotic Binding Site [chemical binding]; other site 756499001329 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 756499001330 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 756499001331 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 756499001332 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 756499001333 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 756499001334 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 756499001335 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 756499001336 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 756499001337 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 756499001338 putative translocon binding site; other site 756499001339 protein-rRNA interface [nucleotide binding]; other site 756499001340 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 756499001341 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 756499001342 G-X-X-G motif; other site 756499001343 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 756499001344 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 756499001345 23S rRNA interface [nucleotide binding]; other site 756499001346 5S rRNA interface [nucleotide binding]; other site 756499001347 putative antibiotic binding site [chemical binding]; other site 756499001348 L25 interface [polypeptide binding]; other site 756499001349 L27 interface [polypeptide binding]; other site 756499001350 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 756499001351 23S rRNA interface [nucleotide binding]; other site 756499001352 putative translocon interaction site; other site 756499001353 signal recognition particle (SRP54) interaction site; other site 756499001354 L23 interface [polypeptide binding]; other site 756499001355 trigger factor interaction site; other site 756499001356 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 756499001357 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 756499001358 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 756499001359 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 756499001360 RNA binding site [nucleotide binding]; other site 756499001361 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 756499001362 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 756499001363 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 756499001364 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 756499001365 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 756499001366 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 756499001367 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 756499001368 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 756499001369 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 756499001370 5S rRNA interface [nucleotide binding]; other site 756499001371 L27 interface [polypeptide binding]; other site 756499001372 23S rRNA interface [nucleotide binding]; other site 756499001373 L5 interface [polypeptide binding]; other site 756499001374 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 756499001375 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 756499001376 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 756499001377 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 756499001378 23S rRNA binding site [nucleotide binding]; other site 756499001379 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 756499001380 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 756499001381 SecY translocase; Region: SecY; pfam00344 756499001382 adenylate kinase; Reviewed; Region: adk; PRK00279 756499001383 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 756499001384 AMP-binding site [chemical binding]; other site 756499001385 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 756499001386 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 756499001387 active site 756499001388 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 756499001389 rRNA binding site [nucleotide binding]; other site 756499001390 predicted 30S ribosome binding site; other site 756499001391 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 756499001392 30S ribosomal protein S13; Region: bact_S13; TIGR03631 756499001393 30S ribosomal protein S11; Validated; Region: PRK05309 756499001394 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 756499001395 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 756499001396 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 756499001397 RNA binding surface [nucleotide binding]; other site 756499001398 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 756499001399 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 756499001400 alphaNTD - beta interaction site [polypeptide binding]; other site 756499001401 alphaNTD homodimer interface [polypeptide binding]; other site 756499001402 alphaNTD - beta' interaction site [polypeptide binding]; other site 756499001403 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 756499001404 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 756499001405 4Fe-4S binding domain; Region: Fer4_5; pfam12801 756499001406 4Fe-4S binding domain; Region: Fer4_5; pfam12801 756499001407 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 756499001408 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 756499001409 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 756499001410 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 756499001411 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 756499001412 peptide binding site [polypeptide binding]; other site 756499001413 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 756499001414 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 756499001415 putative PBP binding loops; other site 756499001416 dimer interface [polypeptide binding]; other site 756499001417 ABC-ATPase subunit interface; other site 756499001418 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 756499001419 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 756499001420 dimer interface [polypeptide binding]; other site 756499001421 conserved gate region; other site 756499001422 putative PBP binding loops; other site 756499001423 ABC-ATPase subunit interface; other site 756499001424 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 756499001425 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 756499001426 Walker A/P-loop; other site 756499001427 ATP binding site [chemical binding]; other site 756499001428 Q-loop/lid; other site 756499001429 ABC transporter signature motif; other site 756499001430 Walker B; other site 756499001431 D-loop; other site 756499001432 H-loop/switch region; other site 756499001433 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 756499001434 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 756499001435 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 756499001436 Walker A/P-loop; other site 756499001437 ATP binding site [chemical binding]; other site 756499001438 Q-loop/lid; other site 756499001439 ABC transporter signature motif; other site 756499001440 Walker B; other site 756499001441 D-loop; other site 756499001442 H-loop/switch region; other site 756499001443 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 756499001444 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 756499001445 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 756499001446 active site 756499001447 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 756499001448 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 756499001449 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 756499001450 acetyl-CoA synthetase; Provisional; Region: PRK00174 756499001451 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 756499001452 active site 756499001453 CoA binding site [chemical binding]; other site 756499001454 acyl-activating enzyme (AAE) consensus motif; other site 756499001455 AMP binding site [chemical binding]; other site 756499001456 acetate binding site [chemical binding]; other site 756499001457 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 756499001458 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 756499001459 dimerization interface 3.5A [polypeptide binding]; other site 756499001460 active site 756499001461 Cache domain; Region: Cache_2; cl07034 756499001462 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 756499001463 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 756499001464 metal binding site [ion binding]; metal-binding site 756499001465 active site 756499001466 I-site; other site 756499001467 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 756499001468 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 756499001469 FtsX-like permease family; Region: FtsX; pfam02687 756499001470 S-layer domain [Cell envelope biogenesis, outer membrane]; Region: COG1361 756499001471 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 756499001472 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 756499001473 Walker A/P-loop; other site 756499001474 ATP binding site [chemical binding]; other site 756499001475 Q-loop/lid; other site 756499001476 ABC transporter signature motif; other site 756499001477 Walker B; other site 756499001478 D-loop; other site 756499001479 H-loop/switch region; other site 756499001480 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 756499001481 zinc binding site [ion binding]; other site 756499001482 putative ligand binding site [chemical binding]; other site 756499001483 Cache domain; Region: Cache_1; pfam02743 756499001484 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 756499001485 dimerization interface [polypeptide binding]; other site 756499001486 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 756499001487 dimer interface [polypeptide binding]; other site 756499001488 phosphorylation site [posttranslational modification] 756499001489 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499001490 ATP binding site [chemical binding]; other site 756499001491 Mg2+ binding site [ion binding]; other site 756499001492 G-X-G motif; other site 756499001493 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 756499001494 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499001495 active site 756499001496 phosphorylation site [posttranslational modification] 756499001497 intermolecular recognition site; other site 756499001498 dimerization interface [polypeptide binding]; other site 756499001499 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 756499001500 Walker A motif; other site 756499001501 ATP binding site [chemical binding]; other site 756499001502 Walker B motif; other site 756499001503 arginine finger; other site 756499001504 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 756499001505 tetrathionate reductase subunit A; Provisional; Region: PRK14991 756499001506 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 756499001507 putative [Fe4-S4] binding site [ion binding]; other site 756499001508 putative molybdopterin cofactor binding site [chemical binding]; other site 756499001509 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 756499001510 molybdopterin cofactor binding site; other site 756499001511 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 756499001512 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 756499001513 4Fe-4S binding domain; Region: Fer4; pfam00037 756499001514 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 756499001515 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499001516 Walker A/P-loop; other site 756499001517 ATP binding site [chemical binding]; other site 756499001518 Q-loop/lid; other site 756499001519 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 756499001520 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499001521 AAA domain; Region: AAA_21; pfam13304 756499001522 Walker A/P-loop; other site 756499001523 ATP binding site [chemical binding]; other site 756499001524 Q-loop/lid; other site 756499001525 ABC transporter signature motif; other site 756499001526 Walker B; other site 756499001527 D-loop; other site 756499001528 H-loop/switch region; other site 756499001529 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 756499001530 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 756499001531 dimer interface [polypeptide binding]; other site 756499001532 active site 756499001533 metal binding site [ion binding]; metal-binding site 756499001534 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 756499001535 Predicted transcriptional regulators [Transcription]; Region: COG1733 756499001536 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 756499001537 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499001538 active site 756499001539 phosphorylation site [posttranslational modification] 756499001540 intermolecular recognition site; other site 756499001541 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 756499001542 non-specific DNA binding site [nucleotide binding]; other site 756499001543 salt bridge; other site 756499001544 sequence-specific DNA binding site [nucleotide binding]; other site 756499001545 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 756499001546 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 756499001547 non-specific DNA binding site [nucleotide binding]; other site 756499001548 salt bridge; other site 756499001549 sequence-specific DNA binding site [nucleotide binding]; other site 756499001550 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499001551 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499001552 active site 756499001553 phosphorylation site [posttranslational modification] 756499001554 intermolecular recognition site; other site 756499001555 dimerization interface [polypeptide binding]; other site 756499001556 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 756499001557 DNA binding site [nucleotide binding] 756499001558 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499001559 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499001560 ATP binding site [chemical binding]; other site 756499001561 Mg2+ binding site [ion binding]; other site 756499001562 G-X-G motif; other site 756499001563 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 756499001564 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499001565 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 756499001566 active site 756499001567 hybrid cluster protein; Provisional; Region: PRK05290 756499001568 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 756499001569 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 756499001570 Walker A/P-loop; other site 756499001571 ATP binding site [chemical binding]; other site 756499001572 Q-loop/lid; other site 756499001573 ABC transporter signature motif; other site 756499001574 Walker B; other site 756499001575 D-loop; other site 756499001576 H-loop/switch region; other site 756499001577 FtsX-like permease family; Region: FtsX; pfam02687 756499001578 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499001579 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499001580 active site 756499001581 phosphorylation site [posttranslational modification] 756499001582 intermolecular recognition site; other site 756499001583 dimerization interface [polypeptide binding]; other site 756499001584 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 756499001585 DNA binding site [nucleotide binding] 756499001586 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499001587 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499001588 ATP binding site [chemical binding]; other site 756499001589 Mg2+ binding site [ion binding]; other site 756499001590 G-X-G motif; other site 756499001591 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 756499001592 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 756499001593 Walker A/P-loop; other site 756499001594 ATP binding site [chemical binding]; other site 756499001595 Q-loop/lid; other site 756499001596 ABC transporter signature motif; other site 756499001597 Walker B; other site 756499001598 D-loop; other site 756499001599 H-loop/switch region; other site 756499001600 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 756499001601 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 756499001602 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 756499001603 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 756499001604 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 756499001605 putative [4Fe-4S] binding site [ion binding]; other site 756499001606 putative molybdopterin cofactor binding site [chemical binding]; other site 756499001607 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 756499001608 molybdopterin cofactor binding site; other site 756499001609 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499001610 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 756499001611 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 756499001612 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 756499001613 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 756499001614 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 756499001615 H+ Antiporter protein; Region: 2A0121; TIGR00900 756499001616 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 756499001617 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499001618 DNA binding site [nucleotide binding] 756499001619 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 756499001620 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 756499001621 putative [4Fe-4S] binding site [ion binding]; other site 756499001622 putative molybdopterin cofactor binding site [chemical binding]; other site 756499001623 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; cd02775 756499001624 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499001625 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 756499001626 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499001627 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 756499001628 DNA binding residues [nucleotide binding] 756499001629 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 756499001630 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 756499001631 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 756499001632 active site 756499001633 DNA binding site [nucleotide binding] 756499001634 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 756499001635 DNA binding site [nucleotide binding] 756499001636 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 756499001637 nucleotide binding site [chemical binding]; other site 756499001638 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 756499001639 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 756499001640 ATP binding site [chemical binding]; other site 756499001641 putative Mg++ binding site [ion binding]; other site 756499001642 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 756499001643 nucleotide binding region [chemical binding]; other site 756499001644 ATP-binding site [chemical binding]; other site 756499001645 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 756499001646 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 756499001647 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 756499001648 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 756499001649 1,3-propanediol dehydrogenase-like (PPD); Region: PPD-like; cd08181 756499001650 dimer interface [polypeptide binding]; other site 756499001651 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 756499001652 active site 756499001653 metal binding site [ion binding]; metal-binding site 756499001654 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 756499001655 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 756499001656 dimer interface [polypeptide binding]; other site 756499001657 active site 756499001658 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 756499001659 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 756499001660 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 756499001661 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 756499001662 PAS domain; Region: PAS_9; pfam13426 756499001663 putative active site [active] 756499001664 heme pocket [chemical binding]; other site 756499001665 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 756499001666 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 756499001667 Walker A motif; other site 756499001668 ATP binding site [chemical binding]; other site 756499001669 Walker B motif; other site 756499001670 arginine finger; other site 756499001671 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 756499001672 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 756499001673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 756499001674 NAD(P) binding site [chemical binding]; other site 756499001675 active site 756499001676 putative acyltransferase; Provisional; Region: PRK05790 756499001677 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 756499001678 dimer interface [polypeptide binding]; other site 756499001679 active site 756499001680 Transcriptional regulator [Transcription]; Region: LysR; COG0583 756499001681 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 756499001682 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 756499001683 dimerization interface [polypeptide binding]; other site 756499001684 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 756499001685 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 756499001686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 756499001687 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 756499001688 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 756499001689 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499001690 dimer interface [polypeptide binding]; other site 756499001691 putative CheW interface [polypeptide binding]; other site 756499001692 Uncharacterized conserved protein [Function unknown]; Region: COG3379 756499001693 Uncharacterized conserved protein [Function unknown]; Region: COG3379 756499001694 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 756499001695 catalytic residues [active] 756499001696 helicase superfamily c-terminal domain; Region: HELICc; smart00490 756499001697 ATP-binding site [chemical binding]; other site 756499001698 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 756499001699 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 756499001700 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 756499001701 cofactor binding site; other site 756499001702 DNA binding site [nucleotide binding] 756499001703 substrate interaction site [chemical binding]; other site 756499001704 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 756499001705 additional DNA contacts [nucleotide binding]; other site 756499001706 mismatch recognition site; other site 756499001707 active site 756499001708 zinc binding site [ion binding]; other site 756499001709 DNA intercalation site [nucleotide binding]; other site 756499001710 Restriction endonuclease; Region: Mrr_cat; pfam04471 756499001711 AAA domain; Region: AAA_23; pfam13476 756499001712 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499001713 Walker A/P-loop; other site 756499001714 ATP binding site [chemical binding]; other site 756499001715 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 756499001716 putative active site [active] 756499001717 putative metal-binding site [ion binding]; other site 756499001718 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 756499001719 Part of AAA domain; Region: AAA_19; pfam13245 756499001720 Family description; Region: UvrD_C_2; pfam13538 756499001721 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 756499001722 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 756499001723 cofactor binding site; other site 756499001724 DNA binding site [nucleotide binding] 756499001725 substrate interaction site [chemical binding]; other site 756499001726 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 756499001727 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 756499001728 non-specific DNA binding site [nucleotide binding]; other site 756499001729 salt bridge; other site 756499001730 sequence-specific DNA binding site [nucleotide binding]; other site 756499001731 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 756499001732 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 756499001733 sequence-specific DNA binding site [nucleotide binding]; other site 756499001734 salt bridge; other site 756499001735 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 756499001736 YheO-like PAS domain; Region: PAS_6; pfam08348 756499001737 HTH domain; Region: HTH_22; pfam13309 756499001738 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 756499001739 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 756499001740 homotrimer interaction site [polypeptide binding]; other site 756499001741 putative active site [active] 756499001742 D-cysteine desulfhydrase; Validated; Region: PRK03910 756499001743 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 756499001744 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 756499001745 catalytic residue [active] 756499001746 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 756499001747 aspartate racemase; Region: asp_race; TIGR00035 756499001748 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 756499001749 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 756499001750 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl17322 756499001751 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 756499001752 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 756499001753 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 756499001754 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 756499001755 4Fe-4S binding domain; Region: Fer4; cl02805 756499001756 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 756499001757 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 756499001758 synthetase active site [active] 756499001759 metal binding site [ion binding]; metal-binding site 756499001760 NTP binding site [chemical binding]; other site 756499001761 pyrrolysyl-tRNA synthetase, C-terminal region; Region: PylS_Cterm; TIGR02367 756499001762 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 756499001763 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 756499001764 B12 binding site [chemical binding]; other site 756499001765 cobalt ligand [ion binding]; other site 756499001766 PAS domain S-box; Region: sensory_box; TIGR00229 756499001767 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 756499001768 putative active site [active] 756499001769 heme pocket [chemical binding]; other site 756499001770 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 756499001771 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 756499001772 Walker A motif; other site 756499001773 ATP binding site [chemical binding]; other site 756499001774 Walker B motif; other site 756499001775 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 756499001776 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 756499001777 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 756499001778 substrate binding pocket [chemical binding]; other site 756499001779 dimer interface [polypeptide binding]; other site 756499001780 inhibitor binding site; inhibition site 756499001781 pyrrolysine biosynthesis radical SAM protein; Region: pyrrolys_PylB; TIGR03910 756499001782 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 756499001783 FeS/SAM binding site; other site 756499001784 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 756499001785 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 756499001786 pyrrolysine biosynthesis protein PylC; Region: pyrrolys_PylC; TIGR03909 756499001787 ATP-grasp domain; Region: ATP-grasp_4; cl17255 756499001788 pyrrolysine biosynthesis protein PylD; Region: pyrrolys_PylD; TIGR03911 756499001789 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 756499001790 NAD(P) binding pocket [chemical binding]; other site 756499001791 pyrrolysyl-tRNA synthetase, N-terminal region; Region: PylS_Nterm; TIGR03912 756499001792 Antitoxin of toxin-antitoxin stability system N-terminal; Region: RelB_N; pfam12910 756499001793 Protein of unknown function (DUF3832); Region: DUF3832; pfam12909 756499001794 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 756499001795 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 756499001796 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_5; cd03408 756499001797 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 756499001798 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 756499001799 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 756499001800 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 756499001801 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 756499001802 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 756499001803 sulfite oxidase; Provisional; Region: PLN00177 756499001804 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 756499001805 Moco binding site; other site 756499001806 metal coordination site [ion binding]; other site 756499001807 dimerization interface [polypeptide binding]; other site 756499001808 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 756499001809 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 756499001810 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 756499001811 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 756499001812 23S rRNA interface [nucleotide binding]; other site 756499001813 L3 interface [polypeptide binding]; other site 756499001814 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 756499001815 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 756499001816 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499001817 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 756499001818 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 756499001819 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 756499001820 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 756499001821 hypothetical protein; Validated; Region: PRK07121 756499001822 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 756499001823 FMN-binding domain; Region: FMN_bind; cl01081 756499001824 Penicillinase repressor; Region: Pencillinase_R; pfam03965 756499001825 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 756499001826 Src Homology 3 domain superfamily; Region: SH3; cl17036 756499001827 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 756499001828 DHHW protein; Region: DHHW; pfam14286 756499001829 DHHW protein; Region: DHHW; pfam14286 756499001830 FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor) [Posttranslational modification, protein turnover, chaperones]; Region: Tig; COG0544 756499001831 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 756499001832 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 756499001833 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 756499001834 ligand binding site [chemical binding]; other site 756499001835 flexible hinge region; other site 756499001836 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 756499001837 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 756499001838 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 756499001839 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 756499001840 ring oligomerisation interface [polypeptide binding]; other site 756499001841 ATP/Mg binding site [chemical binding]; other site 756499001842 stacking interactions; other site 756499001843 hinge regions; other site 756499001844 reductive dehalogenase; Region: RDH; TIGR02486 756499001845 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 756499001846 FMN-binding domain; Region: FMN_bind; pfam04205 756499001847 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 756499001848 4Fe-4S binding domain; Region: Fer4_5; pfam12801 756499001849 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 756499001850 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 756499001851 ring oligomerisation interface [polypeptide binding]; other site 756499001852 ATP/Mg binding site [chemical binding]; other site 756499001853 stacking interactions; other site 756499001854 hinge regions; other site 756499001855 CHASE3 domain; Region: CHASE3; cl05000 756499001856 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 756499001857 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499001858 dimer interface [polypeptide binding]; other site 756499001859 putative CheW interface [polypeptide binding]; other site 756499001860 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 756499001861 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 756499001862 putative dimer interface [polypeptide binding]; other site 756499001863 [2Fe-2S] cluster binding site [ion binding]; other site 756499001864 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 756499001865 SLBB domain; Region: SLBB; pfam10531 756499001866 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 756499001867 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 756499001868 catalytic loop [active] 756499001869 iron binding site [ion binding]; other site 756499001870 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 756499001871 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 756499001872 4Fe-4S binding domain; Region: Fer4; pfam00037 756499001873 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 756499001874 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 756499001875 YopX protein; Region: YopX; cl09859 756499001876 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 756499001877 putative Iron-sulfur protein interface [polypeptide binding]; other site 756499001878 proximal heme binding site [chemical binding]; other site 756499001879 distal heme binding site [chemical binding]; other site 756499001880 putative dimer interface [polypeptide binding]; other site 756499001881 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 756499001882 L-aspartate oxidase; Provisional; Region: PRK06175 756499001883 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 756499001884 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 756499001885 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 756499001886 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 756499001887 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 756499001888 substrate binding pocket [chemical binding]; other site 756499001889 membrane-bound complex binding site; other site 756499001890 hinge residues; other site 756499001891 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 756499001892 dimer interface [polypeptide binding]; other site 756499001893 conserved gate region; other site 756499001894 putative PBP binding loops; other site 756499001895 ABC-ATPase subunit interface; other site 756499001896 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 756499001897 dimer interface [polypeptide binding]; other site 756499001898 conserved gate region; other site 756499001899 putative PBP binding loops; other site 756499001900 ABC-ATPase subunit interface; other site 756499001901 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 756499001902 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 756499001903 Walker A/P-loop; other site 756499001904 ATP binding site [chemical binding]; other site 756499001905 Q-loop/lid; other site 756499001906 ABC transporter signature motif; other site 756499001907 Walker B; other site 756499001908 D-loop; other site 756499001909 H-loop/switch region; other site 756499001910 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 756499001911 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 756499001912 5S rRNA interface [nucleotide binding]; other site 756499001913 CTC domain interface [polypeptide binding]; other site 756499001914 L16 interface [polypeptide binding]; other site 756499001915 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 756499001916 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 756499001917 active site 756499001918 metal binding site [ion binding]; metal-binding site 756499001919 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 756499001920 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 756499001921 Arginase family; Region: Arginase; cd09989 756499001922 agmatinase; Region: agmatinase; TIGR01230 756499001923 active site 756499001924 Mn binding site [ion binding]; other site 756499001925 oligomer interface [polypeptide binding]; other site 756499001926 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 756499001927 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499001928 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 756499001929 DNA binding residues [nucleotide binding] 756499001930 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 756499001931 amidohydrolase; Region: amidohydrolases; TIGR01891 756499001932 metal binding site [ion binding]; metal-binding site 756499001933 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 756499001934 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 756499001935 active site 756499001936 metal binding site [ion binding]; metal-binding site 756499001937 DNA binding site [nucleotide binding] 756499001938 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 756499001939 exonuclease SbcC; Region: sbcc; TIGR00618 756499001940 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 756499001941 Walker A/P-loop; other site 756499001942 ATP binding site [chemical binding]; other site 756499001943 Q-loop/lid; other site 756499001944 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499001945 ABC transporter signature motif; other site 756499001946 Walker B; other site 756499001947 D-loop; other site 756499001948 H-loop/switch region; other site 756499001949 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 756499001950 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 756499001951 Uncharacterized conserved protein [Function unknown]; Region: COG2966 756499001952 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 756499001953 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 756499001954 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 756499001955 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 756499001956 heterotetramer interface [polypeptide binding]; other site 756499001957 active site pocket [active] 756499001958 cleavage site 756499001959 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 756499001960 feedback inhibition sensing region; other site 756499001961 homohexameric interface [polypeptide binding]; other site 756499001962 nucleotide binding site [chemical binding]; other site 756499001963 N-acetyl-L-glutamate binding site [chemical binding]; other site 756499001964 acetylornithine aminotransferase; Provisional; Region: PRK02627 756499001965 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 756499001966 inhibitor-cofactor binding pocket; inhibition site 756499001967 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499001968 catalytic residue [active] 756499001969 Cache domain; Region: Cache_1; pfam02743 756499001970 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 756499001971 HAMP domain; Region: HAMP; pfam00672 756499001972 dimerization interface [polypeptide binding]; other site 756499001973 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499001974 dimer interface [polypeptide binding]; other site 756499001975 putative CheW interface [polypeptide binding]; other site 756499001976 FMN-binding domain; Region: FMN_bind; cl01081 756499001977 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 756499001978 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 756499001979 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499001980 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 756499001981 dimer interface [polypeptide binding]; other site 756499001982 phosphorylation site [posttranslational modification] 756499001983 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499001984 ATP binding site [chemical binding]; other site 756499001985 Mg2+ binding site [ion binding]; other site 756499001986 G-X-G motif; other site 756499001987 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499001988 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499001989 active site 756499001990 phosphorylation site [posttranslational modification] 756499001991 intermolecular recognition site; other site 756499001992 dimerization interface [polypeptide binding]; other site 756499001993 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 756499001994 DNA binding site [nucleotide binding] 756499001995 hypothetical protein; Validated; Region: PRK07121 756499001996 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 756499001997 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 756499001998 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 756499001999 sequence-specific DNA binding site [nucleotide binding]; other site 756499002000 salt bridge; other site 756499002001 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 756499002002 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 756499002003 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 756499002004 Golgi phosphoprotein 3 (GPP34); Region: GPP34; pfam05719 756499002005 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 756499002006 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 756499002007 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 756499002008 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499002009 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499002010 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499002011 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 756499002012 VanW like protein; Region: VanW; pfam04294 756499002013 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 756499002014 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 756499002015 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 756499002016 Major Facilitator Superfamily; Region: MFS_1; pfam07690 756499002017 putative substrate translocation pore; other site 756499002018 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 756499002019 Double zinc ribbon; Region: DZR; pfam12773 756499002020 ornithine carbamoyltransferase; Provisional; Region: PRK00779 756499002021 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 756499002022 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 756499002023 argininosuccinate synthase; Provisional; Region: PRK13820 756499002024 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 756499002025 ANP binding site [chemical binding]; other site 756499002026 Substrate Binding Site II [chemical binding]; other site 756499002027 Substrate Binding Site I [chemical binding]; other site 756499002028 argininosuccinate lyase; Provisional; Region: PRK00855 756499002029 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 756499002030 active sites [active] 756499002031 tetramer interface [polypeptide binding]; other site 756499002032 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 756499002033 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 756499002034 active site 756499002035 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 756499002036 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 756499002037 homodimer interface [polypeptide binding]; other site 756499002038 NAD binding pocket [chemical binding]; other site 756499002039 ATP binding pocket [chemical binding]; other site 756499002040 Mg binding site [ion binding]; other site 756499002041 active-site loop [active] 756499002042 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt; cl00231 756499002043 ATP binding site [chemical binding]; other site 756499002044 active site 756499002045 substrate binding site [chemical binding]; other site 756499002046 Uncharacterized conserved protein [Function unknown]; Region: COG5663 756499002047 hypothetical protein; Provisional; Region: PRK10410 756499002048 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 756499002049 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 756499002050 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 756499002051 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 756499002052 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 756499002053 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 756499002054 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 756499002055 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 756499002056 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 756499002057 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 756499002058 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 756499002059 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 756499002060 catalytic residue [active] 756499002061 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 756499002062 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 756499002063 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 756499002064 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 756499002065 Band_7_prohibitin. A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup group includes proteins similar to prohibitin (a lipid raft-associated integral membrane protein). Individual proteins of this band 7 domain family may...; Region: Band_7_prohibitin; cd03401 756499002066 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 756499002067 Major Facilitator Superfamily; Region: MFS_1; pfam07690 756499002068 putative substrate translocation pore; other site 756499002069 Rrf2 family protein; Region: rrf2_super; TIGR00738 756499002070 Transcriptional regulator; Region: Rrf2; pfam02082 756499002071 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 756499002072 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 756499002073 putative active site [active] 756499002074 putative metal binding site [ion binding]; other site 756499002075 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 756499002076 amidase catalytic site [active] 756499002077 Zn binding residues [ion binding]; other site 756499002078 substrate binding site [chemical binding]; other site 756499002079 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 756499002080 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 756499002081 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 756499002082 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_1; cd04950 756499002083 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 756499002084 putative homodimer interface [polypeptide binding]; other site 756499002085 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 756499002086 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 756499002087 Uncharacterized conserved protein [Function unknown]; Region: COG2006 756499002088 Domain of unknown function (DUF362); Region: DUF362; pfam04015 756499002089 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 756499002090 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 756499002091 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 756499002092 homodimer interface [polypeptide binding]; other site 756499002093 metal binding site [ion binding]; metal-binding site 756499002094 Uncharacterized conserved protein [Function unknown]; Region: COG1624 756499002095 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 756499002096 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 756499002097 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 756499002098 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 756499002099 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 756499002100 active site 756499002101 substrate binding site [chemical binding]; other site 756499002102 metal binding site [ion binding]; metal-binding site 756499002103 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 756499002104 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 756499002105 glutaminase active site [active] 756499002106 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 756499002107 dimer interface [polypeptide binding]; other site 756499002108 active site 756499002109 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 756499002110 dimer interface [polypeptide binding]; other site 756499002111 active site 756499002112 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 756499002113 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 756499002114 DNA-binding site [nucleotide binding]; DNA binding site 756499002115 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 756499002116 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 756499002117 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 756499002118 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 756499002119 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 756499002120 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 756499002121 transmembrane helices; other site 756499002122 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 756499002123 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 756499002124 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 756499002125 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 756499002126 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 756499002127 putative transcriptional regulator; Provisional; Region: tfx; cl17550 756499002128 Cellulose binding domain; Region: CBM_2; cl17741 756499002129 Spore germination protein; Region: Spore_permease; cl17796 756499002130 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 756499002131 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 756499002132 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 756499002133 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 756499002134 Catalytic site [active] 756499002135 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 756499002136 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499002137 Walker A/P-loop; other site 756499002138 ATP binding site [chemical binding]; other site 756499002139 Q-loop/lid; other site 756499002140 ABC transporter signature motif; other site 756499002141 Walker B; other site 756499002142 D-loop; other site 756499002143 H-loop/switch region; other site 756499002144 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 756499002145 Catalytic site [active] 756499002146 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 756499002147 catalytic residues [active] 756499002148 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 756499002149 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 756499002150 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 756499002151 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 756499002152 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 756499002153 DsrC like protein; Region: DsrC; pfam04358 756499002154 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 756499002155 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 756499002156 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 756499002157 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; cd10148 756499002158 putative homodimer interface [polypeptide binding]; other site 756499002159 putative homotetramer interface [polypeptide binding]; other site 756499002160 putative allosteric switch controlling residues; other site 756499002161 putative metal binding site [ion binding]; other site 756499002162 putative homodimer-homodimer interface [polypeptide binding]; other site 756499002163 Transcriptional regulator [Transcription]; Region: LysR; COG0583 756499002164 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 756499002165 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 756499002166 dimerization interface [polypeptide binding]; other site 756499002167 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 756499002168 catalytic residues [active] 756499002169 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 756499002170 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 756499002171 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 756499002172 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 756499002173 tryptophan synthase subunit beta; Reviewed; Region: PRK12391 756499002174 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 756499002175 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 756499002176 catalytic residue [active] 756499002177 Protease prsW family; Region: PrsW-protease; pfam13367 756499002178 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 756499002179 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 756499002180 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 756499002181 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 756499002182 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 756499002183 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 756499002184 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 756499002185 Ligand Binding Site [chemical binding]; other site 756499002186 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 756499002187 molybdenum-pterin binding domain; Region: Mop; TIGR00638 756499002188 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 756499002189 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 756499002190 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 756499002191 Repair protein; Region: Repair_PSII; pfam04536 756499002192 Domain of unknown function DUF77; Region: DUF77; pfam01910 756499002193 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 756499002194 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 756499002195 dimer interface [polypeptide binding]; other site 756499002196 conserved gate region; other site 756499002197 putative PBP binding loops; other site 756499002198 ABC-ATPase subunit interface; other site 756499002199 NMT1/THI5 like; Region: NMT1; pfam09084 756499002200 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 756499002201 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 756499002202 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 756499002203 Walker A/P-loop; other site 756499002204 ATP binding site [chemical binding]; other site 756499002205 Q-loop/lid; other site 756499002206 ABC transporter signature motif; other site 756499002207 Walker B; other site 756499002208 D-loop; other site 756499002209 H-loop/switch region; other site 756499002210 Sporulation and spore germination; Region: Germane; pfam10646 756499002211 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_3; cd09321 756499002212 gating phenylalanine in ion channel; other site 756499002213 Transcriptional regulator [Transcription]; Region: LysR; COG0583 756499002214 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 756499002215 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 756499002216 putative dimerization interface [polypeptide binding]; other site 756499002217 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 756499002218 gating phenylalanine in ion channel; other site 756499002219 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 756499002220 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 756499002221 Cupin domain; Region: Cupin_2; cl17218 756499002222 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 756499002223 Malic enzyme, N-terminal domain; Region: malic; pfam00390 756499002224 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 756499002225 putative NAD(P) binding site [chemical binding]; other site 756499002226 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 756499002227 dihydrodipicolinate synthase; Region: dapA; TIGR00674 756499002228 dimer interface [polypeptide binding]; other site 756499002229 active site 756499002230 catalytic residue [active] 756499002231 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_2; cd06113 756499002232 dimer interface [polypeptide binding]; other site 756499002233 active site 756499002234 citrylCoA binding site [chemical binding]; other site 756499002235 Citrate synthase; Region: Citrate_synt; pfam00285 756499002236 oxalacetate/citrate binding site [chemical binding]; other site 756499002237 coenzyme A binding site [chemical binding]; other site 756499002238 catalytic triad [active] 756499002239 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 756499002240 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 756499002241 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 756499002242 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 756499002243 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 756499002244 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 756499002245 Predicted integral membrane protein [Function unknown]; Region: COG5660 756499002246 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 756499002247 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499002248 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 756499002249 DNA binding residues [nucleotide binding] 756499002250 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 756499002251 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499002252 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 756499002253 DNA binding residues [nucleotide binding] 756499002254 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 756499002255 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 756499002256 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 756499002257 active site 756499002258 Cupin domain; Region: Cupin_2; cl17218 756499002259 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499002260 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499002261 active site 756499002262 phosphorylation site [posttranslational modification] 756499002263 intermolecular recognition site; other site 756499002264 dimerization interface [polypeptide binding]; other site 756499002265 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 756499002266 DNA binding site [nucleotide binding] 756499002267 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 756499002268 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 756499002269 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499002270 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 756499002271 dimer interface [polypeptide binding]; other site 756499002272 phosphorylation site [posttranslational modification] 756499002273 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499002274 ATP binding site [chemical binding]; other site 756499002275 Mg2+ binding site [ion binding]; other site 756499002276 G-X-G motif; other site 756499002277 Amidohydrolase; Region: Amidohydro_2; pfam04909 756499002278 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 756499002279 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 756499002280 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 756499002281 FeS/SAM binding site; other site 756499002282 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499002283 Coenzyme A binding pocket [chemical binding]; other site 756499002284 AIR synthase-related protein, sll0787 family; Region: AIR_rel_sll0787; TIGR04049 756499002285 AIR synthase (PurM) related protein, subgroup 3 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like3; cd02192 756499002286 dimerization interface [polypeptide binding]; other site 756499002287 putative ATP binding site [chemical binding]; other site 756499002288 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 756499002289 FAD binding domain; Region: FAD_binding_4; pfam01565 756499002290 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 756499002291 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 756499002292 Cysteine-rich domain; Region: CCG; pfam02754 756499002293 Cysteine-rich domain; Region: CCG; pfam02754 756499002294 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 756499002295 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 756499002296 putative substrate binding site [chemical binding]; other site 756499002297 nucleotide binding site [chemical binding]; other site 756499002298 nucleotide binding site [chemical binding]; other site 756499002299 homodimer interface [polypeptide binding]; other site 756499002300 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 756499002301 CoA binding domain; Region: CoA_binding; cl17356 756499002302 CoA-ligase; Region: Ligase_CoA; pfam00549 756499002303 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 756499002304 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 756499002305 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 756499002306 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 756499002307 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 756499002308 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 756499002309 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 756499002310 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 756499002311 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 756499002312 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 756499002313 dimer interface [polypeptide binding]; other site 756499002314 conserved gate region; other site 756499002315 putative PBP binding loops; other site 756499002316 ABC-ATPase subunit interface; other site 756499002317 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 756499002318 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 756499002319 Walker A/P-loop; other site 756499002320 ATP binding site [chemical binding]; other site 756499002321 Q-loop/lid; other site 756499002322 ABC transporter signature motif; other site 756499002323 Walker B; other site 756499002324 D-loop; other site 756499002325 H-loop/switch region; other site 756499002326 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 756499002327 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 756499002328 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; cl17835 756499002329 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 756499002330 dimerization interface [polypeptide binding]; other site 756499002331 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 756499002332 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499002333 dimer interface [polypeptide binding]; other site 756499002334 putative CheW interface [polypeptide binding]; other site 756499002335 benzoate transporter; Region: benE; TIGR00843 756499002336 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 756499002337 Accessory gene regulator B; Region: AgrB; pfam04647 756499002338 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 756499002339 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 756499002340 putative active site [active] 756499002341 heme pocket [chemical binding]; other site 756499002342 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 756499002343 dimer interface [polypeptide binding]; other site 756499002344 phosphorylation site [posttranslational modification] 756499002345 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499002346 ATP binding site [chemical binding]; other site 756499002347 Mg2+ binding site [ion binding]; other site 756499002348 G-X-G motif; other site 756499002349 quinolinate synthetase; Provisional; Region: PRK09375 756499002350 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 756499002351 FMN binding site [chemical binding]; other site 756499002352 dimer interface [polypeptide binding]; other site 756499002353 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 756499002354 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 756499002355 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 756499002356 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 756499002357 Heavy-metal-associated domain; Region: HMA; pfam00403 756499002358 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 756499002359 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 756499002360 dimerization interface [polypeptide binding]; other site 756499002361 putative DNA binding site [nucleotide binding]; other site 756499002362 putative Zn2+ binding site [ion binding]; other site 756499002363 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 756499002364 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 756499002365 ligand binding site [chemical binding]; other site 756499002366 flexible hinge region; other site 756499002367 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 756499002368 non-specific DNA interactions [nucleotide binding]; other site 756499002369 DNA binding site [nucleotide binding] 756499002370 sequence specific DNA binding site [nucleotide binding]; other site 756499002371 putative cAMP binding site [chemical binding]; other site 756499002372 reductive dehalogenase; Region: RDH; TIGR02486 756499002373 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 756499002374 Transcriptional regulator [Transcription]; Region: LysR; COG0583 756499002375 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 756499002376 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 756499002377 dimerization interface [polypeptide binding]; other site 756499002378 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 756499002379 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 756499002380 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 756499002381 benzoate transport; Region: 2A0115; TIGR00895 756499002382 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 756499002383 putative substrate translocation pore; other site 756499002384 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 756499002385 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 756499002386 NAD(P) binding site [chemical binding]; other site 756499002387 catalytic residues [active] 756499002388 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 756499002389 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 756499002390 PYR/PP interface [polypeptide binding]; other site 756499002391 dimer interface [polypeptide binding]; other site 756499002392 TPP binding site [chemical binding]; other site 756499002393 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 756499002394 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 756499002395 TPP-binding site; other site 756499002396 dimer interface [polypeptide binding]; other site 756499002397 SCP-2 sterol transfer family; Region: SCP2; pfam02036 756499002398 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 756499002399 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 756499002400 PYR/PP interface [polypeptide binding]; other site 756499002401 dimer interface [polypeptide binding]; other site 756499002402 TPP binding site [chemical binding]; other site 756499002403 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 756499002404 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 756499002405 TPP-binding site [chemical binding]; other site 756499002406 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 756499002407 Mechanosensitive ion channel; Region: MS_channel; pfam00924 756499002408 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 756499002409 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 756499002410 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 756499002411 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 756499002412 non-specific DNA binding site [nucleotide binding]; other site 756499002413 salt bridge; other site 756499002414 sequence-specific DNA binding site [nucleotide binding]; other site 756499002415 Cupin domain; Region: Cupin_2; pfam07883 756499002416 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 756499002417 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 756499002418 active site 756499002419 dimer interface [polypeptide binding]; other site 756499002420 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 756499002421 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 756499002422 active site 756499002423 FMN binding site [chemical binding]; other site 756499002424 substrate binding site [chemical binding]; other site 756499002425 3Fe-4S cluster binding site [ion binding]; other site 756499002426 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 756499002427 domain interface; other site 756499002428 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 756499002429 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 756499002430 PemK-like protein; Region: PemK; pfam02452 756499002431 B3/4 domain; Region: B3_4; smart00873 756499002432 B3/4 domain; Region: B3_4; pfam03483 756499002433 Protein of unknown function DUF91; Region: DUF91; cl00709 756499002434 Uncharacterized conserved protein [Function unknown]; Region: COG3586 756499002435 RibD C-terminal domain; Region: RibD_C; cl17279 756499002436 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 756499002437 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 756499002438 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 756499002439 HicB family; Region: HicB; pfam05534 756499002440 YmaF family; Region: YmaF; pfam12788 756499002441 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499002442 Zn2+ binding site [ion binding]; other site 756499002443 Mg2+ binding site [ion binding]; other site 756499002444 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 756499002445 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 756499002446 active site 756499002447 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 756499002448 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 756499002449 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 756499002450 active site 756499002451 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 756499002452 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 756499002453 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 756499002454 Beta-lactamase; Region: Beta-lactamase; pfam00144 756499002455 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 756499002456 B3/4 domain; Region: B3_4; pfam03483 756499002457 Methyltransferase domain; Region: Methyltransf_23; pfam13489 756499002458 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 756499002459 S-adenosylmethionine binding site [chemical binding]; other site 756499002460 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 756499002461 CoenzymeA binding site [chemical binding]; other site 756499002462 subunit interaction site [polypeptide binding]; other site 756499002463 PHB binding site; other site 756499002464 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 756499002465 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 756499002466 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 756499002467 HicB family; Region: HicB; pfam05534 756499002468 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 756499002469 Methyltransferase domain; Region: Methyltransf_31; pfam13847 756499002470 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 756499002471 S-adenosylmethionine binding site [chemical binding]; other site 756499002472 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 756499002473 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 756499002474 active site 756499002475 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 756499002476 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 756499002477 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 756499002478 glutamyl-tRNA synthetase; Provisional; Region: PTZ00402 756499002479 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499002480 Coenzyme A binding pocket [chemical binding]; other site 756499002481 SnoaL-like domain; Region: SnoaL_2; pfam12680 756499002482 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 756499002483 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499002484 Coenzyme A binding pocket [chemical binding]; other site 756499002485 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl17818 756499002486 Domain of unknown function (DUF4275); Region: DUF4275; pfam14101 756499002487 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 756499002488 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 756499002489 putative active site [active] 756499002490 putative metal binding site [ion binding]; other site 756499002491 Predicted transcriptional regulators [Transcription]; Region: COG1695 756499002492 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 756499002493 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 756499002494 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 756499002495 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 756499002496 Catalytic site [active] 756499002497 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499002498 Coenzyme A binding pocket [chemical binding]; other site 756499002499 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 756499002500 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 756499002501 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499002502 Coenzyme A binding pocket [chemical binding]; other site 756499002503 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 756499002504 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 756499002505 salt bridge; other site 756499002506 non-specific DNA binding site [nucleotide binding]; other site 756499002507 sequence-specific DNA binding site [nucleotide binding]; other site 756499002508 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 756499002509 S-adenosylmethionine binding site [chemical binding]; other site 756499002510 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 756499002511 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499002512 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 756499002513 Coenzyme A binding pocket [chemical binding]; other site 756499002514 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499002515 Coenzyme A binding pocket [chemical binding]; other site 756499002516 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; cl00399 756499002517 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 756499002518 active site 756499002519 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 756499002520 dimer interface [polypeptide binding]; other site 756499002521 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 756499002522 Ligand Binding Site [chemical binding]; other site 756499002523 Molecular Tunnel; other site 756499002524 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 756499002525 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 756499002526 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 756499002527 Response regulator receiver domain; Region: Response_reg; pfam00072 756499002528 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499002529 active site 756499002530 phosphorylation site [posttranslational modification] 756499002531 intermolecular recognition site; other site 756499002532 dimerization interface [polypeptide binding]; other site 756499002533 ANTAR domain; Region: ANTAR; pfam03861 756499002534 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 756499002535 4Fe-4S binding domain; Region: Fer4; cl02805 756499002536 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 756499002537 BioY family; Region: BioY; pfam02632 756499002538 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 756499002539 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 756499002540 Walker A/P-loop; other site 756499002541 ATP binding site [chemical binding]; other site 756499002542 Q-loop/lid; other site 756499002543 ABC transporter signature motif; other site 756499002544 Walker B; other site 756499002545 D-loop; other site 756499002546 H-loop/switch region; other site 756499002547 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499002548 Walker A/P-loop; other site 756499002549 ATP binding site [chemical binding]; other site 756499002550 Q-loop/lid; other site 756499002551 ABC transporter signature motif; other site 756499002552 Walker B; other site 756499002553 D-loop; other site 756499002554 H-loop/switch region; other site 756499002555 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 756499002556 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 756499002557 putative active site [active] 756499002558 threonine dehydratase; Validated; Region: PRK08639 756499002559 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 756499002560 tetramer interface [polypeptide binding]; other site 756499002561 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499002562 catalytic residue [active] 756499002563 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 756499002564 putative Ile/Val binding site [chemical binding]; other site 756499002565 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499002566 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499002567 active site 756499002568 phosphorylation site [posttranslational modification] 756499002569 intermolecular recognition site; other site 756499002570 dimerization interface [polypeptide binding]; other site 756499002571 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 756499002572 DNA binding site [nucleotide binding] 756499002573 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 756499002574 dimerization interface [polypeptide binding]; other site 756499002575 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 756499002576 dimer interface [polypeptide binding]; other site 756499002577 phosphorylation site [posttranslational modification] 756499002578 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499002579 ATP binding site [chemical binding]; other site 756499002580 Mg2+ binding site [ion binding]; other site 756499002581 G-X-G motif; other site 756499002582 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 756499002583 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 756499002584 Walker A motif; other site 756499002585 ATP binding site [chemical binding]; other site 756499002586 Walker B motif; other site 756499002587 arginine finger; other site 756499002588 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 756499002589 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 756499002590 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 756499002591 [4Fe-4S] binding site [ion binding]; other site 756499002592 molybdopterin cofactor binding site; other site 756499002593 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 756499002594 molybdopterin cofactor binding site; other site 756499002595 DNA polymerase III PolC; Validated; Region: polC; PRK00448 756499002596 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 756499002597 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 756499002598 generic binding surface II; other site 756499002599 generic binding surface I; other site 756499002600 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 756499002601 active site 756499002602 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 756499002603 active site 756499002604 catalytic site [active] 756499002605 substrate binding site [chemical binding]; other site 756499002606 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 756499002607 2-isopropylmalate synthase; Validated; Region: PRK03739 756499002608 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 756499002609 active site 756499002610 catalytic residues [active] 756499002611 metal binding site [ion binding]; metal-binding site 756499002612 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 756499002613 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 756499002614 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 756499002615 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 756499002616 Walker A motif; other site 756499002617 ATP binding site [chemical binding]; other site 756499002618 Walker B motif; other site 756499002619 arginine finger; other site 756499002620 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 756499002621 enoyl-CoA hydratase; Provisional; Region: PRK06688 756499002622 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 756499002623 substrate binding site [chemical binding]; other site 756499002624 oxyanion hole (OAH) forming residues; other site 756499002625 trimer interface [polypeptide binding]; other site 756499002626 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 756499002627 Major Facilitator Superfamily; Region: MFS_1; pfam07690 756499002628 putative substrate translocation pore; other site 756499002629 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 756499002630 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 756499002631 CoA-transferase family III; Region: CoA_transf_3; pfam02515 756499002632 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 756499002633 Ligand binding site [chemical binding]; other site 756499002634 Electron transfer flavoprotein domain; Region: ETF; pfam01012 756499002635 electron transfer flavoprotein subunit YdiR; Provisional; Region: PRK11916 756499002636 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF; cd01985 756499002637 Ligand binding site [chemical binding]; other site 756499002638 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 756499002639 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 756499002640 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 756499002641 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 756499002642 active site 756499002643 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 756499002644 putative substrate translocation pore; other site 756499002645 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 756499002646 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 756499002647 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 756499002648 active site 756499002649 FMN binding site [chemical binding]; other site 756499002650 substrate binding site [chemical binding]; other site 756499002651 putative catalytic residue [active] 756499002652 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 756499002653 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 756499002654 TIGR03084 family protein; Region: TIGR03084 756499002655 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 756499002656 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 756499002657 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 756499002658 acyl-activating enzyme (AAE) consensus motif; other site 756499002659 AMP binding site [chemical binding]; other site 756499002660 active site 756499002661 CoA binding site [chemical binding]; other site 756499002662 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 756499002663 CoA-transferase family III; Region: CoA_transf_3; pfam02515 756499002664 oxidoreductase; Provisional; Region: PRK10015 756499002665 ferredoxin-like protein FixX; Provisional; Region: PRK15449 756499002666 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 756499002667 DMSO reductase family type II enzyme, molybdopterin subunit; Region: DMSO_red_II_alp; TIGR03479 756499002668 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 756499002669 molybdopterin cofactor binding site; other site 756499002670 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 756499002671 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 756499002672 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 756499002673 molybdopterin cofactor binding site; other site 756499002674 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499002675 4Fe-4S binding domain; Region: Fer4; cl02805 756499002676 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 756499002677 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 756499002678 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 756499002679 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499002680 Zn2+ binding site [ion binding]; other site 756499002681 Mg2+ binding site [ion binding]; other site 756499002682 GEMM cis-regulatory element; Desde_0951 756499002683 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 756499002684 FOG: CBS domain [General function prediction only]; Region: COG0517 756499002685 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 756499002686 Bacterial Ig-like domain; Region: Big_5; pfam13205 756499002687 Bacterial Ig-like domain; Region: Big_5; pfam13205 756499002688 MG2 domain; Region: A2M_N; pfam01835 756499002689 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 756499002690 Alpha-2-macroglobulin family; Region: A2M; pfam00207 756499002691 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 756499002692 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 756499002693 putative ligand binding pocket/active site [active] 756499002694 putative metal binding site [ion binding]; other site 756499002695 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 756499002696 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 756499002697 non-specific DNA binding site [nucleotide binding]; other site 756499002698 salt bridge; other site 756499002699 sequence-specific DNA binding site [nucleotide binding]; other site 756499002700 Cupin domain; Region: Cupin_2; pfam07883 756499002701 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 756499002702 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 756499002703 non-specific DNA binding site [nucleotide binding]; other site 756499002704 salt bridge; other site 756499002705 sequence-specific DNA binding site [nucleotide binding]; other site 756499002706 Cupin domain; Region: Cupin_2; pfam07883 756499002707 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 756499002708 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 756499002709 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 756499002710 inhibitor-cofactor binding pocket; inhibition site 756499002711 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499002712 catalytic residue [active] 756499002713 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 756499002714 putative metal binding residues [ion binding]; other site 756499002715 signature motif; other site 756499002716 dimer interface [polypeptide binding]; other site 756499002717 active site 756499002718 polyP binding site; other site 756499002719 substrate binding site [chemical binding]; other site 756499002720 acceptor-phosphate pocket; other site 756499002721 MgtC family; Region: MgtC; pfam02308 756499002722 CotH protein; Region: CotH; pfam08757 756499002723 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 756499002724 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 756499002725 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 756499002726 catalytic residue [active] 756499002727 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 756499002728 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 756499002729 Walker A/P-loop; other site 756499002730 ATP binding site [chemical binding]; other site 756499002731 Q-loop/lid; other site 756499002732 ABC transporter signature motif; other site 756499002733 Walker B; other site 756499002734 D-loop; other site 756499002735 H-loop/switch region; other site 756499002736 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 756499002737 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 756499002738 substrate binding pocket [chemical binding]; other site 756499002739 membrane-bound complex binding site; other site 756499002740 hinge residues; other site 756499002741 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 756499002742 dimer interface [polypeptide binding]; other site 756499002743 conserved gate region; other site 756499002744 putative PBP binding loops; other site 756499002745 ABC-ATPase subunit interface; other site 756499002746 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 756499002747 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 756499002748 dimer interface [polypeptide binding]; other site 756499002749 conserved gate region; other site 756499002750 putative PBP binding loops; other site 756499002751 ABC-ATPase subunit interface; other site 756499002752 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 756499002753 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 756499002754 Nitrogen regulatory protein P-II; Region: P-II; smart00938 756499002755 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 756499002756 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 756499002757 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 756499002758 protein binding site [polypeptide binding]; other site 756499002759 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 756499002760 ykkC-yxkD leader; Desde_0978 756499002761 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 756499002762 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 756499002763 spermidine synthase; Provisional; Region: PRK00811 756499002764 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 756499002765 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 756499002766 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 756499002767 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 756499002768 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 756499002769 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 756499002770 FeS/SAM binding site; other site 756499002771 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 756499002772 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 756499002773 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 756499002774 DNA-binding site [nucleotide binding]; DNA binding site 756499002775 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 756499002776 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499002777 homodimer interface [polypeptide binding]; other site 756499002778 catalytic residue [active] 756499002779 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 756499002780 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 756499002781 active site 756499002782 multimer interface [polypeptide binding]; other site 756499002783 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 756499002784 predicted active site [active] 756499002785 catalytic triad [active] 756499002786 threonine dehydratase; Provisional; Region: PRK08198 756499002787 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 756499002788 tetramer interface [polypeptide binding]; other site 756499002789 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499002790 catalytic residue [active] 756499002791 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 756499002792 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 756499002793 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 756499002794 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 756499002795 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 756499002796 catalytic residue [active] 756499002797 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 756499002798 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 756499002799 motif II; other site 756499002800 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 756499002801 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 756499002802 DNA binding residues [nucleotide binding] 756499002803 dimer interface [polypeptide binding]; other site 756499002804 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 756499002805 Bacillus haemolytic enterotoxin (HBL); Region: Bacillus_HBL; pfam05791 756499002806 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 756499002807 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 756499002808 ABC transporter; Region: ABC_tran_2; pfam12848 756499002809 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 756499002810 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 756499002811 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 756499002812 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 756499002813 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 756499002814 GIY-YIG motif/motif A; other site 756499002815 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 756499002816 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 756499002817 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 756499002818 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 756499002819 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 756499002820 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499002821 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 756499002822 DNA binding residues [nucleotide binding] 756499002823 Transposase; Region: DEDD_Tnp_IS110; pfam01548 756499002824 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 756499002825 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 756499002826 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 756499002827 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499002828 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 756499002829 DNA binding residues [nucleotide binding] 756499002830 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 756499002831 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 756499002832 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499002833 Walker A/P-loop; other site 756499002834 ATP binding site [chemical binding]; other site 756499002835 Q-loop/lid; other site 756499002836 ABC transporter signature motif; other site 756499002837 Walker B; other site 756499002838 D-loop; other site 756499002839 H-loop/switch region; other site 756499002840 CcmB protein; Region: CcmB; cl17444 756499002841 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 756499002842 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499002843 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 756499002844 DNA binding residues [nucleotide binding] 756499002845 Putative zinc-finger; Region: zf-HC2; pfam13490 756499002846 Predicted integral membrane protein (DUF2275); Region: DUF2275; pfam10039 756499002847 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 756499002848 H+ Antiporter protein; Region: 2A0121; TIGR00900 756499002849 putative substrate translocation pore; other site 756499002850 Transcriptional regulator [Transcription]; Region: LysR; COG0583 756499002851 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 756499002852 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 756499002853 putative dimerization interface [polypeptide binding]; other site 756499002854 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 756499002855 selenophosphate synthetase; Provisional; Region: PRK00943 756499002856 dimerization interface [polypeptide binding]; other site 756499002857 putative ATP binding site [chemical binding]; other site 756499002858 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499002859 dimer interface [polypeptide binding]; other site 756499002860 putative CheW interface [polypeptide binding]; other site 756499002861 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 756499002862 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 756499002863 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 756499002864 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 756499002865 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 756499002866 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 756499002867 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 756499002868 putative hydratase; Provisional; Region: PRK11413 756499002869 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 756499002870 substrate binding site [chemical binding]; other site 756499002871 ligand binding site [chemical binding]; other site 756499002872 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 756499002873 substrate binding site [chemical binding]; other site 756499002874 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 756499002875 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 756499002876 active site 756499002877 substrate-binding site [chemical binding]; other site 756499002878 metal-binding site [ion binding] 756499002879 ATP binding site [chemical binding]; other site 756499002880 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 756499002881 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 756499002882 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 756499002883 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499002884 G5 domain; Region: G5; pfam07501 756499002885 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 756499002886 Peptidase family M23; Region: Peptidase_M23; pfam01551 756499002887 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 756499002888 Transcriptional regulators [Transcription]; Region: MarR; COG1846 756499002889 MarR family; Region: MarR_2; pfam12802 756499002890 Probable zinc-binding domain; Region: zf-trcl; pfam13451 756499002891 CxxC-x17-CxxC domain; Region: cxxc_cxxc_Mbark; TIGR04272 756499002892 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 756499002893 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 756499002894 non-specific DNA binding site [nucleotide binding]; other site 756499002895 salt bridge; other site 756499002896 sequence-specific DNA binding site [nucleotide binding]; other site 756499002897 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 756499002898 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 756499002899 Nitrogen regulatory protein P-II; Region: P-II; smart00938 756499002900 Nitrogen regulatory protein P-II; Region: P-II; cl00412 756499002901 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 756499002902 PBP superfamily domain; Region: PBP_like_2; cl17296 756499002903 Predicted transcriptional regulator [Transcription]; Region: COG1959 756499002904 Transcriptional regulator; Region: Rrf2; cl17282 756499002905 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 756499002906 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 756499002907 homodimer interface [polypeptide binding]; other site 756499002908 substrate-cofactor binding pocket; other site 756499002909 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499002910 catalytic residue [active] 756499002911 Predicted membrane protein [Function unknown]; Region: COG2855 756499002912 Transcriptional regulator [Transcription]; Region: LysR; COG0583 756499002913 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 756499002914 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 756499002915 putative dimerization interface [polypeptide binding]; other site 756499002916 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 756499002917 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 756499002918 dimer interface [polypeptide binding]; other site 756499002919 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499002920 catalytic residue [active] 756499002921 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 756499002922 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 756499002923 active site 756499002924 DNA binding site [nucleotide binding] 756499002925 Int/Topo IB signature motif; other site 756499002926 Domain of unknown function (DUF955); Region: DUF955; pfam06114 756499002927 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 756499002928 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 756499002929 non-specific DNA binding site [nucleotide binding]; other site 756499002930 salt bridge; other site 756499002931 sequence-specific DNA binding site [nucleotide binding]; other site 756499002932 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 756499002933 non-specific DNA binding site [nucleotide binding]; other site 756499002934 salt bridge; other site 756499002935 sequence-specific DNA binding site [nucleotide binding]; other site 756499002936 serine endoprotease; Provisional; Region: PRK10942 756499002937 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499002938 AAA domain; Region: AAA_23; pfam13476 756499002939 Walker A/P-loop; other site 756499002940 ATP binding site [chemical binding]; other site 756499002941 valyl-tRNA synthetase-like protein; Provisional; Region: PTZ00419 756499002942 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499002943 H-loop/switch region; other site 756499002944 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 756499002945 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 756499002946 active site 756499002947 metal binding site [ion binding]; metal-binding site 756499002948 3D domain; Region: 3D; cl01439 756499002949 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 756499002950 AAA domain; Region: AAA_30; pfam13604 756499002951 Family description; Region: UvrD_C_2; pfam13538 756499002952 DNA primase, catalytic core; Region: dnaG; TIGR01391 756499002953 CHC2 zinc finger; Region: zf-CHC2; cl17510 756499002954 Myb-like DNA-binding domain; Region: Myb_DNA-bind_6; pfam13921 756499002955 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cl17280 756499002956 phage transcriptional activator, RinA family; Region: phage_rinA; TIGR01636 756499002957 Phage terminase small subunit; Region: Phage_terminase; pfam10668 756499002958 Terminase small subunit; Region: Terminase_2; pfam03592 756499002959 Phage terminase large subunit; Region: Terminase_3; cl12054 756499002960 Terminase-like family; Region: Terminase_6; pfam03237 756499002961 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 756499002962 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 756499002963 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 756499002964 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 756499002965 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 756499002966 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 756499002967 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 756499002968 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 756499002969 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 756499002970 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 756499002971 Phage XkdN-like protein; Region: XkdN; pfam08890 756499002972 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499002973 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 756499002974 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 756499002975 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 756499002976 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 756499002977 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 756499002978 amidase catalytic site [active] 756499002979 Zn binding residues [ion binding]; other site 756499002980 substrate binding site [chemical binding]; other site 756499002981 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 756499002982 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 756499002983 non-specific DNA binding site [nucleotide binding]; other site 756499002984 salt bridge; other site 756499002985 sequence-specific DNA binding site [nucleotide binding]; other site 756499002986 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 756499002987 non-specific DNA binding site [nucleotide binding]; other site 756499002988 salt bridge; other site 756499002989 sequence-specific DNA binding site [nucleotide binding]; other site 756499002990 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 756499002991 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 756499002992 DNA polymerase IV; Reviewed; Region: PRK03103 756499002993 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 756499002994 active site 756499002995 DNA binding site [nucleotide binding] 756499002996 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 756499002997 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 756499002998 hydroxyglutarate oxidase; Provisional; Region: PRK11728 756499002999 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 756499003000 Na binding site [ion binding]; other site 756499003001 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 756499003002 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12600 756499003003 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 756499003004 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07691 756499003005 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 756499003006 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK08600 756499003007 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 756499003008 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 756499003009 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 756499003010 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 756499003011 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 756499003012 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 756499003013 Ligand Binding Site [chemical binding]; other site 756499003014 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 756499003015 Int/Topo IB signature motif; other site 756499003016 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 756499003017 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 756499003018 ACS interaction site; other site 756499003019 CODH interaction site; other site 756499003020 cubane metal cluster (B-cluster) [ion binding]; other site 756499003021 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 756499003022 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 756499003023 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 756499003024 ligand binding site [chemical binding]; other site 756499003025 flexible hinge region; other site 756499003026 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 756499003027 putative switch regulator; other site 756499003028 non-specific DNA interactions [nucleotide binding]; other site 756499003029 DNA binding site [nucleotide binding] 756499003030 sequence specific DNA binding site [nucleotide binding]; other site 756499003031 putative cAMP binding site [chemical binding]; other site 756499003032 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 756499003033 Major Facilitator Superfamily; Region: MFS_1; pfam07690 756499003034 putative substrate translocation pore; other site 756499003035 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 756499003036 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 756499003037 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 756499003038 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 756499003039 Metal-binding active site; metal-binding site 756499003040 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 756499003041 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 756499003042 PYR/PP interface [polypeptide binding]; other site 756499003043 dimer interface [polypeptide binding]; other site 756499003044 TPP binding site [chemical binding]; other site 756499003045 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 756499003046 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 756499003047 TPP-binding site [chemical binding]; other site 756499003048 nucleobase-cation-symport-1 (NCS1) transporter Mhp1-like; solute-binding domain; Region: SLC-NCS1sbd_Mhp1-like; cd11483 756499003049 Na binding site [ion binding]; other site 756499003050 substrate binding site [chemical binding]; other site 756499003051 allantoinase; Provisional; Region: PRK06189 756499003052 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 756499003053 active site 756499003054 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 756499003055 allantoinase; Region: allantoinase; TIGR03178 756499003056 active site 756499003057 allantoate amidohydrolase; Reviewed; Region: PRK09290 756499003058 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 756499003059 active site 756499003060 metal binding site [ion binding]; metal-binding site 756499003061 dimer interface [polypeptide binding]; other site 756499003062 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 756499003063 homotrimer interaction site [polypeptide binding]; other site 756499003064 putative active site [active] 756499003065 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 756499003066 hypothetical protein; Provisional; Region: PRK11171 756499003067 Cupin domain; Region: Cupin_2; cl17218 756499003068 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 756499003069 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 756499003070 NAD(P)H:flavin oxidoreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_2; cd02151 756499003071 putative FMN binding site [chemical binding]; other site 756499003072 hypothetical protein; Provisional; Region: PRK02237 756499003073 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 756499003074 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 756499003075 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 756499003076 NodB motif; other site 756499003077 putative active site [active] 756499003078 putative catalytic site [active] 756499003079 putative Zn binding site [ion binding]; other site 756499003080 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 756499003081 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 756499003082 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 756499003083 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 756499003084 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 756499003085 PspC domain; Region: PspC; pfam04024 756499003086 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 756499003087 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 756499003088 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 756499003089 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 756499003090 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 756499003091 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 756499003092 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 756499003093 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 756499003094 metal binding site [ion binding]; metal-binding site 756499003095 active site 756499003096 I-site; other site 756499003097 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499003098 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499003099 active site 756499003100 phosphorylation site [posttranslational modification] 756499003101 intermolecular recognition site; other site 756499003102 dimerization interface [polypeptide binding]; other site 756499003103 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 756499003104 DNA binding site [nucleotide binding] 756499003105 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 756499003106 PhoU domain; Region: PhoU; pfam01895 756499003107 PhoU domain; Region: PhoU; pfam01895 756499003108 HAMP domain; Region: HAMP; pfam00672 756499003109 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 756499003110 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499003111 dimer interface [polypeptide binding]; other site 756499003112 putative CheW interface [polypeptide binding]; other site 756499003113 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 756499003114 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 756499003115 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 756499003116 dimer interface [polypeptide binding]; other site 756499003117 conserved gate region; other site 756499003118 putative PBP binding loops; other site 756499003119 ABC-ATPase subunit interface; other site 756499003120 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 756499003121 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 756499003122 dimer interface [polypeptide binding]; other site 756499003123 conserved gate region; other site 756499003124 putative PBP binding loops; other site 756499003125 ABC-ATPase subunit interface; other site 756499003126 phosphate transporter ATP-binding protein; Provisional; Region: PRK14238 756499003127 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 756499003128 Walker A/P-loop; other site 756499003129 ATP binding site [chemical binding]; other site 756499003130 Q-loop/lid; other site 756499003131 ABC transporter signature motif; other site 756499003132 Walker B; other site 756499003133 D-loop; other site 756499003134 H-loop/switch region; other site 756499003135 PAS domain S-box; Region: sensory_box; TIGR00229 756499003136 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 756499003137 putative active site [active] 756499003138 heme pocket [chemical binding]; other site 756499003139 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 756499003140 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 756499003141 putative active site [active] 756499003142 heme pocket [chemical binding]; other site 756499003143 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 756499003144 dimer interface [polypeptide binding]; other site 756499003145 phosphorylation site [posttranslational modification] 756499003146 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499003147 ATP binding site [chemical binding]; other site 756499003148 Mg2+ binding site [ion binding]; other site 756499003149 G-X-G motif; other site 756499003150 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 756499003151 phosphodiesterase YaeI; Provisional; Region: PRK11340 756499003152 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 756499003153 putative active site [active] 756499003154 putative metal binding site [ion binding]; other site 756499003155 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 756499003156 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 756499003157 NAD(P) binding site [chemical binding]; other site 756499003158 active site 756499003159 acyl-CoA synthetase; Validated; Region: PRK07788 756499003160 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 756499003161 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 756499003162 acyl-activating enzyme (AAE) consensus motif; other site 756499003163 acyl-activating enzyme (AAE) consensus motif; other site 756499003164 AMP binding site [chemical binding]; other site 756499003165 active site 756499003166 CoA binding site [chemical binding]; other site 756499003167 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 756499003168 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 756499003169 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 756499003170 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 756499003171 DNA binding residues [nucleotide binding] 756499003172 dimer interface [polypeptide binding]; other site 756499003173 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 756499003174 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 756499003175 putative NAD(P) binding site [chemical binding]; other site 756499003176 putative active site [active] 756499003177 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 756499003178 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 756499003179 aspartate racemase; Region: asp_race; TIGR00035 756499003180 Predicted ATPase [General function prediction only]; Region: COG3910 756499003181 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499003182 Walker A/P-loop; other site 756499003183 ATP binding site [chemical binding]; other site 756499003184 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499003185 ABC transporter signature motif; other site 756499003186 Walker B; other site 756499003187 D-loop; other site 756499003188 H-loop/switch region; other site 756499003189 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 756499003190 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 756499003191 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_1; cd08973 756499003192 putative DNA binding site [nucleotide binding]; other site 756499003193 catalytic residue [active] 756499003194 putative H2TH interface [polypeptide binding]; other site 756499003195 putative catalytic residues [active] 756499003196 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 756499003197 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 756499003198 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 756499003199 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 756499003200 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 756499003201 hypothetical protein; Provisional; Region: PRK09898 756499003202 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 756499003203 putative oxidoreductase; Provisional; Region: PRK09849 756499003204 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 756499003205 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 756499003206 hypothetical protein; Provisional; Region: PRK09947 756499003207 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 756499003208 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 756499003209 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 756499003210 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 756499003211 dimer interface [polypeptide binding]; other site 756499003212 conserved gate region; other site 756499003213 putative PBP binding loops; other site 756499003214 ABC-ATPase subunit interface; other site 756499003215 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 756499003216 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 756499003217 dimer interface [polypeptide binding]; other site 756499003218 conserved gate region; other site 756499003219 putative PBP binding loops; other site 756499003220 ABC-ATPase subunit interface; other site 756499003221 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 756499003222 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 756499003223 Walker A/P-loop; other site 756499003224 ATP binding site [chemical binding]; other site 756499003225 Q-loop/lid; other site 756499003226 ABC transporter signature motif; other site 756499003227 Walker B; other site 756499003228 D-loop; other site 756499003229 H-loop/switch region; other site 756499003230 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 756499003231 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 756499003232 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 756499003233 Walker A/P-loop; other site 756499003234 ATP binding site [chemical binding]; other site 756499003235 Q-loop/lid; other site 756499003236 ABC transporter signature motif; other site 756499003237 Walker B; other site 756499003238 D-loop; other site 756499003239 H-loop/switch region; other site 756499003240 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499003241 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499003242 active site 756499003243 phosphorylation site [posttranslational modification] 756499003244 intermolecular recognition site; other site 756499003245 dimerization interface [polypeptide binding]; other site 756499003246 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 756499003247 DNA binding site [nucleotide binding] 756499003248 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 756499003249 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 756499003250 dimerization interface [polypeptide binding]; other site 756499003251 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499003252 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 756499003253 dimer interface [polypeptide binding]; other site 756499003254 phosphorylation site [posttranslational modification] 756499003255 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499003256 ATP binding site [chemical binding]; other site 756499003257 Mg2+ binding site [ion binding]; other site 756499003258 G-X-G motif; other site 756499003259 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 756499003260 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 756499003261 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 756499003262 molybdopterin cofactor binding site; other site 756499003263 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 756499003264 putative molybdopterin cofactor binding site; other site 756499003265 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499003266 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 756499003267 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 756499003268 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 756499003269 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 756499003270 molybdopterin cofactor binding site; other site 756499003271 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 756499003272 putative molybdopterin cofactor binding site; other site 756499003273 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499003274 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 756499003275 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 756499003276 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 756499003277 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499003278 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 756499003279 dimerization interface [polypeptide binding]; other site 756499003280 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 756499003281 dimer interface [polypeptide binding]; other site 756499003282 phosphorylation site [posttranslational modification] 756499003283 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499003284 ATP binding site [chemical binding]; other site 756499003285 Mg2+ binding site [ion binding]; other site 756499003286 G-X-G motif; other site 756499003287 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499003288 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499003289 active site 756499003290 phosphorylation site [posttranslational modification] 756499003291 intermolecular recognition site; other site 756499003292 dimerization interface [polypeptide binding]; other site 756499003293 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 756499003294 DNA binding site [nucleotide binding] 756499003295 ResB-like family; Region: ResB; pfam05140 756499003296 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 756499003297 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 756499003298 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 756499003299 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 756499003300 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 756499003301 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 756499003302 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 756499003303 [4Fe-4S] binding site [ion binding]; other site 756499003304 molybdopterin cofactor binding site; other site 756499003305 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 756499003306 molybdopterin cofactor binding site; other site 756499003307 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 756499003308 4Fe-4S binding domain; Region: Fer4_5; pfam12801 756499003309 4Fe-4S binding domain; Region: Fer4_5; pfam12801 756499003310 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 756499003311 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 756499003312 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 756499003313 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 756499003314 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 756499003315 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 756499003316 putative active site [active] 756499003317 catalytic site [active] 756499003318 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 756499003319 putative active site [active] 756499003320 catalytic site [active] 756499003321 Transcriptional regulators [Transcription]; Region: MarR; COG1846 756499003322 MarR family; Region: MarR_2; cl17246 756499003323 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 756499003324 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 756499003325 Walker A motif; other site 756499003326 ATP binding site [chemical binding]; other site 756499003327 Walker B motif; other site 756499003328 arginine finger; other site 756499003329 Peptidase family M41; Region: Peptidase_M41; pfam01434 756499003330 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 756499003331 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 756499003332 Ligand binding site; other site 756499003333 metal-binding site 756499003334 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 756499003335 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 756499003336 active site 756499003337 putative homodimer interface [polypeptide binding]; other site 756499003338 SAM binding site [chemical binding]; other site 756499003339 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 756499003340 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 756499003341 S-adenosylmethionine binding site [chemical binding]; other site 756499003342 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 756499003343 active site 756499003344 SAM binding site [chemical binding]; other site 756499003345 homodimer interface [polypeptide binding]; other site 756499003346 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 756499003347 active site 756499003348 SAM binding site [chemical binding]; other site 756499003349 homodimer interface [polypeptide binding]; other site 756499003350 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 756499003351 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 756499003352 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 756499003353 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 756499003354 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 756499003355 active site 756499003356 SAM binding site [chemical binding]; other site 756499003357 homodimer interface [polypeptide binding]; other site 756499003358 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 756499003359 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 756499003360 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 756499003361 putative active site [active] 756499003362 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 756499003363 Precorrin-8X methylmutase; Region: CbiC; pfam02570 756499003364 cobyric acid synthase; Provisional; Region: PRK00784 756499003365 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 756499003366 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 756499003367 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 756499003368 catalytic triad [active] 756499003369 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 756499003370 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 756499003371 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 756499003372 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 756499003373 catalytic triad [active] 756499003374 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; cl17276 756499003375 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 756499003376 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 756499003377 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 756499003378 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499003379 homodimer interface [polypeptide binding]; other site 756499003380 catalytic residue [active] 756499003381 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 756499003382 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 756499003383 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 756499003384 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 756499003385 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 756499003386 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 756499003387 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499003388 Walker A/P-loop; other site 756499003389 ATP binding site [chemical binding]; other site 756499003390 Q-loop/lid; other site 756499003391 ABC transporter signature motif; other site 756499003392 Walker B; other site 756499003393 D-loop; other site 756499003394 H-loop/switch region; other site 756499003395 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 756499003396 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 756499003397 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499003398 Walker A/P-loop; other site 756499003399 ATP binding site [chemical binding]; other site 756499003400 Q-loop/lid; other site 756499003401 ABC transporter signature motif; other site 756499003402 Walker B; other site 756499003403 D-loop; other site 756499003404 H-loop/switch region; other site 756499003405 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 756499003406 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 756499003407 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 756499003408 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 756499003409 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 756499003410 PspC domain; Region: PspC; cl00864 756499003411 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499003412 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499003413 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499003414 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 756499003415 homotrimer interaction site [polypeptide binding]; other site 756499003416 putative active site [active] 756499003417 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 756499003418 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 756499003419 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 756499003420 catalytic residue [active] 756499003421 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 756499003422 Spore germination protein; Region: Spore_permease; cl17796 756499003423 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 756499003424 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 756499003425 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 756499003426 putative active site [active] 756499003427 heme pocket [chemical binding]; other site 756499003428 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 756499003429 Walker A motif; other site 756499003430 ATP binding site [chemical binding]; other site 756499003431 Walker B motif; other site 756499003432 arginine finger; other site 756499003433 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 756499003434 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 756499003435 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 756499003436 Cache domain; Region: Cache_1; pfam02743 756499003437 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 756499003438 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 756499003439 dimerization interface [polypeptide binding]; other site 756499003440 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499003441 dimer interface [polypeptide binding]; other site 756499003442 putative CheW interface [polypeptide binding]; other site 756499003443 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 756499003444 dimanganese center [ion binding]; other site 756499003445 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 756499003446 homodimer interaction site [polypeptide binding]; other site 756499003447 cofactor binding site; other site 756499003448 Predicted RNA-binding protein; Region: RNA_bind_2; pfam10133 756499003449 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 756499003450 hexamer interface [polypeptide binding]; other site 756499003451 active site 2 [active] 756499003452 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 756499003453 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 756499003454 DNA binding site [nucleotide binding] 756499003455 active site 756499003456 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 756499003457 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 756499003458 active site 756499003459 metal binding site [ion binding]; metal-binding site 756499003460 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 756499003461 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 756499003462 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 756499003463 FeS/SAM binding site; other site 756499003464 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 756499003465 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 756499003466 DNA-binding site [nucleotide binding]; DNA binding site 756499003467 TrkA-C domain; Region: TrkA_C; pfam02080 756499003468 GAF domain; Region: GAF; pfam01590 756499003469 Histidine kinase; Region: His_kinase; pfam06580 756499003470 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499003471 ATP binding site [chemical binding]; other site 756499003472 Mg2+ binding site [ion binding]; other site 756499003473 G-X-G motif; other site 756499003474 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 756499003475 putative carbohydrate kinase; Provisional; Region: PRK10565 756499003476 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 756499003477 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 756499003478 putative substrate binding site [chemical binding]; other site 756499003479 putative ATP binding site [chemical binding]; other site 756499003480 alanine racemase; Reviewed; Region: alr; PRK00053 756499003481 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 756499003482 active site 756499003483 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 756499003484 dimer interface [polypeptide binding]; other site 756499003485 substrate binding site [chemical binding]; other site 756499003486 catalytic residues [active] 756499003487 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 756499003488 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 756499003489 trimer interface [polypeptide binding]; other site 756499003490 putative metal binding site [ion binding]; other site 756499003491 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 756499003492 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_13; cd12178 756499003493 putative ligand binding site [chemical binding]; other site 756499003494 putative NAD binding site [chemical binding]; other site 756499003495 catalytic site [active] 756499003496 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 756499003497 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 756499003498 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 756499003499 catalytic triad [active] 756499003500 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 756499003501 PemK-like protein; Region: PemK; pfam02452 756499003502 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 756499003503 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 756499003504 catalytic triad [active] 756499003505 GAF domain; Region: GAF_2; pfam13185 756499003506 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 756499003507 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 756499003508 Walker A motif; other site 756499003509 ATP binding site [chemical binding]; other site 756499003510 Walker B motif; other site 756499003511 arginine finger; other site 756499003512 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 756499003513 DoxX; Region: DoxX; cl17842 756499003514 Nitroreductase family; Region: Nitroreductase; pfam00881 756499003515 FMN binding site [chemical binding]; other site 756499003516 dimer interface [polypeptide binding]; other site 756499003517 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499003518 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 756499003519 dimerization interface [polypeptide binding]; other site 756499003520 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 756499003521 dimer interface [polypeptide binding]; other site 756499003522 phosphorylation site [posttranslational modification] 756499003523 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499003524 ATP binding site [chemical binding]; other site 756499003525 Mg2+ binding site [ion binding]; other site 756499003526 G-X-G motif; other site 756499003527 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499003528 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499003529 active site 756499003530 phosphorylation site [posttranslational modification] 756499003531 intermolecular recognition site; other site 756499003532 dimerization interface [polypeptide binding]; other site 756499003533 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 756499003534 DNA binding site [nucleotide binding] 756499003535 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 756499003536 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 756499003537 putative ATP binding site [chemical binding]; other site 756499003538 putative substrate interface [chemical binding]; other site 756499003539 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 756499003540 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 756499003541 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 756499003542 Walker A/P-loop; other site 756499003543 ATP binding site [chemical binding]; other site 756499003544 Q-loop/lid; other site 756499003545 ABC transporter signature motif; other site 756499003546 Walker B; other site 756499003547 D-loop; other site 756499003548 H-loop/switch region; other site 756499003549 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 756499003550 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 756499003551 FtsX-like permease family; Region: FtsX; pfam02687 756499003552 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 756499003553 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 756499003554 FtsX-like permease family; Region: FtsX; pfam02687 756499003555 putative acetyltransferase YhhY; Provisional; Region: PRK10140 756499003556 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499003557 Coenzyme A binding pocket [chemical binding]; other site 756499003558 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 756499003559 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 756499003560 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 756499003561 Predicted membrane protein [Function unknown]; Region: COG2364 756499003562 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 756499003563 cystathionine gamma-synthase; Reviewed; Region: PRK08247 756499003564 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 756499003565 homodimer interface [polypeptide binding]; other site 756499003566 substrate-cofactor binding pocket; other site 756499003567 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499003568 catalytic residue [active] 756499003569 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 756499003570 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 756499003571 Ligand Binding Site [chemical binding]; other site 756499003572 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 756499003573 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 756499003574 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 756499003575 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 756499003576 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 756499003577 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 756499003578 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 756499003579 RNA binding site [nucleotide binding]; other site 756499003580 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 756499003581 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 756499003582 active site 756499003583 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 756499003584 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 756499003585 Glycoprotease family; Region: Peptidase_M22; pfam00814 756499003586 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 756499003587 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499003588 Coenzyme A binding pocket [chemical binding]; other site 756499003589 UGMP family protein; Validated; Region: PRK09604 756499003590 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 756499003591 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 756499003592 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 756499003593 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 756499003594 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 756499003595 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 756499003596 putative dimer interface [polypeptide binding]; other site 756499003597 [2Fe-2S] cluster binding site [ion binding]; other site 756499003598 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 756499003599 dimer interface [polypeptide binding]; other site 756499003600 [2Fe-2S] cluster binding site [ion binding]; other site 756499003601 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 756499003602 SLBB domain; Region: SLBB; pfam10531 756499003603 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 756499003604 4Fe-4S binding domain; Region: Fer4; pfam00037 756499003605 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 756499003606 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 756499003607 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 756499003608 catalytic loop [active] 756499003609 iron binding site [ion binding]; other site 756499003610 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 756499003611 4Fe-4S binding domain; Region: Fer4; cl02805 756499003612 4Fe-4S binding domain; Region: Fer4; pfam00037 756499003613 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 756499003614 [4Fe-4S] binding site [ion binding]; other site 756499003615 molybdopterin cofactor binding site; other site 756499003616 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_CT_Formate-Dh_H; cd02790 756499003617 molybdopterin cofactor binding site; other site 756499003618 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 756499003619 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 756499003620 GTP binding site; other site 756499003621 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 756499003622 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 756499003623 FeS/SAM binding site; other site 756499003624 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 756499003625 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 756499003626 trimer interface [polypeptide binding]; other site 756499003627 dimer interface [polypeptide binding]; other site 756499003628 putative active site [active] 756499003629 MOSC domain; Region: MOSC; pfam03473 756499003630 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 756499003631 MPT binding site; other site 756499003632 trimer interface [polypeptide binding]; other site 756499003633 LabA_like proteins; Region: LabA_like; cd06167 756499003634 putative metal binding site [ion binding]; other site 756499003635 Uncharacterized conserved protein [Function unknown]; Region: COG1432 756499003636 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 756499003637 oligomerisation interface [polypeptide binding]; other site 756499003638 mobile loop; other site 756499003639 roof hairpin; other site 756499003640 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 756499003641 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 756499003642 ring oligomerisation interface [polypeptide binding]; other site 756499003643 ATP/Mg binding site [chemical binding]; other site 756499003644 stacking interactions; other site 756499003645 hinge regions; other site 756499003646 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 756499003647 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 756499003648 non-specific DNA binding site [nucleotide binding]; other site 756499003649 salt bridge; other site 756499003650 sequence-specific DNA binding site [nucleotide binding]; other site 756499003651 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 756499003652 non-specific DNA binding site [nucleotide binding]; other site 756499003653 salt bridge; other site 756499003654 sequence-specific DNA binding site [nucleotide binding]; other site 756499003655 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 756499003656 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 756499003657 Phage XkdN-like protein; Region: XkdN; pfam08890 756499003658 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 756499003659 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499003660 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 756499003661 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 756499003662 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 756499003663 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 756499003664 basic leucine zipper DNA-binding and multimerization region of GCN4 and related proteins; Region: B_zip1; cl02576 756499003665 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 756499003666 amidase catalytic site [active] 756499003667 Zn binding residues [ion binding]; other site 756499003668 substrate binding site [chemical binding]; other site 756499003669 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 756499003670 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 756499003671 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 756499003672 active site 756499003673 GMP synthase; Reviewed; Region: guaA; PRK00074 756499003674 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 756499003675 AMP/PPi binding site [chemical binding]; other site 756499003676 candidate oxyanion hole; other site 756499003677 catalytic triad [active] 756499003678 potential glutamine specificity residues [chemical binding]; other site 756499003679 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 756499003680 ATP Binding subdomain [chemical binding]; other site 756499003681 Ligand Binding sites [chemical binding]; other site 756499003682 Dimerization subdomain; other site 756499003683 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499003684 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499003685 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499003686 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 756499003687 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 756499003688 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 756499003689 dimerization interface [polypeptide binding]; other site 756499003690 ATP binding site [chemical binding]; other site 756499003691 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 756499003692 dimerization interface [polypeptide binding]; other site 756499003693 ATP binding site [chemical binding]; other site 756499003694 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 756499003695 putative active site [active] 756499003696 catalytic triad [active] 756499003697 AIR carboxylase; Region: AIRC; pfam00731 756499003698 adenylosuccinate lyase; Provisional; Region: PRK07492 756499003699 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 756499003700 tetramer interface [polypeptide binding]; other site 756499003701 active site 756499003702 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 756499003703 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 756499003704 ATP binding site [chemical binding]; other site 756499003705 active site 756499003706 substrate binding site [chemical binding]; other site 756499003707 amidophosphoribosyltransferase; Provisional; Region: PRK05793 756499003708 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 756499003709 active site 756499003710 tetramer interface [polypeptide binding]; other site 756499003711 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 756499003712 active site 756499003713 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 756499003714 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 756499003715 dimerization interface [polypeptide binding]; other site 756499003716 putative ATP binding site [chemical binding]; other site 756499003717 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 756499003718 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 756499003719 active site 756499003720 substrate binding site [chemical binding]; other site 756499003721 cosubstrate binding site; other site 756499003722 catalytic site [active] 756499003723 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 756499003724 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 756499003725 purine monophosphate binding site [chemical binding]; other site 756499003726 dimer interface [polypeptide binding]; other site 756499003727 putative catalytic residues [active] 756499003728 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 756499003729 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 756499003730 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 756499003731 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 756499003732 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 756499003733 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 756499003734 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 756499003735 dinuclear metal binding motif [ion binding]; other site 756499003736 benzoate transport; Region: 2A0115; TIGR00895 756499003737 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 756499003738 putative substrate translocation pore; other site 756499003739 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 756499003740 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 756499003741 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 756499003742 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 756499003743 dimer interface [polypeptide binding]; other site 756499003744 conserved gate region; other site 756499003745 ABC-ATPase subunit interface; other site 756499003746 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 756499003747 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 756499003748 Walker A/P-loop; other site 756499003749 ATP binding site [chemical binding]; other site 756499003750 Q-loop/lid; other site 756499003751 ABC transporter signature motif; other site 756499003752 Walker B; other site 756499003753 D-loop; other site 756499003754 H-loop/switch region; other site 756499003755 NIL domain; Region: NIL; pfam09383 756499003756 Trp repressor protein; Region: Trp_repressor; cl17266 756499003757 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 756499003758 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 756499003759 dimer interface [polypeptide binding]; other site 756499003760 motif 1; other site 756499003761 active site 756499003762 motif 2; other site 756499003763 motif 3; other site 756499003764 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 756499003765 TIR domain; Region: TIR_2; pfam13676 756499003766 Caspase domain; Region: Peptidase_C14; pfam00656 756499003767 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 756499003768 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 756499003769 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 756499003770 histidinol dehydrogenase; Region: hisD; TIGR00069 756499003771 NAD binding site [chemical binding]; other site 756499003772 dimerization interface [polypeptide binding]; other site 756499003773 product binding site; other site 756499003774 substrate binding site [chemical binding]; other site 756499003775 zinc binding site [ion binding]; other site 756499003776 catalytic residues [active] 756499003777 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 756499003778 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 756499003779 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499003780 homodimer interface [polypeptide binding]; other site 756499003781 catalytic residue [active] 756499003782 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 756499003783 putative active site pocket [active] 756499003784 4-fold oligomerization interface [polypeptide binding]; other site 756499003785 metal binding residues [ion binding]; metal-binding site 756499003786 3-fold/trimer interface [polypeptide binding]; other site 756499003787 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 756499003788 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 756499003789 putative active site [active] 756499003790 oxyanion strand; other site 756499003791 catalytic triad [active] 756499003792 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 756499003793 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 756499003794 catalytic residues [active] 756499003795 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 756499003796 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 756499003797 substrate binding site [chemical binding]; other site 756499003798 glutamase interaction surface [polypeptide binding]; other site 756499003799 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 756499003800 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 756499003801 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 756499003802 metal binding site [ion binding]; metal-binding site 756499003803 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 756499003804 ApbE family; Region: ApbE; pfam02424 756499003805 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cd09846 756499003806 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 756499003807 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 756499003808 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]; Region: COG4939 756499003809 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 756499003810 ApbE family; Region: ApbE; pfam02424 756499003811 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 756499003812 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 756499003813 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 756499003814 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 756499003815 active site residue [active] 756499003816 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 756499003817 dimerization interface [polypeptide binding]; other site 756499003818 putative DNA binding site [nucleotide binding]; other site 756499003819 putative Zn2+ binding site [ion binding]; other site 756499003820 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 756499003821 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 756499003822 ligand binding site [chemical binding]; other site 756499003823 flexible hinge region; other site 756499003824 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 756499003825 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 756499003826 active site residue [active] 756499003827 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 756499003828 active site residue [active] 756499003829 thiosulfate reductase PhsA; Provisional; Region: PRK15488 756499003830 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 756499003831 putative [Fe4-S4] binding site [ion binding]; other site 756499003832 putative molybdopterin cofactor binding site [chemical binding]; other site 756499003833 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 756499003834 putative molybdopterin cofactor binding site; other site 756499003835 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499003836 4Fe-4S binding domain; Region: Fer4; cl02805 756499003837 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 756499003838 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 756499003839 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 756499003840 active site residue [active] 756499003841 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 756499003842 active site residue [active] 756499003843 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 756499003844 Part of AAA domain; Region: AAA_19; pfam13245 756499003845 Family description; Region: UvrD_C_2; pfam13538 756499003846 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 756499003847 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 756499003848 DRTGG domain; Region: DRTGG; pfam07085 756499003849 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 756499003850 DHH family; Region: DHH; pfam01368 756499003851 DHHA2 domain; Region: DHHA2; pfam02833 756499003852 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 756499003853 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 756499003854 nucleotide binding pocket [chemical binding]; other site 756499003855 K-X-D-G motif; other site 756499003856 catalytic site [active] 756499003857 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 756499003858 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 756499003859 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 756499003860 Dimer interface [polypeptide binding]; other site 756499003861 BRCT sequence motif; other site 756499003862 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 756499003863 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 756499003864 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 756499003865 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 756499003866 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 756499003867 GatB domain; Region: GatB_Yqey; smart00845 756499003868 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499003869 putative CheW interface [polypeptide binding]; other site 756499003870 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 756499003871 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 756499003872 active site 756499003873 catalytic residues [active] 756499003874 metal binding site [ion binding]; metal-binding site 756499003875 isocitrate dehydrogenase; Validated; Region: PRK08299 756499003876 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 756499003877 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 756499003878 Na binding site [ion binding]; other site 756499003879 Protein of unknown function (Gmx_para_CXXCG); Region: Gmx_para_CXXCG; cl15282 756499003880 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 756499003881 nitrogenase reductase-like protein; Reviewed; Region: PRK13231 756499003882 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 756499003883 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 756499003884 Walker A/P-loop; other site 756499003885 ATP binding site [chemical binding]; other site 756499003886 Q-loop/lid; other site 756499003887 ABC transporter signature motif; other site 756499003888 Walker B; other site 756499003889 D-loop; other site 756499003890 H-loop/switch region; other site 756499003891 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 756499003892 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 756499003893 intersubunit interface [polypeptide binding]; other site 756499003894 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 756499003895 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 756499003896 active site 756499003897 HIGH motif; other site 756499003898 dimer interface [polypeptide binding]; other site 756499003899 KMSKS motif; other site 756499003900 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 756499003901 RNA binding surface [nucleotide binding]; other site 756499003902 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 756499003903 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 756499003904 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 756499003905 active site 756499003906 trimer interface [polypeptide binding]; other site 756499003907 allosteric site; other site 756499003908 active site lid [active] 756499003909 hexamer (dimer of trimers) interface [polypeptide binding]; other site 756499003910 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 756499003911 HlyD family secretion protein; Region: HlyD_3; pfam13437 756499003912 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 756499003913 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 756499003914 Walker A/P-loop; other site 756499003915 ATP binding site [chemical binding]; other site 756499003916 Q-loop/lid; other site 756499003917 ABC transporter signature motif; other site 756499003918 Walker B; other site 756499003919 D-loop; other site 756499003920 H-loop/switch region; other site 756499003921 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 756499003922 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 756499003923 FtsX-like permease family; Region: FtsX; pfam02687 756499003924 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 756499003925 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 756499003926 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 756499003927 NAD(P) binding pocket [chemical binding]; other site 756499003928 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 756499003929 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 756499003930 dimer interface [polypeptide binding]; other site 756499003931 active site 756499003932 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 756499003933 catalytic residues [active] 756499003934 substrate binding site [chemical binding]; other site 756499003935 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 756499003936 pentamer interface [polypeptide binding]; other site 756499003937 dodecaamer interface [polypeptide binding]; other site 756499003938 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 756499003939 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499003940 Walker A/P-loop; other site 756499003941 ATP binding site [chemical binding]; other site 756499003942 Q-loop/lid; other site 756499003943 ABC transporter signature motif; other site 756499003944 Walker B; other site 756499003945 D-loop; other site 756499003946 H-loop/switch region; other site 756499003947 ABC transporter; Region: ABC_tran_2; pfam12848 756499003948 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 756499003949 PAS domain S-box; Region: sensory_box; TIGR00229 756499003950 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 756499003951 putative active site [active] 756499003952 heme pocket [chemical binding]; other site 756499003953 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 756499003954 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499003955 active site 756499003956 phosphorylation site [posttranslational modification] 756499003957 intermolecular recognition site; other site 756499003958 dimerization interface [polypeptide binding]; other site 756499003959 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 756499003960 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 756499003961 metal binding site [ion binding]; metal-binding site 756499003962 active site 756499003963 I-site; other site 756499003964 CAAX protease self-immunity; Region: Abi; pfam02517 756499003965 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 756499003966 TRAM domain; Region: TRAM; pfam01938 756499003967 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 756499003968 S-adenosylmethionine binding site [chemical binding]; other site 756499003969 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 756499003970 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 756499003971 catalytic residues [active] 756499003972 catalytic nucleophile [active] 756499003973 Recombinase; Region: Recombinase; pfam07508 756499003974 Helix-turn-helix domain; Region: HTH_17; pfam12728 756499003975 Transposase, Mutator family; Region: Transposase_mut; pfam00872 756499003976 MULE transposase domain; Region: MULE; pfam10551 756499003977 Domain of unknown function (DUF1413); Region: DUF1413; pfam07205 756499003978 AAA domain; Region: AAA_23; pfam13476 756499003979 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499003980 Walker A/P-loop; other site 756499003981 ATP binding site [chemical binding]; other site 756499003982 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 756499003983 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 756499003984 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 756499003985 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 756499003986 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 756499003987 dimerization interface [polypeptide binding]; other site 756499003988 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 756499003989 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499003990 dimer interface [polypeptide binding]; other site 756499003991 putative CheW interface [polypeptide binding]; other site 756499003992 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 756499003993 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 756499003994 PAS domain; Region: PAS_9; pfam13426 756499003995 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 756499003996 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499003997 Zn2+ binding site [ion binding]; other site 756499003998 Mg2+ binding site [ion binding]; other site 756499003999 PAS domain; Region: PAS_9; pfam13426 756499004000 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499004001 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499004002 ATP binding site [chemical binding]; other site 756499004003 Mg2+ binding site [ion binding]; other site 756499004004 G-X-G motif; other site 756499004005 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 756499004006 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499004007 active site 756499004008 phosphorylation site [posttranslational modification] 756499004009 intermolecular recognition site; other site 756499004010 dimerization interface [polypeptide binding]; other site 756499004011 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 756499004012 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 756499004013 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 756499004014 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 756499004015 phosphoenolpyruvate synthase; Validated; Region: PRK06241 756499004016 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 756499004017 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 756499004018 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 756499004019 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 756499004020 TIGR04076 family protein; Region: TIGR04076 756499004021 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 756499004022 active site 756499004023 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 756499004024 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 756499004025 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 756499004026 Coenzyme A binding pocket [chemical binding]; other site 756499004027 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 756499004028 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 756499004029 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499004030 Coenzyme A binding pocket [chemical binding]; other site 756499004031 Transposase, Mutator family; Region: Transposase_mut; pfam00872 756499004032 MULE transposase domain; Region: MULE; pfam10551 756499004033 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 756499004034 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 756499004035 Predicted transcriptional regulators [Transcription]; Region: COG1733 756499004036 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 756499004037 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 756499004038 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 756499004039 YmaF family; Region: YmaF; pfam12788 756499004040 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 756499004041 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 756499004042 S-adenosylmethionine binding site [chemical binding]; other site 756499004043 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 756499004044 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 756499004045 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 756499004046 Protein of unknown function, DUF606; Region: DUF606; pfam04657 756499004047 RibD C-terminal domain; Region: RibD_C; cl17279 756499004048 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 756499004049 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 756499004050 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 756499004051 seryl-tRNA synthetase; Provisional; Region: PRK05431 756499004052 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 756499004053 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 756499004054 motif 1; other site 756499004055 dimer interface [polypeptide binding]; other site 756499004056 active site 756499004057 motif 2; other site 756499004058 motif 3; other site 756499004059 Predicted ATPases of PP-loop superfamily [General function prediction only]; Region: COG2102 756499004060 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_IV; cd01994 756499004061 Ligand Binding Site [chemical binding]; other site 756499004062 EamA-like transporter family; Region: EamA; pfam00892 756499004063 EamA-like transporter family; Region: EamA; pfam00892 756499004064 Predicted transcriptional regulators [Transcription]; Region: COG1725 756499004065 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 756499004066 DNA-binding site [nucleotide binding]; DNA binding site 756499004067 Predicted membrane protein [General function prediction only]; Region: COG4194 756499004068 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 756499004069 Prenyltransferase-like; Region: Prenyltrans_1; pfam13243 756499004070 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 756499004071 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 756499004072 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 756499004073 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 756499004074 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 756499004075 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 756499004076 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 756499004077 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 756499004078 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 756499004079 DNA binding residues [nucleotide binding] 756499004080 dimer interface [polypeptide binding]; other site 756499004081 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 756499004082 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 756499004083 myosin-cross-reactive antigen; Provisional; Region: PRK13977 756499004084 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 756499004085 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 756499004086 NAD(P) binding site [chemical binding]; other site 756499004087 active site 756499004088 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 756499004089 PAS domain S-box; Region: sensory_box; TIGR00229 756499004090 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 756499004091 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 756499004092 metal binding site [ion binding]; metal-binding site 756499004093 active site 756499004094 I-site; other site 756499004095 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 756499004096 Methyltransferase domain; Region: Methyltransf_31; pfam13847 756499004097 S-adenosylmethionine binding site [chemical binding]; other site 756499004098 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 756499004099 GIY-YIG motif/motif A; other site 756499004100 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 756499004101 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 756499004102 non-specific DNA binding site [nucleotide binding]; other site 756499004103 salt bridge; other site 756499004104 sequence-specific DNA binding site [nucleotide binding]; other site 756499004105 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 756499004106 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 756499004107 non-heme iron binding site [ion binding]; other site 756499004108 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 756499004109 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 756499004110 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 756499004111 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 756499004112 ABC-type Co2+ transport system, permease component [Inorganic ion transport and metabolism]; Region: CbiM; cl00397 756499004113 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 756499004114 PDGLE domain; Region: PDGLE; pfam13190 756499004115 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 756499004116 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 756499004117 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 756499004118 Walker A/P-loop; other site 756499004119 ATP binding site [chemical binding]; other site 756499004120 Q-loop/lid; other site 756499004121 ABC transporter signature motif; other site 756499004122 Walker B; other site 756499004123 D-loop; other site 756499004124 H-loop/switch region; other site 756499004125 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 756499004126 Predicted transcriptional regulators [Transcription]; Region: COG1733 756499004127 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 756499004128 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 756499004129 putative FMN binding site [chemical binding]; other site 756499004130 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 756499004131 trimer interface [polypeptide binding]; other site 756499004132 putative metal binding site [ion binding]; other site 756499004133 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 756499004134 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 756499004135 trimer interface [polypeptide binding]; other site 756499004136 putative metal binding site [ion binding]; other site 756499004137 Predicted transcriptional regulators [Transcription]; Region: COG1733 756499004138 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 756499004139 Pirin-related protein [General function prediction only]; Region: COG1741 756499004140 Pirin; Region: Pirin; pfam02678 756499004141 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499004142 Coenzyme A binding pocket [chemical binding]; other site 756499004143 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 756499004144 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 756499004145 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 756499004146 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 756499004147 molybdopterin cofactor binding site; other site 756499004148 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 756499004149 putative molybdopterin cofactor binding site; other site 756499004150 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 756499004151 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 756499004152 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 756499004153 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 756499004154 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 756499004155 active site 756499004156 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 756499004157 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 756499004158 Walker A/P-loop; other site 756499004159 ATP binding site [chemical binding]; other site 756499004160 Q-loop/lid; other site 756499004161 ABC transporter signature motif; other site 756499004162 Walker B; other site 756499004163 D-loop; other site 756499004164 H-loop/switch region; other site 756499004165 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 756499004166 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 756499004167 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 756499004168 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 756499004169 dimerization interface [polypeptide binding]; other site 756499004170 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 756499004171 dimer interface [polypeptide binding]; other site 756499004172 phosphorylation site [posttranslational modification] 756499004173 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499004174 ATP binding site [chemical binding]; other site 756499004175 Mg2+ binding site [ion binding]; other site 756499004176 G-X-G motif; other site 756499004177 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499004178 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499004179 active site 756499004180 phosphorylation site [posttranslational modification] 756499004181 intermolecular recognition site; other site 756499004182 dimerization interface [polypeptide binding]; other site 756499004183 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 756499004184 DNA binding site [nucleotide binding] 756499004185 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 756499004186 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 756499004187 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 756499004188 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 756499004189 Ligand binding site; other site 756499004190 Putative Catalytic site; other site 756499004191 DXD motif; other site 756499004192 Transcriptional regulator [Transcription]; Region: LysR; COG0583 756499004193 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 756499004194 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 756499004195 putative dimerization interface [polypeptide binding]; other site 756499004196 LrgA family; Region: LrgA; cl00608 756499004197 LrgB-like family; Region: LrgB; pfam04172 756499004198 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 756499004199 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 756499004200 motif II; other site 756499004201 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 756499004202 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 756499004203 non-specific DNA binding site [nucleotide binding]; other site 756499004204 salt bridge; other site 756499004205 sequence-specific DNA binding site [nucleotide binding]; other site 756499004206 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 756499004207 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 756499004208 WHG domain; Region: WHG; pfam13305 756499004209 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 756499004210 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 756499004211 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499004212 Coenzyme A binding pocket [chemical binding]; other site 756499004213 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 756499004214 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 756499004215 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 756499004216 active site 756499004217 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 756499004218 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 756499004219 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 756499004220 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 756499004221 Transposase; Region: DEDD_Tnp_IS110; pfam01548 756499004222 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 756499004223 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499004224 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499004225 active site 756499004226 phosphorylation site [posttranslational modification] 756499004227 intermolecular recognition site; other site 756499004228 dimerization interface [polypeptide binding]; other site 756499004229 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 756499004230 DNA binding site [nucleotide binding] 756499004231 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499004232 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 756499004233 dimerization interface [polypeptide binding]; other site 756499004234 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 756499004235 dimer interface [polypeptide binding]; other site 756499004236 phosphorylation site [posttranslational modification] 756499004237 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499004238 ATP binding site [chemical binding]; other site 756499004239 Mg2+ binding site [ion binding]; other site 756499004240 G-X-G motif; other site 756499004241 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 756499004242 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 756499004243 dimerization interface [polypeptide binding]; other site 756499004244 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499004245 dimer interface [polypeptide binding]; other site 756499004246 putative CheW interface [polypeptide binding]; other site 756499004247 AAA domain; Region: AAA_21; pfam13304 756499004248 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499004249 Walker A/P-loop; other site 756499004250 ATP binding site [chemical binding]; other site 756499004251 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499004252 Walker B; other site 756499004253 D-loop; other site 756499004254 H-loop/switch region; other site 756499004255 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 756499004256 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 756499004257 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 756499004258 Domain of unknown function (DUF4073); Region: DUF4073; pfam13285 756499004259 Domain of unknown function (DUF4073); Region: DUF4073; pfam13285 756499004260 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 756499004261 active site 756499004262 catalytic site [active] 756499004263 Predicted membrane protein [Function unknown]; Region: COG2323 756499004264 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 756499004265 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499004266 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 756499004267 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 756499004268 molybdopterin cofactor binding site; other site 756499004269 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 756499004270 molybdopterin cofactor binding site; other site 756499004271 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 756499004272 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499004273 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 756499004274 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 756499004275 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 756499004276 molybdopterin cofactor binding site; other site 756499004277 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 756499004278 molybdopterin cofactor binding site; other site 756499004279 A new structural DNA glycosylase; Region: AlkD_like; cd06561 756499004280 active site 756499004281 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 756499004282 Part of AAA domain; Region: AAA_19; pfam13245 756499004283 Family description; Region: UvrD_C_2; pfam13538 756499004284 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 756499004285 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 756499004286 DNA binding residues [nucleotide binding] 756499004287 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 756499004288 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 756499004289 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 756499004290 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cd09846 756499004291 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 756499004292 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 756499004293 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 756499004294 Protein of unknown function (DUF2680); Region: DUF2680; pfam10925 756499004295 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 756499004296 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 756499004297 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 756499004298 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 756499004299 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 756499004300 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 756499004301 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 756499004302 Walker A/P-loop; other site 756499004303 ATP binding site [chemical binding]; other site 756499004304 Q-loop/lid; other site 756499004305 ABC transporter signature motif; other site 756499004306 Walker B; other site 756499004307 D-loop; other site 756499004308 H-loop/switch region; other site 756499004309 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 756499004310 Protein of unknown function (DUF2680); Region: DUF2680; pfam10925 756499004311 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 756499004312 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 756499004313 putative active site [active] 756499004314 metal binding site [ion binding]; metal-binding site 756499004315 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 756499004316 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 756499004317 NAD(P) binding site [chemical binding]; other site 756499004318 catalytic residues [active] 756499004319 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 756499004320 MarR family; Region: MarR_2; pfam12802 756499004321 MarR family; Region: MarR_2; cl17246 756499004322 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 756499004323 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 756499004324 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499004325 Walker A/P-loop; other site 756499004326 ATP binding site [chemical binding]; other site 756499004327 Q-loop/lid; other site 756499004328 ABC transporter signature motif; other site 756499004329 Walker B; other site 756499004330 D-loop; other site 756499004331 H-loop/switch region; other site 756499004332 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 756499004333 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 756499004334 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 756499004335 Walker A/P-loop; other site 756499004336 ATP binding site [chemical binding]; other site 756499004337 Q-loop/lid; other site 756499004338 ABC transporter signature motif; other site 756499004339 Walker B; other site 756499004340 D-loop; other site 756499004341 H-loop/switch region; other site 756499004342 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 756499004343 E3 interaction surface; other site 756499004344 lipoyl attachment site [posttranslational modification]; other site 756499004345 HlyD family secretion protein; Region: HlyD_3; pfam13437 756499004346 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 756499004347 HlyD family secretion protein; Region: HlyD_3; pfam13437 756499004348 MarR family; Region: MarR; pfam01047 756499004349 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 756499004350 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 756499004351 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 756499004352 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 756499004353 Predicted transcriptional regulators [Transcription]; Region: COG1695 756499004354 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 756499004355 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 756499004356 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 756499004357 Isochorismatase family; Region: Isochorismatase; pfam00857 756499004358 catalytic triad [active] 756499004359 conserved cis-peptide bond; other site 756499004360 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 756499004361 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 756499004362 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 756499004363 metal ion-dependent adhesion site (MIDAS); other site 756499004364 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 756499004365 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 756499004366 Walker A motif; other site 756499004367 ATP binding site [chemical binding]; other site 756499004368 Walker B motif; other site 756499004369 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 756499004370 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 756499004371 hexamer interface [polypeptide binding]; other site 756499004372 ligand binding site [chemical binding]; other site 756499004373 putative active site [active] 756499004374 NAD(P) binding site [chemical binding]; other site 756499004375 Methyltransferase domain; Region: Methyltransf_31; pfam13847 756499004376 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 756499004377 S-adenosylmethionine binding site [chemical binding]; other site 756499004378 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 756499004379 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 756499004380 MarR family; Region: MarR_2; pfam12802 756499004381 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 756499004382 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 756499004383 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 756499004384 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 756499004385 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 756499004386 FeS/SAM binding site; other site 756499004387 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 756499004388 homodimer interface [polypeptide binding]; other site 756499004389 chemical substrate binding site [chemical binding]; other site 756499004390 oligomer interface [polypeptide binding]; other site 756499004391 metal binding site [ion binding]; metal-binding site 756499004392 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 756499004393 Part of AAA domain; Region: AAA_19; pfam13245 756499004394 Uncharacterized conserved protein [Function unknown]; Region: COG3410 756499004395 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 756499004396 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 756499004397 non-specific DNA binding site [nucleotide binding]; other site 756499004398 salt bridge; other site 756499004399 sequence-specific DNA binding site [nucleotide binding]; other site 756499004400 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 756499004401 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 756499004402 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 756499004403 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 756499004404 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 756499004405 Ribosomal RNA adenine dimethylase; Region: RrnaAD; pfam00398 756499004406 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 756499004407 S-adenosylmethionine binding site [chemical binding]; other site 756499004408 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 756499004409 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 756499004410 dimer interface [polypeptide binding]; other site 756499004411 active site 756499004412 heme binding site [chemical binding]; other site 756499004413 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 756499004414 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 756499004415 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 756499004416 NAD(P) binding site [chemical binding]; other site 756499004417 active site 756499004418 Ribosomal RNA adenine dimethylase; Region: RrnaAD; pfam00398 756499004419 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 756499004420 S-adenosylmethionine binding site [chemical binding]; other site 756499004421 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 756499004422 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 756499004423 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 756499004424 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 756499004425 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 756499004426 DNA binding site [nucleotide binding] 756499004427 active site 756499004428 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499004429 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499004430 active site 756499004431 phosphorylation site [posttranslational modification] 756499004432 intermolecular recognition site; other site 756499004433 dimerization interface [polypeptide binding]; other site 756499004434 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 756499004435 DNA binding site [nucleotide binding] 756499004436 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499004437 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 756499004438 dimer interface [polypeptide binding]; other site 756499004439 phosphorylation site [posttranslational modification] 756499004440 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499004441 ATP binding site [chemical binding]; other site 756499004442 Mg2+ binding site [ion binding]; other site 756499004443 G-X-G motif; other site 756499004444 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 756499004445 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 756499004446 Walker A/P-loop; other site 756499004447 ATP binding site [chemical binding]; other site 756499004448 Q-loop/lid; other site 756499004449 ABC transporter signature motif; other site 756499004450 Walker B; other site 756499004451 D-loop; other site 756499004452 H-loop/switch region; other site 756499004453 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 756499004454 FtsX-like permease family; Region: FtsX; pfam02687 756499004455 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 756499004456 FtsX-like permease family; Region: FtsX; pfam02687 756499004457 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 756499004458 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 756499004459 active site 756499004460 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 756499004461 non-specific DNA binding site [nucleotide binding]; other site 756499004462 salt bridge; other site 756499004463 sequence-specific DNA binding site [nucleotide binding]; other site 756499004464 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 756499004465 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499004466 Zn2+ binding site [ion binding]; other site 756499004467 Mg2+ binding site [ion binding]; other site 756499004468 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 756499004469 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 756499004470 dimerization interface [polypeptide binding]; other site 756499004471 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 756499004472 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499004473 dimer interface [polypeptide binding]; other site 756499004474 putative CheW interface [polypeptide binding]; other site 756499004475 RNA polymerase factor sigma-70; Validated; Region: PRK06811 756499004476 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499004477 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 756499004478 DNA binding residues [nucleotide binding] 756499004479 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 756499004480 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 756499004481 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 756499004482 HlyD family secretion protein; Region: HlyD_3; pfam13437 756499004483 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 756499004484 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 756499004485 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 756499004486 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 756499004487 Walker A/P-loop; other site 756499004488 ATP binding site [chemical binding]; other site 756499004489 Q-loop/lid; other site 756499004490 ABC transporter signature motif; other site 756499004491 Walker B; other site 756499004492 D-loop; other site 756499004493 H-loop/switch region; other site 756499004494 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 756499004495 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 756499004496 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 756499004497 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 756499004498 Predicted transcriptional regulators [Transcription]; Region: COG1733 756499004499 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 756499004500 putative DNA binding site [nucleotide binding]; other site 756499004501 dimerization interface [polypeptide binding]; other site 756499004502 putative Zn2+ binding site [ion binding]; other site 756499004503 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 756499004504 active site 756499004505 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 756499004506 active site 756499004507 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 756499004508 S-adenosylmethionine binding site [chemical binding]; other site 756499004509 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 756499004510 Transposase; Region: DEDD_Tnp_IS110; pfam01548 756499004511 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 756499004512 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 756499004513 AAA domain; Region: AAA_33; pfam13671 756499004514 active site 756499004515 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 756499004516 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 756499004517 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 756499004518 Walker A motif; other site 756499004519 ATP binding site [chemical binding]; other site 756499004520 Walker B motif; other site 756499004521 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 756499004522 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 756499004523 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 756499004524 active site 756499004525 catalytic site [active] 756499004526 Bacterial transcriptional activator domain; Region: BTAD; smart01043 756499004527 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 756499004528 I-site; other site 756499004529 active site 756499004530 metal binding site [ion binding]; metal-binding site 756499004531 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 756499004532 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 756499004533 Domain of unknown function (DUF303); Region: DUF303; pfam03629 756499004534 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 756499004535 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 756499004536 SxDxEG motif; other site 756499004537 active site 756499004538 metal binding site [ion binding]; metal-binding site 756499004539 homopentamer interface [polypeptide binding]; other site 756499004540 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 756499004541 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 756499004542 RNA binding surface [nucleotide binding]; other site 756499004543 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 756499004544 active site 756499004545 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 756499004546 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 756499004547 ATP binding site [chemical binding]; other site 756499004548 Mg++ binding site [ion binding]; other site 756499004549 motif III; other site 756499004550 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 756499004551 nucleotide binding region [chemical binding]; other site 756499004552 ATP-binding site [chemical binding]; other site 756499004553 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; cl00364 756499004554 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 756499004555 Methyltransferase domain; Region: Methyltransf_24; pfam13578 756499004556 aminoglycoside resistance protein; Provisional; Region: PRK13746 756499004557 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 756499004558 active site 756499004559 NTP binding site [chemical binding]; other site 756499004560 metal binding triad [ion binding]; metal-binding site 756499004561 antibiotic binding site [chemical binding]; other site 756499004562 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 756499004563 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 756499004564 dimer interface [polypeptide binding]; other site 756499004565 putative tRNA-binding site [nucleotide binding]; other site 756499004566 Domain of unknown function (DUF3841); Region: DUF3841; pfam12952 756499004567 short chain dehydrogenase; Provisional; Region: PRK08263 756499004568 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 756499004569 NADP binding site [chemical binding]; other site 756499004570 active site 756499004571 steroid binding site; other site 756499004572 Predicted transcriptional regulators [Transcription]; Region: COG1733 756499004573 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 756499004574 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 756499004575 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 756499004576 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 756499004577 active site 756499004578 metal binding site [ion binding]; metal-binding site 756499004579 Domain of unknown function DUF87; Region: DUF87; pfam01935 756499004580 AAA-like domain; Region: AAA_10; pfam12846 756499004581 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499004582 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499004583 active site 756499004584 phosphorylation site [posttranslational modification] 756499004585 intermolecular recognition site; other site 756499004586 Protein of unknown function (DUF554); Region: DUF554; pfam04474 756499004587 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 756499004588 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 756499004589 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499004590 4Fe-4S binding domain; Region: Fer4; cl02805 756499004591 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 756499004592 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 756499004593 putative [4Fe-4S] binding site [ion binding]; other site 756499004594 putative molybdopterin cofactor binding site [chemical binding]; other site 756499004595 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 756499004596 molybdopterin cofactor binding site; other site 756499004597 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 756499004598 The MopB_4 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_4; cd02765 756499004599 putative [4Fe-4S] binding site [ion binding]; other site 756499004600 putative molybdopterin cofactor binding site [chemical binding]; other site 756499004601 The MopB_CT_4 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. This CD is...; Region: MopB_CT_4; cd02785 756499004602 putative molybdopterin cofactor binding site; other site 756499004603 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 756499004604 4Fe-4S binding domain; Region: Fer4; pfam00037 756499004605 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 756499004606 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 756499004607 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 756499004608 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 756499004609 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 756499004610 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 756499004611 putative [4Fe-4S] binding site [ion binding]; other site 756499004612 putative molybdopterin cofactor binding site [chemical binding]; other site 756499004613 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 756499004614 molybdopterin cofactor binding site; other site 756499004615 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499004616 4Fe-4S binding domain; Region: Fer4; cl02805 756499004617 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 756499004618 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 756499004619 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 756499004620 tetrathionate reductase subunit C; Provisional; Region: PRK14992 756499004621 FMN-binding domain; Region: FMN_bind; pfam04205 756499004622 4Fe-4S binding domain; Region: Fer4_5; pfam12801 756499004623 4Fe-4S binding domain; Region: Fer4_5; pfam12801 756499004624 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 756499004625 active site 756499004626 DNA binding site [nucleotide binding] 756499004627 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 756499004628 active site 1 [active] 756499004629 dimer interface [polypeptide binding]; other site 756499004630 hexamer interface [polypeptide binding]; other site 756499004631 active site 2 [active] 756499004632 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 756499004633 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 756499004634 AP (apurinic/apyrimidinic) site pocket; other site 756499004635 DNA interaction; other site 756499004636 Metal-binding active site; metal-binding site 756499004637 GEMM cis-regulatory element; Desde_1725 756499004638 stage V sporulation protein K; Region: spore_V_K; TIGR02881 756499004639 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 756499004640 Walker A motif; other site 756499004641 ATP binding site [chemical binding]; other site 756499004642 Walker B motif; other site 756499004643 arginine finger; other site 756499004644 CmuC_like. Proteins similar to the putative corrinoid methyltransferase CmuC. Its function has been inferred from sequence similarity to the methyltransferases CmuA and MtaA. Mutants of Methylobacterium sp. disrupted in cmuC and purU appear deficient in...; Region: CmuC_like; cd03309 756499004645 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 756499004646 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 756499004647 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 756499004648 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 756499004649 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 756499004650 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 756499004651 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 756499004652 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 756499004653 Fe-S cluster binding site [ion binding]; other site 756499004654 active site 756499004655 Domain of unknown function (DUF4309); Region: DUF4309; pfam14172 756499004656 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 756499004657 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 756499004658 NAD(P) binding site [chemical binding]; other site 756499004659 active site 756499004660 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 756499004661 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 756499004662 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 756499004663 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 756499004664 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 756499004665 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 756499004666 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 756499004667 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 756499004668 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 756499004669 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 756499004670 active site 756499004671 tetramer interface; other site 756499004672 phosphoenolpyruvate synthase; Validated; Region: PRK06241 756499004673 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 756499004674 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 756499004675 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 756499004676 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 756499004677 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499004678 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499004679 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; cl07446 756499004680 EamA-like transporter family; Region: EamA; pfam00892 756499004681 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 756499004682 EamA-like transporter family; Region: EamA; pfam00892 756499004683 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_8; cd07246 756499004684 putative dimer interface [polypeptide binding]; other site 756499004685 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 756499004686 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 756499004687 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 756499004688 Walker A/P-loop; other site 756499004689 ATP binding site [chemical binding]; other site 756499004690 Q-loop/lid; other site 756499004691 ABC transporter signature motif; other site 756499004692 Walker B; other site 756499004693 D-loop; other site 756499004694 H-loop/switch region; other site 756499004695 Predicted transcriptional regulators [Transcription]; Region: COG1695 756499004696 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 756499004697 Domain of unknown function (DUF4310); Region: DUF4310; cl11918 756499004698 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499004699 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499004700 active site 756499004701 phosphorylation site [posttranslational modification] 756499004702 intermolecular recognition site; other site 756499004703 dimerization interface [polypeptide binding]; other site 756499004704 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 756499004705 DNA binding site [nucleotide binding] 756499004706 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499004707 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 756499004708 dimer interface [polypeptide binding]; other site 756499004709 phosphorylation site [posttranslational modification] 756499004710 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499004711 ATP binding site [chemical binding]; other site 756499004712 Mg2+ binding site [ion binding]; other site 756499004713 G-X-G motif; other site 756499004714 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 756499004715 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 756499004716 A new structural DNA glycosylase; Region: AlkD_like; cd06561 756499004717 active site 756499004718 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 756499004719 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 756499004720 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 756499004721 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 756499004722 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 756499004723 catalytic triad [active] 756499004724 catalytic triad [active] 756499004725 oxyanion hole [active] 756499004726 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499004727 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499004728 active site 756499004729 phosphorylation site [posttranslational modification] 756499004730 intermolecular recognition site; other site 756499004731 dimerization interface [polypeptide binding]; other site 756499004732 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 756499004733 DNA binding site [nucleotide binding] 756499004734 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499004735 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 756499004736 dimerization interface [polypeptide binding]; other site 756499004737 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 756499004738 dimer interface [polypeptide binding]; other site 756499004739 phosphorylation site [posttranslational modification] 756499004740 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499004741 ATP binding site [chemical binding]; other site 756499004742 Mg2+ binding site [ion binding]; other site 756499004743 G-X-G motif; other site 756499004744 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 756499004745 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 756499004746 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 756499004747 FeS/SAM binding site; other site 756499004748 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 756499004749 PAS domain; Region: PAS_9; pfam13426 756499004750 putative active site [active] 756499004751 heme pocket [chemical binding]; other site 756499004752 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 756499004753 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 756499004754 Walker A motif; other site 756499004755 ATP binding site [chemical binding]; other site 756499004756 Walker B motif; other site 756499004757 arginine finger; other site 756499004758 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 756499004759 enoyl-CoA hydratase; Provisional; Region: PRK05862 756499004760 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 756499004761 substrate binding site [chemical binding]; other site 756499004762 oxyanion hole (OAH) forming residues; other site 756499004763 trimer interface [polypeptide binding]; other site 756499004764 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 756499004765 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 756499004766 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 756499004767 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 756499004768 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 756499004769 active site 756499004770 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 756499004771 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 756499004772 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 756499004773 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 756499004774 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 756499004775 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 756499004776 acyl-activating enzyme (AAE) consensus motif; other site 756499004777 putative AMP binding site [chemical binding]; other site 756499004778 putative active site [active] 756499004779 putative CoA binding site [chemical binding]; other site 756499004780 Uncharacterized conserved protein [Function unknown]; Region: COG2006 756499004781 Domain of unknown function (DUF362); Region: DUF362; pfam04015 756499004782 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 756499004783 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 756499004784 G1 box; other site 756499004785 putative GEF interaction site [polypeptide binding]; other site 756499004786 GTP/Mg2+ binding site [chemical binding]; other site 756499004787 Switch I region; other site 756499004788 G2 box; other site 756499004789 G3 box; other site 756499004790 Switch II region; other site 756499004791 G4 box; other site 756499004792 G5 box; other site 756499004793 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 756499004794 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit...; Region: Tet_like_IV; cd01684 756499004795 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 756499004796 YacP-like NYN domain; Region: NYN_YacP; pfam05991 756499004797 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 756499004798 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 756499004799 catalytic residue [active] 756499004800 Transcriptional regulator [Transcription]; Region: LysR; COG0583 756499004801 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 756499004802 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 756499004803 dimerization interface [polypeptide binding]; other site 756499004804 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 756499004805 dimerization interface [polypeptide binding]; other site 756499004806 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499004807 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 756499004808 dimer interface [polypeptide binding]; other site 756499004809 phosphorylation site [posttranslational modification] 756499004810 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499004811 ATP binding site [chemical binding]; other site 756499004812 Mg2+ binding site [ion binding]; other site 756499004813 G-X-G motif; other site 756499004814 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499004815 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499004816 active site 756499004817 phosphorylation site [posttranslational modification] 756499004818 intermolecular recognition site; other site 756499004819 dimerization interface [polypeptide binding]; other site 756499004820 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 756499004821 DNA binding site [nucleotide binding] 756499004822 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 756499004823 homodimer interaction site [polypeptide binding]; other site 756499004824 cofactor binding site; other site 756499004825 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 756499004826 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499004827 SCP-2 sterol transfer family; Region: SCP2; pfam02036 756499004828 MarR family; Region: MarR_2; pfam12802 756499004829 MarR family; Region: MarR_2; cl17246 756499004830 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 756499004831 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 756499004832 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499004833 Walker A/P-loop; other site 756499004834 ATP binding site [chemical binding]; other site 756499004835 Q-loop/lid; other site 756499004836 ABC transporter signature motif; other site 756499004837 Walker B; other site 756499004838 D-loop; other site 756499004839 H-loop/switch region; other site 756499004840 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 756499004841 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 756499004842 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 756499004843 Walker A/P-loop; other site 756499004844 ATP binding site [chemical binding]; other site 756499004845 Q-loop/lid; other site 756499004846 ABC transporter signature motif; other site 756499004847 Walker B; other site 756499004848 D-loop; other site 756499004849 H-loop/switch region; other site 756499004850 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 756499004851 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 756499004852 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 756499004853 Putative water exit pathway; other site 756499004854 Putative proton exit pathway; other site 756499004855 Cytochrome c; Region: Cytochrom_C; pfam00034 756499004856 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 756499004857 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 756499004858 TM-ABC transporter signature motif; other site 756499004859 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 756499004860 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 756499004861 TM-ABC transporter signature motif; other site 756499004862 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 756499004863 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 756499004864 Walker A/P-loop; other site 756499004865 ATP binding site [chemical binding]; other site 756499004866 Q-loop/lid; other site 756499004867 ABC transporter signature motif; other site 756499004868 Walker B; other site 756499004869 D-loop; other site 756499004870 H-loop/switch region; other site 756499004871 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 756499004872 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 756499004873 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 756499004874 ligand binding site [chemical binding]; other site 756499004875 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 756499004876 Ferritin-like domain; Region: Ferritin; pfam00210 756499004877 ferroxidase diiron center [ion binding]; other site 756499004878 Uncharacterized conserved protein [Function unknown]; Region: COG0398 756499004879 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 756499004880 Hemerythrin; Region: Hemerythrin; cd12107 756499004881 Fe binding site [ion binding]; other site 756499004882 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 756499004883 Glucosyl transferase GtrII; Region: Glucos_trans_II; cl10304 756499004884 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 756499004885 PAS domain; Region: PAS_9; pfam13426 756499004886 putative active site [active] 756499004887 heme pocket [chemical binding]; other site 756499004888 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 756499004889 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 756499004890 metal binding site [ion binding]; metal-binding site 756499004891 active site 756499004892 I-site; other site 756499004893 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 756499004894 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499004895 Zn2+ binding site [ion binding]; other site 756499004896 Mg2+ binding site [ion binding]; other site 756499004897 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 756499004898 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 756499004899 Uncharacterized conserved protein [Function unknown]; Region: COG1284 756499004900 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 756499004901 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 756499004902 ArsC family; Region: ArsC; pfam03960 756499004903 putative ArsC-like catalytic residues; other site 756499004904 putative TRX-like catalytic residues [active] 756499004905 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 756499004906 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 756499004907 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499004908 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 756499004909 DNA binding residues [nucleotide binding] 756499004910 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499004911 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499004912 PAS domain; Region: PAS_10; pfam13596 756499004913 Predicted transcriptional regulators [Transcription]; Region: COG1725 756499004914 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 756499004915 DNA-binding site [nucleotide binding]; DNA binding site 756499004916 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 756499004917 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 756499004918 Walker A/P-loop; other site 756499004919 ATP binding site [chemical binding]; other site 756499004920 Q-loop/lid; other site 756499004921 ABC transporter signature motif; other site 756499004922 Walker B; other site 756499004923 D-loop; other site 756499004924 H-loop/switch region; other site 756499004925 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 756499004926 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 756499004927 Spore germination protein; Region: Spore_permease; cl17796 756499004928 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 756499004929 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 756499004930 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 756499004931 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 756499004932 putative substrate translocation pore; other site 756499004933 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 756499004934 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 756499004935 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 756499004936 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 756499004937 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 756499004938 catalytic residues [active] 756499004939 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 756499004940 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 756499004941 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 756499004942 dimerization interface [polypeptide binding]; other site 756499004943 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 756499004944 dimer interface [polypeptide binding]; other site 756499004945 phosphorylation site [posttranslational modification] 756499004946 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499004947 ATP binding site [chemical binding]; other site 756499004948 Mg2+ binding site [ion binding]; other site 756499004949 G-X-G motif; other site 756499004950 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499004951 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499004952 active site 756499004953 phosphorylation site [posttranslational modification] 756499004954 intermolecular recognition site; other site 756499004955 dimerization interface [polypeptide binding]; other site 756499004956 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 756499004957 DNA binding site [nucleotide binding] 756499004958 Protein of unknown function (DUF2680); Region: DUF2680; pfam10925 756499004959 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 756499004960 ligand binding site [chemical binding]; other site 756499004961 active site 756499004962 UGI interface [polypeptide binding]; other site 756499004963 catalytic site [active] 756499004964 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 756499004965 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 756499004966 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 756499004967 metal binding site [ion binding]; metal-binding site 756499004968 active site 756499004969 I-site; other site 756499004970 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 756499004971 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 756499004972 active site 756499004973 8-oxo-dGMP binding site [chemical binding]; other site 756499004974 nudix motif; other site 756499004975 metal binding site [ion binding]; metal-binding site 756499004976 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 756499004977 EamA-like transporter family; Region: EamA; pfam00892 756499004978 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 756499004979 Rubrerythrin [Energy production and conversion]; Region: COG1592 756499004980 binuclear metal center [ion binding]; other site 756499004981 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 756499004982 iron binding site [ion binding]; other site 756499004983 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 756499004984 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 756499004985 substrate binding pocket [chemical binding]; other site 756499004986 membrane-bound complex binding site; other site 756499004987 hinge residues; other site 756499004988 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 756499004989 dimer interface [polypeptide binding]; other site 756499004990 conserved gate region; other site 756499004991 putative PBP binding loops; other site 756499004992 ABC-ATPase subunit interface; other site 756499004993 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 756499004994 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 756499004995 Walker A/P-loop; other site 756499004996 ATP binding site [chemical binding]; other site 756499004997 Q-loop/lid; other site 756499004998 ABC transporter signature motif; other site 756499004999 Walker B; other site 756499005000 D-loop; other site 756499005001 H-loop/switch region; other site 756499005002 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 756499005003 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 756499005004 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 756499005005 Walker A/P-loop; other site 756499005006 ATP binding site [chemical binding]; other site 756499005007 Q-loop/lid; other site 756499005008 ABC transporter signature motif; other site 756499005009 Walker B; other site 756499005010 D-loop; other site 756499005011 H-loop/switch region; other site 756499005012 Predicted membrane protein [Function unknown]; Region: COG1971 756499005013 Domain of unknown function DUF; Region: DUF204; pfam02659 756499005014 Domain of unknown function DUF; Region: DUF204; pfam02659 756499005015 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499005016 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499005017 active site 756499005018 phosphorylation site [posttranslational modification] 756499005019 intermolecular recognition site; other site 756499005020 dimerization interface [polypeptide binding]; other site 756499005021 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 756499005022 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 756499005023 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 756499005024 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 756499005025 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 756499005026 metal-binding site [ion binding] 756499005027 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 756499005028 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 756499005029 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 756499005030 Soluble P-type ATPase [General function prediction only]; Region: COG4087 756499005031 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 756499005032 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 756499005033 ligand binding site [chemical binding]; other site 756499005034 flexible hinge region; other site 756499005035 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 756499005036 putative switch regulator; other site 756499005037 non-specific DNA interactions [nucleotide binding]; other site 756499005038 DNA binding site [nucleotide binding] 756499005039 sequence specific DNA binding site [nucleotide binding]; other site 756499005040 putative cAMP binding site [chemical binding]; other site 756499005041 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 756499005042 Predicted flavoprotein [General function prediction only]; Region: COG0431 756499005043 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 756499005044 Uncharacterized conserved protein [Function unknown]; Region: COG1633 756499005045 diiron binding motif [ion binding]; other site 756499005046 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 756499005047 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 756499005048 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 756499005049 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 756499005050 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 756499005051 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 756499005052 dimer interface [polypeptide binding]; other site 756499005053 conserved gate region; other site 756499005054 putative PBP binding loops; other site 756499005055 ABC-ATPase subunit interface; other site 756499005056 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 756499005057 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 756499005058 Walker A/P-loop; other site 756499005059 ATP binding site [chemical binding]; other site 756499005060 Q-loop/lid; other site 756499005061 ABC transporter signature motif; other site 756499005062 Walker B; other site 756499005063 D-loop; other site 756499005064 H-loop/switch region; other site 756499005065 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 756499005066 aspartate aminotransferase; Provisional; Region: PRK06836 756499005067 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 756499005068 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499005069 homodimer interface [polypeptide binding]; other site 756499005070 catalytic residue [active] 756499005071 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499005072 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499005073 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499005074 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 756499005075 PAS fold; Region: PAS; pfam00989 756499005076 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 756499005077 putative active site [active] 756499005078 heme pocket [chemical binding]; other site 756499005079 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 756499005080 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 756499005081 metal binding site [ion binding]; metal-binding site 756499005082 active site 756499005083 I-site; other site 756499005084 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 756499005085 EDD domain protein, DegV family; Region: DegV; TIGR00762 756499005086 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 756499005087 Transcriptional regulator [Transcription]; Region: LysR; COG0583 756499005088 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 756499005089 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 756499005090 dimerization interface [polypeptide binding]; other site 756499005091 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 756499005092 Molybdopterin oxidoreductase Fe4S4 domain; Region: Molybdop_Fe4S4; smart00926 756499005093 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 756499005094 molybdopterin cofactor binding site; other site 756499005095 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 756499005096 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 756499005097 4Fe-4S binding domain; Region: Fer4; cl02805 756499005098 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 756499005099 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 756499005100 CIMS - Cobalamine-independent methonine synthase, or MetE. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in...; Region: CIMS_like; cd03310 756499005101 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 756499005102 Helix-turn-helix domain; Region: HTH_18; pfam12833 756499005103 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 756499005104 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 756499005105 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499005106 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499005107 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499005108 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 756499005109 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 756499005110 active site 756499005111 metal binding site [ion binding]; metal-binding site 756499005112 Penicillinase repressor; Region: Pencillinase_R; cl17580 756499005113 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 756499005114 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 756499005115 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 756499005116 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 756499005117 DNA-binding site [nucleotide binding]; DNA binding site 756499005118 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 756499005119 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499005120 homodimer interface [polypeptide binding]; other site 756499005121 catalytic residue [active] 756499005122 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 756499005123 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 756499005124 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 756499005125 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 756499005126 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 756499005127 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 756499005128 molybdopterin cofactor binding site; other site 756499005129 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 756499005130 molybdopterin cofactor binding site; other site 756499005131 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499005132 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 756499005133 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 756499005134 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499005135 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 756499005136 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 756499005137 molybdopterin cofactor binding site; other site 756499005138 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 756499005139 molybdopterin cofactor binding site; other site 756499005140 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 756499005141 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 756499005142 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 756499005143 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499005144 FMN-binding domain; Region: FMN_bind; pfam04205 756499005145 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 756499005146 4Fe-4S binding domain; Region: Fer4_5; pfam12801 756499005147 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 756499005148 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 756499005149 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499005150 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 756499005151 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 756499005152 molybdopterin cofactor binding site; other site 756499005153 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 756499005154 molybdopterin cofactor binding site; other site 756499005155 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 756499005156 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 756499005157 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 756499005158 putative [4Fe-4S] binding site [ion binding]; other site 756499005159 putative molybdopterin cofactor binding site [chemical binding]; other site 756499005160 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 756499005161 molybdopterin cofactor binding site; other site 756499005162 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499005163 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 756499005164 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 756499005165 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 756499005166 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 756499005167 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 756499005168 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 756499005169 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 756499005170 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 756499005171 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 756499005172 molybdopterin cofactor binding site; other site 756499005173 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 756499005174 molybdopterin cofactor binding site; other site 756499005175 Transcriptional regulators [Transcription]; Region: FadR; COG2186 756499005176 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 756499005177 DNA-binding site [nucleotide binding]; DNA binding site 756499005178 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 756499005179 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 756499005180 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 756499005181 nucleotide binding site [chemical binding]; other site 756499005182 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 756499005183 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 756499005184 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 756499005185 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 756499005186 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 756499005187 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 756499005188 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 756499005189 Soluble P-type ATPase [General function prediction only]; Region: COG4087 756499005190 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 756499005191 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 756499005192 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 756499005193 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 756499005194 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499005195 Coenzyme A binding pocket [chemical binding]; other site 756499005196 EDD domain protein, DegV family; Region: DegV; TIGR00762 756499005197 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 756499005198 Methyltransferase domain; Region: Methyltransf_31; pfam13847 756499005199 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 756499005200 S-adenosylmethionine binding site [chemical binding]; other site 756499005201 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 756499005202 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 756499005203 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 756499005204 catalytic residue [active] 756499005205 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 756499005206 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 756499005207 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 756499005208 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 756499005209 active site 756499005210 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 756499005211 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 756499005212 putative lipid kinase; Reviewed; Region: PRK13059 756499005213 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 756499005214 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 756499005215 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 756499005216 active site 756499005217 NTP binding site [chemical binding]; other site 756499005218 metal binding triad [ion binding]; metal-binding site 756499005219 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 756499005220 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 756499005221 Rubredoxin [Energy production and conversion]; Region: COG1773 756499005222 iron binding site [ion binding]; other site 756499005223 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 756499005224 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 756499005225 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 756499005226 Uncharacterized conserved protein [Function unknown]; Region: COG3339 756499005227 Predicted membrane protein [Function unknown]; Region: COG2323 756499005228 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 756499005229 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499005230 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499005231 active site 756499005232 phosphorylation site [posttranslational modification] 756499005233 intermolecular recognition site; other site 756499005234 dimerization interface [polypeptide binding]; other site 756499005235 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 756499005236 DNA binding site [nucleotide binding] 756499005237 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499005238 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 756499005239 dimerization interface [polypeptide binding]; other site 756499005240 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 756499005241 dimer interface [polypeptide binding]; other site 756499005242 phosphorylation site [posttranslational modification] 756499005243 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499005244 ATP binding site [chemical binding]; other site 756499005245 Mg2+ binding site [ion binding]; other site 756499005246 G-X-G motif; other site 756499005247 hypothetical protein; Validated; Region: PRK07682 756499005248 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 756499005249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499005250 homodimer interface [polypeptide binding]; other site 756499005251 catalytic residue [active] 756499005252 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 756499005253 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 756499005254 AsnC family; Region: AsnC_trans_reg; pfam01037 756499005255 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 756499005256 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 756499005257 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 756499005258 Mg++ binding site [ion binding]; other site 756499005259 putative catalytic motif [active] 756499005260 substrate binding site [chemical binding]; other site 756499005261 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 756499005262 metal-dependent hydrolase; Provisional; Region: PRK00685 756499005263 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 756499005264 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 756499005265 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 756499005266 DNA-binding site [nucleotide binding]; DNA binding site 756499005267 DRTGG domain; Region: DRTGG; pfam07085 756499005268 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 756499005269 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 756499005270 active site 2 [active] 756499005271 active site 1 [active] 756499005272 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 756499005273 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 756499005274 active site 756499005275 PHP Thumb interface [polypeptide binding]; other site 756499005276 metal binding site [ion binding]; metal-binding site 756499005277 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 756499005278 generic binding surface II; other site 756499005279 generic binding surface I; other site 756499005280 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 756499005281 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 756499005282 active site 756499005283 (T/H)XGH motif; other site 756499005284 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 756499005285 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 756499005286 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 756499005287 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 756499005288 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 756499005289 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 756499005290 Transposase; Region: DEDD_Tnp_IS110; pfam01548 756499005291 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 756499005292 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 756499005293 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; cl00038 756499005294 hypothetical protein; Provisional; Region: PRK10621 756499005295 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 756499005296 Transcriptional regulator [Transcription]; Region: LysR; COG0583 756499005297 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 756499005298 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 756499005299 dimerization interface [polypeptide binding]; other site 756499005300 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499005301 Coenzyme A binding pocket [chemical binding]; other site 756499005302 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 756499005303 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 756499005304 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 756499005305 substrate binding site [chemical binding]; other site 756499005306 tetramer interface [polypeptide binding]; other site 756499005307 catalytic residue [active] 756499005308 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 756499005309 homotrimer interaction site [polypeptide binding]; other site 756499005310 putative active site [active] 756499005311 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499005312 Zn2+ binding site [ion binding]; other site 756499005313 Mg2+ binding site [ion binding]; other site 756499005314 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 756499005315 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499005316 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 756499005317 DNA binding residues [nucleotide binding] 756499005318 Putative zinc-finger; Region: zf-HC2; pfam13490 756499005319 Putative zinc-finger; Region: zf-HC2; pfam13490 756499005320 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 756499005321 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499005322 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 756499005323 DNA binding residues [nucleotide binding] 756499005324 DNA polymerase I; Provisional; Region: PRK05755 756499005325 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 756499005326 active site 756499005327 metal binding site 1 [ion binding]; metal-binding site 756499005328 putative 5' ssDNA interaction site; other site 756499005329 metal binding site 3; metal-binding site 756499005330 metal binding site 2 [ion binding]; metal-binding site 756499005331 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 756499005332 putative DNA binding site [nucleotide binding]; other site 756499005333 putative metal binding site [ion binding]; other site 756499005334 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 756499005335 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 756499005336 active site 756499005337 DNA binding site [nucleotide binding] 756499005338 catalytic site [active] 756499005339 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 756499005340 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 756499005341 DNA binding site [nucleotide binding] 756499005342 catalytic residue [active] 756499005343 H2TH interface [polypeptide binding]; other site 756499005344 putative catalytic residues [active] 756499005345 turnover-facilitating residue; other site 756499005346 intercalation triad [nucleotide binding]; other site 756499005347 8OG recognition residue [nucleotide binding]; other site 756499005348 putative reading head residues; other site 756499005349 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 756499005350 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 756499005351 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 756499005352 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499005353 Walker A/P-loop; other site 756499005354 ATP binding site [chemical binding]; other site 756499005355 Q-loop/lid; other site 756499005356 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 756499005357 ABC transporter signature motif; other site 756499005358 Walker B; other site 756499005359 D-loop; other site 756499005360 ABC transporter; Region: ABC_tran_2; pfam12848 756499005361 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 756499005362 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 756499005363 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 756499005364 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 756499005365 CoA-binding site [chemical binding]; other site 756499005366 ATP-binding [chemical binding]; other site 756499005367 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 756499005368 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 756499005369 N-acetyl-D-glucosamine binding site [chemical binding]; other site 756499005370 catalytic residue [active] 756499005371 Predicted transcriptional regulators [Transcription]; Region: COG1695 756499005372 Transcriptional regulator PadR-like family; Region: PadR; cl17335 756499005373 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 756499005374 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 756499005375 chorismate binding enzyme; Region: Chorismate_bind; cl10555 756499005376 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 756499005377 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 756499005378 dimer interface [polypeptide binding]; other site 756499005379 tetramer interface [polypeptide binding]; other site 756499005380 PYR/PP interface [polypeptide binding]; other site 756499005381 TPP binding site [chemical binding]; other site 756499005382 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 756499005383 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 756499005384 TPP-binding site; other site 756499005385 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 756499005386 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 756499005387 substrate binding site [chemical binding]; other site 756499005388 oxyanion hole (OAH) forming residues; other site 756499005389 trimer interface [polypeptide binding]; other site 756499005390 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 756499005391 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 756499005392 acyl-activating enzyme (AAE) consensus motif; other site 756499005393 putative AMP binding site [chemical binding]; other site 756499005394 putative active site [active] 756499005395 putative CoA binding site [chemical binding]; other site 756499005396 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 756499005397 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 756499005398 metal binding site [ion binding]; metal-binding site 756499005399 substrate binding pocket [chemical binding]; other site 756499005400 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 756499005401 active site residue [active] 756499005402 4Fe-4S binding domain; Region: Fer4; cl02805 756499005403 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 756499005404 salt bridge; other site 756499005405 non-specific DNA binding site [nucleotide binding]; other site 756499005406 sequence-specific DNA binding site [nucleotide binding]; other site 756499005407 homoserine kinase; Provisional; Region: PRK01212 756499005408 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 756499005409 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 756499005410 homoserine dehydrogenase; Provisional; Region: PRK06349 756499005411 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 756499005412 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 756499005413 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 756499005414 ykkC-yxkD leader; Desde_1971 756499005415 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 756499005416 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 756499005417 homodimer interface [polypeptide binding]; other site 756499005418 substrate-cofactor binding pocket; other site 756499005419 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499005420 catalytic residue [active] 756499005421 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 756499005422 6-phosphogluconate dehydratase; Region: edd; TIGR01196 756499005423 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 756499005424 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 756499005425 PYR/PP interface [polypeptide binding]; other site 756499005426 dimer interface [polypeptide binding]; other site 756499005427 TPP binding site [chemical binding]; other site 756499005428 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 756499005429 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 756499005430 TPP-binding site [chemical binding]; other site 756499005431 dimer interface [polypeptide binding]; other site 756499005432 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 756499005433 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 756499005434 putative valine binding site [chemical binding]; other site 756499005435 dimer interface [polypeptide binding]; other site 756499005436 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 756499005437 ketol-acid reductoisomerase; Provisional; Region: PRK05479 756499005438 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 756499005439 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 756499005440 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 756499005441 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 756499005442 substrate binding site [chemical binding]; other site 756499005443 ligand binding site [chemical binding]; other site 756499005444 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 756499005445 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 756499005446 substrate binding site [chemical binding]; other site 756499005447 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 756499005448 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 756499005449 tartrate dehydrogenase; Region: TTC; TIGR02089 756499005450 Domain of unknown function (DUF4317); Region: DUF4317; pfam14199 756499005451 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 756499005452 non-specific DNA binding site [nucleotide binding]; other site 756499005453 salt bridge; other site 756499005454 sequence-specific DNA binding site [nucleotide binding]; other site 756499005455 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 756499005456 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 756499005457 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 756499005458 Walker A/P-loop; other site 756499005459 ATP binding site [chemical binding]; other site 756499005460 Q-loop/lid; other site 756499005461 ABC transporter signature motif; other site 756499005462 Walker B; other site 756499005463 D-loop; other site 756499005464 H-loop/switch region; other site 756499005465 SWIM zinc finger; Region: SWIM; pfam04434 756499005466 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 756499005467 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 756499005468 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 756499005469 ATP binding site [chemical binding]; other site 756499005470 putative Mg++ binding site [ion binding]; other site 756499005471 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 756499005472 nucleotide binding region [chemical binding]; other site 756499005473 ATP-binding site [chemical binding]; other site 756499005474 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 756499005475 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 756499005476 gamma-glutamyl kinase; Provisional; Region: PRK05429 756499005477 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 756499005478 nucleotide binding site [chemical binding]; other site 756499005479 homotetrameric interface [polypeptide binding]; other site 756499005480 putative phosphate binding site [ion binding]; other site 756499005481 putative allosteric binding site; other site 756499005482 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 756499005483 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 756499005484 putative catalytic cysteine [active] 756499005485 GAF domain; Region: GAF_2; pfam13185 756499005486 GAF domain; Region: GAF_3; pfam13492 756499005487 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499005488 Histidine kinase; Region: HisKA_3; pfam07730 756499005489 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499005490 ATP binding site [chemical binding]; other site 756499005491 Mg2+ binding site [ion binding]; other site 756499005492 G-X-G motif; other site 756499005493 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 756499005494 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499005495 active site 756499005496 phosphorylation site [posttranslational modification] 756499005497 intermolecular recognition site; other site 756499005498 dimerization interface [polypeptide binding]; other site 756499005499 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 756499005500 DNA binding residues [nucleotide binding] 756499005501 dimerization interface [polypeptide binding]; other site 756499005502 Response regulator receiver domain; Region: Response_reg; pfam00072 756499005503 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 756499005504 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 756499005505 molybdopterin cofactor binding site; other site 756499005506 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 756499005507 molybdopterin cofactor binding site; other site 756499005508 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499005509 4Fe-4S binding domain; Region: Fer4; pfam00037 756499005510 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 756499005511 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 756499005512 Histidine kinase; Region: HisKA_3; pfam07730 756499005513 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499005514 ATP binding site [chemical binding]; other site 756499005515 Mg2+ binding site [ion binding]; other site 756499005516 G-X-G motif; other site 756499005517 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 756499005518 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499005519 active site 756499005520 phosphorylation site [posttranslational modification] 756499005521 intermolecular recognition site; other site 756499005522 dimerization interface [polypeptide binding]; other site 756499005523 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 756499005524 DNA binding residues [nucleotide binding] 756499005525 dimerization interface [polypeptide binding]; other site 756499005526 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 756499005527 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 756499005528 active site 756499005529 phosphorylation site [posttranslational modification] 756499005530 intermolecular recognition site; other site 756499005531 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 756499005532 DMSO reductase family type II enzyme, molybdopterin subunit; Region: DMSO_red_II_alp; TIGR03479 756499005533 molybdopterin cofactor binding site; other site 756499005534 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 756499005535 molybdopterin cofactor binding site; other site 756499005536 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499005537 4Fe-4S binding domain; Region: Fer4; pfam00037 756499005538 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 756499005539 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 756499005540 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 756499005541 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 756499005542 Ferredoxin [Energy production and conversion]; Region: COG1146 756499005543 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 756499005544 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 756499005545 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 756499005546 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 756499005547 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499005548 Uncharacterized conserved protein [Function unknown]; Region: COG1633 756499005549 Manganese catalase-like protein, ferritin-like diiron-binding domain; Region: Mn_catalase_like; cd07908 756499005550 dinuclear metal binding motif [ion binding]; other site 756499005551 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 756499005552 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 756499005553 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 756499005554 substrate binding site [chemical binding]; other site 756499005555 multimerization interface [polypeptide binding]; other site 756499005556 ATP binding site [chemical binding]; other site 756499005557 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 756499005558 thiamine phosphate binding site [chemical binding]; other site 756499005559 active site 756499005560 pyrophosphate binding site [ion binding]; other site 756499005561 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 756499005562 dimer interface [polypeptide binding]; other site 756499005563 substrate binding site [chemical binding]; other site 756499005564 ATP binding site [chemical binding]; other site 756499005565 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 756499005566 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 756499005567 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 756499005568 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 756499005569 Walker A/P-loop; other site 756499005570 ATP binding site [chemical binding]; other site 756499005571 Q-loop/lid; other site 756499005572 ABC transporter signature motif; other site 756499005573 Walker B; other site 756499005574 D-loop; other site 756499005575 H-loop/switch region; other site 756499005576 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 756499005577 phosphofructokinase; Region: PFK_mixed; TIGR02483 756499005578 active site 756499005579 ADP/pyrophosphate binding site [chemical binding]; other site 756499005580 dimerization interface [polypeptide binding]; other site 756499005581 allosteric effector site; other site 756499005582 fructose-1,6-bisphosphate binding site; other site 756499005583 Protein of unknown function (DUF456); Region: DUF456; pfam04306 756499005584 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 756499005585 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 756499005586 HSP70 interaction site [polypeptide binding]; other site 756499005587 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 756499005588 substrate binding site [polypeptide binding]; other site 756499005589 dimer interface [polypeptide binding]; other site 756499005590 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 756499005591 Ligand binding site; other site 756499005592 Putative Catalytic site; other site 756499005593 DXD motif; other site 756499005594 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499005595 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499005596 active site 756499005597 phosphorylation site [posttranslational modification] 756499005598 intermolecular recognition site; other site 756499005599 dimerization interface [polypeptide binding]; other site 756499005600 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 756499005601 DNA binding site [nucleotide binding] 756499005602 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 756499005603 dimer interface [polypeptide binding]; other site 756499005604 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499005605 phosphorylation site [posttranslational modification] 756499005606 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499005607 ATP binding site [chemical binding]; other site 756499005608 Mg2+ binding site [ion binding]; other site 756499005609 G-X-G motif; other site 756499005610 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499005611 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 756499005612 Walker A/P-loop; other site 756499005613 ATP binding site [chemical binding]; other site 756499005614 Q-loop/lid; other site 756499005615 ABC transporter signature motif; other site 756499005616 Walker B; other site 756499005617 D-loop; other site 756499005618 H-loop/switch region; other site 756499005619 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 756499005620 Major Facilitator Superfamily; Region: MFS_1; pfam07690 756499005621 putative substrate translocation pore; other site 756499005622 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 756499005623 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 756499005624 putative active site [active] 756499005625 putative metal binding residues [ion binding]; other site 756499005626 signature motif; other site 756499005627 putative triphosphate binding site [ion binding]; other site 756499005628 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499005629 Zn2+ binding site [ion binding]; other site 756499005630 Mg2+ binding site [ion binding]; other site 756499005631 Flavin Reductases; Region: FlaRed; cl00801 756499005632 Protein of unknown function (DUF3887); Region: DUF3887; pfam13026 756499005633 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 756499005634 hypothetical protein; Reviewed; Region: PRK09588 756499005635 Predicted transcriptional regulators [Transcription]; Region: COG1725 756499005636 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 756499005637 DNA-binding site [nucleotide binding]; DNA binding site 756499005638 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 756499005639 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 756499005640 Walker A/P-loop; other site 756499005641 ATP binding site [chemical binding]; other site 756499005642 Q-loop/lid; other site 756499005643 ABC transporter signature motif; other site 756499005644 Walker B; other site 756499005645 D-loop; other site 756499005646 H-loop/switch region; other site 756499005647 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 756499005648 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 756499005649 Walker A/P-loop; other site 756499005650 ATP binding site [chemical binding]; other site 756499005651 Q-loop/lid; other site 756499005652 ABC transporter signature motif; other site 756499005653 Walker B; other site 756499005654 D-loop; other site 756499005655 H-loop/switch region; other site 756499005656 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 756499005657 catalytic residues [active] 756499005658 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 756499005659 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 756499005660 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 756499005661 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 756499005662 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 756499005663 putative [Fe4-S4] binding site [ion binding]; other site 756499005664 putative molybdopterin cofactor binding site [chemical binding]; other site 756499005665 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 756499005666 putative molybdopterin cofactor binding site; other site 756499005667 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499005668 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 756499005669 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 756499005670 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 756499005671 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 756499005672 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 756499005673 B12 binding site [chemical binding]; other site 756499005674 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 756499005675 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 756499005676 substrate binding pocket [chemical binding]; other site 756499005677 dimer interface [polypeptide binding]; other site 756499005678 inhibitor binding site; inhibition site 756499005679 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 756499005680 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 756499005681 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 756499005682 DNA-binding site [nucleotide binding]; DNA binding site 756499005683 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 756499005684 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 756499005685 B12 binding site [chemical binding]; other site 756499005686 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 756499005687 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 756499005688 catalytic loop [active] 756499005689 iron binding site [ion binding]; other site 756499005690 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 756499005691 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 756499005692 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 756499005693 short chain dehydrogenase; Provisional; Region: PRK06701 756499005694 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 756499005695 NAD binding site [chemical binding]; other site 756499005696 metal binding site [ion binding]; metal-binding site 756499005697 active site 756499005698 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 756499005699 FMN binding site [chemical binding]; other site 756499005700 dimer interface [polypeptide binding]; other site 756499005701 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 756499005702 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499005703 Walker A/P-loop; other site 756499005704 ATP binding site [chemical binding]; other site 756499005705 Q-loop/lid; other site 756499005706 ABC transporter signature motif; other site 756499005707 Walker B; other site 756499005708 D-loop; other site 756499005709 H-loop/switch region; other site 756499005710 TOBE domain; Region: TOBE_2; pfam08402 756499005711 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 756499005712 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 756499005713 dimer interface [polypeptide binding]; other site 756499005714 conserved gate region; other site 756499005715 putative PBP binding loops; other site 756499005716 ABC-ATPase subunit interface; other site 756499005717 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 756499005718 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 756499005719 dimer interface [polypeptide binding]; other site 756499005720 ABC-ATPase subunit interface; other site 756499005721 putative PBP binding loops; other site 756499005722 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 756499005723 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 756499005724 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 756499005725 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 756499005726 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 756499005727 metal binding site [ion binding]; metal-binding site 756499005728 active site 756499005729 I-site; other site 756499005730 hypothetical protein; Provisional; Region: PRK11770 756499005731 Domain of unknown function (DUF307); Region: DUF307; pfam03733 756499005732 Domain of unknown function (DUF307); Region: DUF307; pfam03733 756499005733 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 756499005734 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 756499005735 active site 756499005736 catalytic tetrad [active] 756499005737 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 756499005738 Domain of unknown function (DUF1287); Region: DUF1287; pfam06940 756499005739 Nitroreductase family; Region: Nitroreductase; pfam00881 756499005740 FMN binding site [chemical binding]; other site 756499005741 dimer interface [polypeptide binding]; other site 756499005742 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 756499005743 dimer interface [polypeptide binding]; other site 756499005744 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 756499005745 dimerization interface [polypeptide binding]; other site 756499005746 putative DNA binding site [nucleotide binding]; other site 756499005747 putative Zn2+ binding site [ion binding]; other site 756499005748 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 756499005749 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499005750 G5 domain; Region: G5; pfam07501 756499005751 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 756499005752 NlpC/P60 family; Region: NLPC_P60; pfam00877 756499005753 Nuclease-related domain; Region: NERD; pfam08378 756499005754 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 756499005755 EamA-like transporter family; Region: EamA; pfam00892 756499005756 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 756499005757 EamA-like transporter family; Region: EamA; pfam00892 756499005758 CoA binding domain; Region: CoA_binding_2; pfam13380 756499005759 cobalt transport protein CbiM; Validated; Region: PRK08319 756499005760 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 756499005761 cobalt transport protein CbiN; Provisional; Region: PRK02898 756499005762 Cobalt transport protein; Region: CbiQ; cl00463 756499005763 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13636 756499005764 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 756499005765 Walker A/P-loop; other site 756499005766 ATP binding site [chemical binding]; other site 756499005767 Q-loop/lid; other site 756499005768 ABC transporter signature motif; other site 756499005769 Walker B; other site 756499005770 D-loop; other site 756499005771 H-loop/switch region; other site 756499005772 Helix-turn-helix domain; Region: HTH_17; pfam12728 756499005773 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 756499005774 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 756499005775 S-adenosylmethionine binding site [chemical binding]; other site 756499005776 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 756499005777 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 756499005778 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 756499005779 MgtC family; Region: MgtC; pfam02308 756499005780 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 756499005781 Protein of unknown function (DUF2695); Region: DUF2695; pfam10905 756499005782 methionine sulfoxide reductase A; Provisional; Region: PRK14054 756499005783 methionine sulfoxide reductase B; Provisional; Region: PRK00222 756499005784 SelR domain; Region: SelR; pfam01641 756499005785 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 756499005786 classical (c) SDRs; Region: SDR_c; cd05233 756499005787 NAD(P) binding site [chemical binding]; other site 756499005788 active site 756499005789 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 756499005790 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 756499005791 molybdopterin cofactor binding site; other site 756499005792 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 756499005793 putative molybdopterin cofactor binding site; other site 756499005794 Rrf2 family protein; Region: rrf2_super; TIGR00738 756499005795 Transcriptional regulator; Region: Rrf2; pfam02082 756499005796 Transcriptional regulator; Region: Rrf2; cl17282 756499005797 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 756499005798 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 756499005799 substrate binding site [chemical binding]; other site 756499005800 oxyanion hole (OAH) forming residues; other site 756499005801 trimer interface [polypeptide binding]; other site 756499005802 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 756499005803 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 756499005804 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 756499005805 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 756499005806 putative metal binding site [ion binding]; other site 756499005807 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 756499005808 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 756499005809 dimer interface [polypeptide binding]; other site 756499005810 pyridoxal binding site [chemical binding]; other site 756499005811 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 756499005812 ATP binding site [chemical binding]; other site 756499005813 Propionate catabolism activator; Region: PrpR_N; pfam06506 756499005814 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 756499005815 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 756499005816 putative active site [active] 756499005817 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 756499005818 Walker A motif; other site 756499005819 ATP binding site [chemical binding]; other site 756499005820 Walker B motif; other site 756499005821 arginine finger; other site 756499005822 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 756499005823 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 756499005824 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 756499005825 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 756499005826 dimer interface [polypeptide binding]; other site 756499005827 PYR/PP interface [polypeptide binding]; other site 756499005828 TPP binding site [chemical binding]; other site 756499005829 substrate binding site [chemical binding]; other site 756499005830 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 756499005831 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 756499005832 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 756499005833 TPP-binding site [chemical binding]; other site 756499005834 putative dimer interface [polypeptide binding]; other site 756499005835 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 756499005836 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 756499005837 Citrate transporter; Region: CitMHS; pfam03600 756499005838 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 756499005839 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 756499005840 substrate binding site [chemical binding]; other site 756499005841 ligand binding site [chemical binding]; other site 756499005842 FAD binding domain; Region: FAD_binding_4; pfam01565 756499005843 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 756499005844 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 756499005845 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 756499005846 Cysteine-rich domain; Region: CCG; pfam02754 756499005847 Cysteine-rich domain; Region: CCG; pfam02754 756499005848 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 756499005849 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 756499005850 FeS/SAM binding site; other site 756499005851 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 756499005852 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 756499005853 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 756499005854 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 756499005855 Walker A/P-loop; other site 756499005856 ATP binding site [chemical binding]; other site 756499005857 Q-loop/lid; other site 756499005858 ABC transporter signature motif; other site 756499005859 Walker B; other site 756499005860 D-loop; other site 756499005861 H-loop/switch region; other site 756499005862 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 756499005863 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 756499005864 dimer interface [polypeptide binding]; other site 756499005865 conserved gate region; other site 756499005866 putative PBP binding loops; other site 756499005867 ABC-ATPase subunit interface; other site 756499005868 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 756499005869 NMT1/THI5 like; Region: NMT1; pfam09084 756499005870 membrane-bound complex binding site; other site 756499005871 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 756499005872 active site clefts [active] 756499005873 zinc binding site [ion binding]; other site 756499005874 dimer interface [polypeptide binding]; other site 756499005875 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 756499005876 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 756499005877 Uncharacterized conserved protein [Function unknown]; Region: COG2461 756499005878 Family of unknown function (DUF438); Region: DUF438; pfam04282 756499005879 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 756499005880 zinc transporter ZupT; Provisional; Region: PRK04201 756499005881 ZIP Zinc transporter; Region: Zip; pfam02535 756499005882 Predicted membrane protein [Function unknown]; Region: COG2323 756499005883 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 756499005884 L-lactate permease; Region: Lactate_perm; cl00701 756499005885 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 756499005886 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499005887 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499005888 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499005889 Bacterial SH3 domain; Region: SH3_3; pfam08239 756499005890 Bacterial SH3 domain; Region: SH3_3; pfam08239 756499005891 Bacterial SH3 domain; Region: SH3_3; pfam08239 756499005892 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 756499005893 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 756499005894 active site 756499005895 metal binding site [ion binding]; metal-binding site 756499005896 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 756499005897 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499005898 ATP binding site [chemical binding]; other site 756499005899 Mg2+ binding site [ion binding]; other site 756499005900 G-X-G motif; other site 756499005901 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 756499005902 anchoring element; other site 756499005903 dimer interface [polypeptide binding]; other site 756499005904 ATP binding site [chemical binding]; other site 756499005905 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 756499005906 active site 756499005907 putative metal-binding site [ion binding]; other site 756499005908 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 756499005909 DNA gyrase subunit A; Validated; Region: PRK05560 756499005910 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 756499005911 CAP-like domain; other site 756499005912 active site 756499005913 primary dimer interface [polypeptide binding]; other site 756499005914 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 756499005915 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 756499005916 V-type ATP synthase subunit I; Validated; Region: PRK05771 756499005917 hypothetical protein; Provisional; Region: PRK03881 756499005918 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain; Region: ED_3B_N_AMMECR1; cd07951 756499005919 AMMECR1; Region: AMMECR1; pfam01871 756499005920 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 756499005921 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 756499005922 FeS/SAM binding site; other site 756499005923 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 756499005924 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 756499005925 NlpC/P60 family; Region: NLPC_P60; pfam00877 756499005926 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 756499005927 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 756499005928 non-specific DNA binding site [nucleotide binding]; other site 756499005929 salt bridge; other site 756499005930 sequence-specific DNA binding site [nucleotide binding]; other site 756499005931 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 756499005932 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 756499005933 non-specific DNA binding site [nucleotide binding]; other site 756499005934 salt bridge; other site 756499005935 sequence-specific DNA binding site [nucleotide binding]; other site 756499005936 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 756499005937 FAD binding domain; Region: FAD_binding_4; pfam01565 756499005938 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 756499005939 Cysteine-rich domain; Region: CCG; pfam02754 756499005940 Cysteine-rich domain; Region: CCG; pfam02754 756499005941 Major Facilitator Superfamily; Region: MFS_1; pfam07690 756499005942 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 756499005943 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 756499005944 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499005945 Coenzyme A binding pocket [chemical binding]; other site 756499005946 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 756499005947 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 756499005948 active site 756499005949 DNA binding site [nucleotide binding] 756499005950 Int/Topo IB signature motif; other site 756499005951 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 756499005952 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 756499005953 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 756499005954 Peptidase family M23; Region: Peptidase_M23; pfam01551 756499005955 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499005956 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 756499005957 LexA repressor; Validated; Region: PRK00215 756499005958 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 756499005959 Catalytic site [active] 756499005960 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 756499005961 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 756499005962 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 756499005963 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 756499005964 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 756499005965 Catalytic site [active] 756499005966 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 756499005967 Aluminium resistance protein; Region: Alum_res; pfam06838 756499005968 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 756499005969 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 756499005970 HflX GTPase family; Region: HflX; cd01878 756499005971 G1 box; other site 756499005972 GTP/Mg2+ binding site [chemical binding]; other site 756499005973 Switch I region; other site 756499005974 G2 box; other site 756499005975 G3 box; other site 756499005976 Switch II region; other site 756499005977 G4 box; other site 756499005978 stage V sporulation protein K; Region: spore_V_K; TIGR02881 756499005979 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 756499005980 Walker A motif; other site 756499005981 ATP binding site [chemical binding]; other site 756499005982 Walker B motif; other site 756499005983 arginine finger; other site 756499005984 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 756499005985 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 756499005986 G1 box; other site 756499005987 putative GEF interaction site [polypeptide binding]; other site 756499005988 GTP/Mg2+ binding site [chemical binding]; other site 756499005989 Switch I region; other site 756499005990 G2 box; other site 756499005991 G3 box; other site 756499005992 Switch II region; other site 756499005993 G4 box; other site 756499005994 G5 box; other site 756499005995 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 756499005996 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 756499005997 bacterial Hfq-like; Region: Hfq; cd01716 756499005998 hexamer interface [polypeptide binding]; other site 756499005999 Sm1 motif; other site 756499006000 RNA binding site [nucleotide binding]; other site 756499006001 Sm2 motif; other site 756499006002 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 756499006003 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 756499006004 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 756499006005 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 756499006006 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499006007 ATP binding site [chemical binding]; other site 756499006008 Mg2+ binding site [ion binding]; other site 756499006009 G-X-G motif; other site 756499006010 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 756499006011 ATP binding site [chemical binding]; other site 756499006012 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 756499006013 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 756499006014 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 756499006015 active site 756499006016 Zn binding site [ion binding]; other site 756499006017 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 756499006018 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 756499006019 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 756499006020 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 756499006021 MutS domain I; Region: MutS_I; pfam01624 756499006022 MutS domain II; Region: MutS_II; pfam05188 756499006023 MutS domain III; Region: MutS_III; pfam05192 756499006024 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 756499006025 Walker A/P-loop; other site 756499006026 ATP binding site [chemical binding]; other site 756499006027 Q-loop/lid; other site 756499006028 ABC transporter signature motif; other site 756499006029 Walker B; other site 756499006030 D-loop; other site 756499006031 H-loop/switch region; other site 756499006032 Protein of unknown function (DUF964); Region: DUF964; pfam06133 756499006033 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 756499006034 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 756499006035 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 756499006036 FeS/SAM binding site; other site 756499006037 TRAM domain; Region: TRAM; pfam01938 756499006038 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 756499006039 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 756499006040 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 756499006041 putative substrate-binding site; other site 756499006042 nickel binding site [ion binding]; other site 756499006043 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 756499006044 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 756499006045 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 756499006046 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 756499006047 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 756499006048 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 756499006049 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 756499006050 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 756499006051 EDD domain protein, DegV family; Region: DegV; TIGR00762 756499006052 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 756499006053 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 756499006054 active site 756499006055 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 756499006056 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499006057 G5 domain; Region: G5; pfam07501 756499006058 Peptidase family M23; Region: Peptidase_M23; pfam01551 756499006059 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 756499006060 pyruvate kinase; Provisional; Region: PRK06354 756499006061 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 756499006062 domain interfaces; other site 756499006063 active site 756499006064 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 756499006065 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 756499006066 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 756499006067 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 756499006068 hypothetical protein; Provisional; Region: PRK06851 756499006069 NTPase; Region: NTPase_1; cl17478 756499006070 Dinitrogenase iron-molybdenum cofactor; Region: Nitro_FeMo-Co; pfam02579 756499006071 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 756499006072 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 756499006073 Walker A motif; other site 756499006074 ATP binding site [chemical binding]; other site 756499006075 Walker B motif; other site 756499006076 arginine finger; other site 756499006077 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 756499006078 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 756499006079 putative MPT binding site; other site 756499006080 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 756499006081 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 756499006082 ligand binding site [chemical binding]; other site 756499006083 flexible hinge region; other site 756499006084 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 756499006085 putative switch regulator; other site 756499006086 non-specific DNA interactions [nucleotide binding]; other site 756499006087 DNA binding site [nucleotide binding] 756499006088 sequence specific DNA binding site [nucleotide binding]; other site 756499006089 putative cAMP binding site [chemical binding]; other site 756499006090 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 756499006091 4Fe-4S binding domain; Region: Fer4; cl02805 756499006092 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 756499006093 EamA-like transporter family; Region: EamA; pfam00892 756499006094 EamA-like transporter family; Region: EamA; pfam00892 756499006095 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 756499006096 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 756499006097 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 756499006098 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 756499006099 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 756499006100 oligomer interface [polypeptide binding]; other site 756499006101 active site 756499006102 metal binding site [ion binding]; metal-binding site 756499006103 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 756499006104 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 756499006105 oligomer interface [polypeptide binding]; other site 756499006106 active site 756499006107 metal binding site [ion binding]; metal-binding site 756499006108 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 756499006109 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 756499006110 oligomer interface [polypeptide binding]; other site 756499006111 active site 756499006112 metal binding site [ion binding]; metal-binding site 756499006113 dipeptidase PepV; Reviewed; Region: PRK07318 756499006114 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 756499006115 active site 756499006116 metal binding site [ion binding]; metal-binding site 756499006117 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 756499006118 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 756499006119 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 756499006120 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 756499006121 Rhomboid family; Region: Rhomboid; pfam01694 756499006122 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 756499006123 oxidoreductase; Provisional; Region: PRK10015 756499006124 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 756499006125 4Fe-4S binding domain; Region: Fer4; cl02805 756499006126 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 756499006127 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 756499006128 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 756499006129 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 756499006130 Ligand binding site [chemical binding]; other site 756499006131 Electron transfer flavoprotein domain; Region: ETF; pfam01012 756499006132 Uncharacterized conserved protein [Function unknown]; Region: COG1615 756499006133 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 756499006134 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 756499006135 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 756499006136 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 756499006137 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 756499006138 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 756499006139 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 756499006140 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 756499006141 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 756499006142 Walker A motif; other site 756499006143 ATP binding site [chemical binding]; other site 756499006144 Walker B motif; other site 756499006145 arginine finger; other site 756499006146 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 756499006147 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 756499006148 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499006149 Zn2+ binding site [ion binding]; other site 756499006150 Mg2+ binding site [ion binding]; other site 756499006151 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 756499006152 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 756499006153 Beta-Casp domain; Region: Beta-Casp; smart01027 756499006154 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 756499006155 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 756499006156 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499006157 active site 756499006158 phosphorylation site [posttranslational modification] 756499006159 intermolecular recognition site; other site 756499006160 dimerization interface [polypeptide binding]; other site 756499006161 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 756499006162 DNA binding residues [nucleotide binding] 756499006163 dimerization interface [polypeptide binding]; other site 756499006164 Sensor protein DegS; Region: DegS; pfam05384 756499006165 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 756499006166 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 756499006167 Histidine kinase; Region: HisKA_3; pfam07730 756499006168 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499006169 ATP binding site [chemical binding]; other site 756499006170 Mg2+ binding site [ion binding]; other site 756499006171 G-X-G motif; other site 756499006172 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 756499006173 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 756499006174 substrate binding pocket [chemical binding]; other site 756499006175 inhibitor binding site; inhibition site 756499006176 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 756499006177 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 756499006178 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 756499006179 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 756499006180 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 756499006181 catalytic loop [active] 756499006182 iron binding site [ion binding]; other site 756499006183 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 756499006184 Putative Fe-S cluster; Region: FeS; pfam04060 756499006185 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 756499006186 Acetyl-CoA synthase (ACS), also known as acetyl-CoA decarbonylase, is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA. ACS forms a heterotetramer with carbon monoxide dehydrogenase (CODH)...; Region: ACS_2; cd01917 756499006187 CODH interaction site; other site 756499006188 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; pfam03598 756499006189 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 756499006190 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 756499006191 ACS interaction site; other site 756499006192 CODH interaction site; other site 756499006193 cubane metal cluster (B-cluster) [ion binding]; other site 756499006194 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 756499006195 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 756499006196 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 756499006197 P-loop; other site 756499006198 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 756499006199 EDD domain protein, DegV family; Region: DegV; TIGR00762 756499006200 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 756499006201 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 756499006202 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499006203 Coenzyme A binding pocket [chemical binding]; other site 756499006204 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 756499006205 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 756499006206 catalytic motif [active] 756499006207 Zn binding site [ion binding]; other site 756499006208 RibD C-terminal domain; Region: RibD_C; cl17279 756499006209 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 756499006210 Lumazine binding domain; Region: Lum_binding; pfam00677 756499006211 Lumazine binding domain; Region: Lum_binding; pfam00677 756499006212 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 756499006213 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 756499006214 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 756499006215 dimerization interface [polypeptide binding]; other site 756499006216 active site 756499006217 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 756499006218 homopentamer interface [polypeptide binding]; other site 756499006219 active site 756499006220 RNA polymerase factor sigma-70; Validated; Region: PRK08295 756499006221 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499006222 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 756499006223 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 756499006224 Clp amino terminal domain; Region: Clp_N; pfam02861 756499006225 Clp amino terminal domain; Region: Clp_N; pfam02861 756499006226 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 756499006227 Walker A motif; other site 756499006228 ATP binding site [chemical binding]; other site 756499006229 Walker B motif; other site 756499006230 arginine finger; other site 756499006231 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 756499006232 Walker A motif; other site 756499006233 ATP binding site [chemical binding]; other site 756499006234 Walker B motif; other site 756499006235 arginine finger; other site 756499006236 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 756499006237 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 756499006238 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 756499006239 active site 756499006240 substrate binding site [chemical binding]; other site 756499006241 metal binding site [ion binding]; metal-binding site 756499006242 EDD domain protein, DegV family; Region: DegV; TIGR00762 756499006243 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 756499006244 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 756499006245 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 756499006246 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 756499006247 glyoxylate reductase; Reviewed; Region: PRK13243 756499006248 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 756499006249 dimerization interface [polypeptide binding]; other site 756499006250 ligand binding site [chemical binding]; other site 756499006251 NADP binding site [chemical binding]; other site 756499006252 catalytic site [active] 756499006253 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499006254 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 756499006255 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 756499006256 zinc binding site [ion binding]; other site 756499006257 putative ligand binding site [chemical binding]; other site 756499006258 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 756499006259 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 756499006260 TM-ABC transporter signature motif; other site 756499006261 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 756499006262 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499006263 Walker A/P-loop; other site 756499006264 ATP binding site [chemical binding]; other site 756499006265 Q-loop/lid; other site 756499006266 ABC transporter signature motif; other site 756499006267 Walker B; other site 756499006268 D-loop; other site 756499006269 H-loop/switch region; other site 756499006270 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 756499006271 Part of AAA domain; Region: AAA_19; pfam13245 756499006272 Family description; Region: UvrD_C_2; pfam13538 756499006273 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 756499006274 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 756499006275 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 756499006276 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 756499006277 Uncharacterized conserved protein [Function unknown]; Region: COG1284 756499006278 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 756499006279 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 756499006280 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 756499006281 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 756499006282 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499006283 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 756499006284 DNA binding residues [nucleotide binding] 756499006285 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 756499006286 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 756499006287 putative active site [active] 756499006288 catalytic site [active] 756499006289 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 756499006290 putative active site [active] 756499006291 catalytic site [active] 756499006292 Chromate transporter; Region: Chromate_transp; pfam02417 756499006293 Chromate transporter; Region: Chromate_transp; pfam02417 756499006294 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 756499006295 dinuclear metal binding motif [ion binding]; other site 756499006296 PspC domain; Region: PspC; pfam04024 756499006297 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 756499006298 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 756499006299 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 756499006300 Walker A/P-loop; other site 756499006301 ATP binding site [chemical binding]; other site 756499006302 Q-loop/lid; other site 756499006303 ABC transporter signature motif; other site 756499006304 Walker B; other site 756499006305 D-loop; other site 756499006306 H-loop/switch region; other site 756499006307 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 756499006308 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 756499006309 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499006310 Walker A/P-loop; other site 756499006311 ATP binding site [chemical binding]; other site 756499006312 Q-loop/lid; other site 756499006313 ABC transporter signature motif; other site 756499006314 Walker B; other site 756499006315 D-loop; other site 756499006316 H-loop/switch region; other site 756499006317 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 756499006318 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 756499006319 Predicted membrane protein [Function unknown]; Region: COG4129 756499006320 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 756499006321 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 756499006322 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 756499006323 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 756499006324 active site 756499006325 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 756499006326 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 756499006327 substrate binding site [chemical binding]; other site 756499006328 oxyanion hole (OAH) forming residues; other site 756499006329 trimer interface [polypeptide binding]; other site 756499006330 putative acyltransferase; Provisional; Region: PRK05790 756499006331 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 756499006332 dimer interface [polypeptide binding]; other site 756499006333 active site 756499006334 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 756499006335 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 756499006336 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 756499006337 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 756499006338 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 756499006339 4Fe-4S binding domain; Region: Fer4; cl02805 756499006340 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 756499006341 Cysteine-rich domain; Region: CCG; pfam02754 756499006342 Cysteine-rich domain; Region: CCG; pfam02754 756499006343 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 756499006344 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 756499006345 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 756499006346 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 756499006347 Ligand binding site [chemical binding]; other site 756499006348 Electron transfer flavoprotein domain; Region: ETF; pfam01012 756499006349 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 756499006350 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 756499006351 FAD binding site [chemical binding]; other site 756499006352 homotetramer interface [polypeptide binding]; other site 756499006353 substrate binding pocket [chemical binding]; other site 756499006354 catalytic base [active] 756499006355 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 756499006356 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 756499006357 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 756499006358 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 756499006359 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 756499006360 FAD binding site [chemical binding]; other site 756499006361 homotetramer interface [polypeptide binding]; other site 756499006362 substrate binding pocket [chemical binding]; other site 756499006363 catalytic base [active] 756499006364 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 756499006365 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 756499006366 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 756499006367 putative active site [active] 756499006368 PAS domain; Region: PAS; smart00091 756499006369 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 756499006370 Walker A motif; other site 756499006371 ATP binding site [chemical binding]; other site 756499006372 Walker B motif; other site 756499006373 arginine finger; other site 756499006374 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 756499006375 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 756499006376 Uncharacterized conserved protein [Function unknown]; Region: COG4925 756499006377 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 756499006378 Penicillinase repressor; Region: Pencillinase_R; pfam03965 756499006379 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 756499006380 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 756499006381 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499006382 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 756499006383 DNA binding residues [nucleotide binding] 756499006384 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 756499006385 active site 756499006386 metal binding site [ion binding]; metal-binding site 756499006387 Cupin domain; Region: Cupin_2; pfam07883 756499006388 Transposase, Mutator family; Region: Transposase_mut; pfam00872 756499006389 MULE transposase domain; Region: MULE; pfam10551 756499006390 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 756499006391 metal binding triad [ion binding]; metal-binding site 756499006392 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 756499006393 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 756499006394 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 756499006395 active site 756499006396 catalytic tetrad [active] 756499006397 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 756499006398 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 756499006399 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 756499006400 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 756499006401 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 756499006402 catalytic residue [active] 756499006403 GTPase RsgA; Reviewed; Region: PRK01889 756499006404 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 756499006405 RNA binding site [nucleotide binding]; other site 756499006406 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 756499006407 GTPase/Zn-binding domain interface [polypeptide binding]; other site 756499006408 GTP/Mg2+ binding site [chemical binding]; other site 756499006409 G4 box; other site 756499006410 G5 box; other site 756499006411 G1 box; other site 756499006412 Switch I region; other site 756499006413 G2 box; other site 756499006414 G3 box; other site 756499006415 Switch II region; other site 756499006416 hypothetical protein; Provisional; Region: PRK13665 756499006417 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 756499006418 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 756499006419 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 756499006420 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 756499006421 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 756499006422 S1 domain; Region: S1_2; pfam13509 756499006423 S1 domain; Region: S1_2; pfam13509 756499006424 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 756499006425 RNA binding site [nucleotide binding]; other site 756499006426 Protein of unknown function (DUF401); Region: DUF401; cl00830 756499006427 Cation transport protein; Region: TrkH; cl17365 756499006428 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 756499006429 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 756499006430 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 756499006431 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 756499006432 TrkA-N domain; Region: TrkA_N; pfam02254 756499006433 TrkA-C domain; Region: TrkA_C; pfam02080 756499006434 TrkA-N domain; Region: TrkA_N; pfam02254 756499006435 TrkA-C domain; Region: TrkA_C; pfam02080 756499006436 multidrug efflux protein; Reviewed; Region: PRK01766 756499006437 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 756499006438 cation binding site [ion binding]; other site 756499006439 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 756499006440 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 756499006441 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 756499006442 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 756499006443 Cysteine-rich domain; Region: CCG; pfam02754 756499006444 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 756499006445 AIR carboxylase; Region: AIRC; smart01001 756499006446 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 756499006447 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 756499006448 Walker A/P-loop; other site 756499006449 ATP binding site [chemical binding]; other site 756499006450 Q-loop/lid; other site 756499006451 ABC transporter signature motif; other site 756499006452 Walker B; other site 756499006453 D-loop; other site 756499006454 H-loop/switch region; other site 756499006455 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 756499006456 ABC-ATPase subunit interface; other site 756499006457 dimer interface [polypeptide binding]; other site 756499006458 putative PBP binding regions; other site 756499006459 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 756499006460 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 756499006461 ABC-ATPase subunit interface; other site 756499006462 dimer interface [polypeptide binding]; other site 756499006463 putative PBP binding regions; other site 756499006464 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 756499006465 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 756499006466 intersubunit interface [polypeptide binding]; other site 756499006467 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 756499006468 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 756499006469 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499006470 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499006471 active site 756499006472 phosphorylation site [posttranslational modification] 756499006473 intermolecular recognition site; other site 756499006474 dimerization interface [polypeptide binding]; other site 756499006475 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 756499006476 DNA binding site [nucleotide binding] 756499006477 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499006478 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 756499006479 dimerization interface [polypeptide binding]; other site 756499006480 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 756499006481 dimer interface [polypeptide binding]; other site 756499006482 phosphorylation site [posttranslational modification] 756499006483 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499006484 ATP binding site [chemical binding]; other site 756499006485 Mg2+ binding site [ion binding]; other site 756499006486 G-X-G motif; other site 756499006487 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 756499006488 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499006489 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 756499006490 Walker A/P-loop; other site 756499006491 ATP binding site [chemical binding]; other site 756499006492 Q-loop/lid; other site 756499006493 ABC transporter signature motif; other site 756499006494 Walker B; other site 756499006495 D-loop; other site 756499006496 H-loop/switch region; other site 756499006497 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 756499006498 Domain of unknown function DUF20; Region: UPF0118; pfam01594 756499006499 Radical SAM superfamily; Region: Radical_SAM; pfam04055 756499006500 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 756499006501 FeS/SAM binding site; other site 756499006502 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 756499006503 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 756499006504 ATP binding site [chemical binding]; other site 756499006505 Mg++ binding site [ion binding]; other site 756499006506 motif III; other site 756499006507 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 756499006508 nucleotide binding region [chemical binding]; other site 756499006509 ATP-binding site [chemical binding]; other site 756499006510 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 756499006511 putative substrate translocation pore; other site 756499006512 Major Facilitator Superfamily; Region: MFS_1; pfam07690 756499006513 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 756499006514 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 756499006515 ATP binding site [chemical binding]; other site 756499006516 putative Mg++ binding site [ion binding]; other site 756499006517 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 756499006518 nucleotide binding region [chemical binding]; other site 756499006519 ATP-binding site [chemical binding]; other site 756499006520 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 756499006521 HRDC domain; Region: HRDC; pfam00570 756499006522 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 756499006523 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 756499006524 B12 binding site [chemical binding]; other site 756499006525 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 756499006526 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 756499006527 DNA-binding site [nucleotide binding]; DNA binding site 756499006528 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 756499006529 CmuA_CmuC_like: uncharacterized protein family similar to uroporphyrinogen decarboxylase (URO-D) and the methyltransferases CmuA and CmuC; Region: CmuA_CmuC_like; cd03308 756499006530 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 756499006531 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 756499006532 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 756499006533 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 756499006534 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 756499006535 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 756499006536 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 756499006537 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499006538 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 756499006539 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 756499006540 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 756499006541 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 756499006542 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 756499006543 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 756499006544 hydrophobic ligand binding site; other site 756499006545 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 756499006546 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 756499006547 ArsC family; Region: ArsC; pfam03960 756499006548 catalytic residue [active] 756499006549 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499006550 HAMP domain; Region: HAMP; pfam00672 756499006551 dimerization interface [polypeptide binding]; other site 756499006552 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 756499006553 dimer interface [polypeptide binding]; other site 756499006554 phosphorylation site [posttranslational modification] 756499006555 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 756499006556 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499006557 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499006558 active site 756499006559 phosphorylation site [posttranslational modification] 756499006560 intermolecular recognition site; other site 756499006561 dimerization interface [polypeptide binding]; other site 756499006562 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 756499006563 DNA binding site [nucleotide binding] 756499006564 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 756499006565 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 756499006566 Amidohydrolase; Region: Amidohydro_4; pfam13147 756499006567 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 756499006568 active site 756499006569 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 756499006570 CoenzymeA binding site [chemical binding]; other site 756499006571 subunit interaction site [polypeptide binding]; other site 756499006572 PHB binding site; other site 756499006573 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 756499006574 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 756499006575 active site 756499006576 Zn binding site [ion binding]; other site 756499006577 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 756499006578 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_HBD; cd09277 756499006579 RNA/DNA hybrid binding site [nucleotide binding]; other site 756499006580 active site 756499006581 putative bifunctional 4-alpha-glucanotransferase/glycogen debranching enzyme; Provisional; Region: PRK14510 756499006582 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_2; cd06160 756499006583 Peptidase family M50; Region: Peptidase_M50; pfam02163 756499006584 active site 756499006585 putative substrate binding region [chemical binding]; other site 756499006586 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 756499006587 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 756499006588 DEAD_2; Region: DEAD_2; pfam06733 756499006589 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 756499006590 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 756499006591 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 756499006592 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499006593 homodimer interface [polypeptide binding]; other site 756499006594 catalytic residue [active] 756499006595 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 756499006596 putative active site [active] 756499006597 putative metal binding site [ion binding]; other site 756499006598 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 756499006599 active site 756499006600 catalytic site [active] 756499006601 substrate binding site [chemical binding]; other site 756499006602 Peptidase family M48; Region: Peptidase_M48; pfam01435 756499006603 Protein of unknown function, DUF606; Region: DUF606; pfam04657 756499006604 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 756499006605 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 756499006606 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 756499006607 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 756499006608 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 756499006609 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 756499006610 BON domain; Region: BON; pfam04972 756499006611 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 756499006612 BON domain; Region: BON; pfam04972 756499006613 BON domain; Region: BON; pfam04972 756499006614 BON domain; Region: BON; cl02771 756499006615 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 756499006616 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 756499006617 active site 756499006618 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 756499006619 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 756499006620 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 756499006621 active site 756499006622 putative substrate binding pocket [chemical binding]; other site 756499006623 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 756499006624 nucleobase-cation-symport-1 (NCS1) transporter Mhp1-like; solute-binding domain; Region: SLC-NCS1sbd_Mhp1-like; cd11483 756499006625 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 756499006626 Na binding site [ion binding]; other site 756499006627 substrate binding site [chemical binding]; other site 756499006628 phenylhydantoinase; Validated; Region: PRK08323 756499006629 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 756499006630 tetramer interface [polypeptide binding]; other site 756499006631 active site 756499006632 peptidase; Reviewed; Region: PRK13004 756499006633 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 756499006634 putative metal binding site [ion binding]; other site 756499006635 putative dimer interface [polypeptide binding]; other site 756499006636 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 756499006637 homotrimer interaction site [polypeptide binding]; other site 756499006638 putative active site [active] 756499006639 diaminopropionate ammonia-lyase; Region: 2_3_DAP_am_ly; TIGR03528 756499006640 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 756499006641 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 756499006642 catalytic residue [active] 756499006643 GAF domain; Region: GAF; cl17456 756499006644 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 756499006645 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 756499006646 Walker A motif; other site 756499006647 ATP binding site [chemical binding]; other site 756499006648 Walker B motif; other site 756499006649 arginine finger; other site 756499006650 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 756499006651 YmaF family; Region: YmaF; pfam12788 756499006652 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 756499006653 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 756499006654 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 756499006655 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 756499006656 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09209 756499006657 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 756499006658 PAS domain; Region: PAS_9; pfam13426 756499006659 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 756499006660 putative active site [active] 756499006661 heme pocket [chemical binding]; other site 756499006662 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 756499006663 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 756499006664 Walker A motif; other site 756499006665 ATP binding site [chemical binding]; other site 756499006666 Walker B motif; other site 756499006667 arginine finger; other site 756499006668 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 756499006669 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 756499006670 elongation factor G; Reviewed; Region: PRK12740 756499006671 G1 box; other site 756499006672 putative GEF interaction site [polypeptide binding]; other site 756499006673 GTP/Mg2+ binding site [chemical binding]; other site 756499006674 Switch I region; other site 756499006675 G2 box; other site 756499006676 G3 box; other site 756499006677 Switch II region; other site 756499006678 G4 box; other site 756499006679 G5 box; other site 756499006680 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 756499006681 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 756499006682 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 756499006683 isoaspartyl dipeptidase; Provisional; Region: PRK10657 756499006684 Isoaspartyl dipeptidase hydrolyzes the beta-L-isoaspartyl linkages in dipeptides, as part of the degradative pathway to eliminate proteins with beta-L-isoaspartyl peptide bonds, bonds whereby the beta-group of an aspartate forms the peptide link with the...; Region: Isoaspartyl-dipeptidase; cd01308 756499006685 dimer interface [polypeptide binding]; other site 756499006686 active site 756499006687 stage V sporulation protein B; Region: spore_V_B; TIGR02900 756499006688 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 756499006689 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 756499006690 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 756499006691 Protein of unknown function (DUF4264); Region: DUF4264; pfam14084 756499006692 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 756499006693 homodecamer interface [polypeptide binding]; other site 756499006694 GTP cyclohydrolase I; Provisional; Region: PLN03044 756499006695 active site 756499006696 putative catalytic site residues [active] 756499006697 zinc binding site [ion binding]; other site 756499006698 GTP-CH-I/GFRP interaction surface; other site 756499006699 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 756499006700 Helix-turn-helix domain; Region: HTH_38; pfam13936 756499006701 Integrase core domain; Region: rve; pfam00665 756499006702 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 756499006703 binding surface 756499006704 TPR motif; other site 756499006705 TPR repeat; Region: TPR_11; pfam13414 756499006706 TPR repeat; Region: TPR_11; pfam13414 756499006707 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 756499006708 binding surface 756499006709 TPR motif; other site 756499006710 TPR repeat; Region: TPR_11; pfam13414 756499006711 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 756499006712 binding surface 756499006713 TPR motif; other site 756499006714 TPR repeat; Region: TPR_11; pfam13414 756499006715 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 756499006716 metal binding site 2 [ion binding]; metal-binding site 756499006717 putative DNA binding helix; other site 756499006718 metal binding site 1 [ion binding]; metal-binding site 756499006719 dimer interface [polypeptide binding]; other site 756499006720 structural Zn2+ binding site [ion binding]; other site 756499006721 Uncharacterized protein family (UPF0180); Region: UPF0180; cl04214 756499006722 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 756499006723 Peptidase family M28; Region: Peptidase_M28; pfam04389 756499006724 metal binding site [ion binding]; metal-binding site 756499006725 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 756499006726 PLD-like domain; Region: PLDc_2; pfam13091 756499006727 putative active site [active] 756499006728 catalytic site [active] 756499006729 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 756499006730 PLD-like domain; Region: PLDc_2; pfam13091 756499006731 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 756499006732 putative active site [active] 756499006733 catalytic site [active] 756499006734 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 756499006735 catalytic core [active] 756499006736 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 756499006737 Cell division protein FtsA; Region: FtsA; smart00842 756499006738 Cell division protein FtsA; Region: FtsA; pfam14450 756499006739 6-phosphofructokinase; Provisional; Region: PRK03202 756499006740 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 756499006741 active site 756499006742 ADP/pyrophosphate binding site [chemical binding]; other site 756499006743 dimerization interface [polypeptide binding]; other site 756499006744 allosteric effector site; other site 756499006745 fructose-1,6-bisphosphate binding site; other site 756499006746 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 756499006747 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 756499006748 Walker A motif; other site 756499006749 ATP binding site [chemical binding]; other site 756499006750 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 756499006751 DnaA box-binding interface [nucleotide binding]; other site 756499006752 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 756499006753 active site 756499006754 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 756499006755 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 756499006756 intersubunit interface [polypeptide binding]; other site 756499006757 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 756499006758 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 756499006759 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 756499006760 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 756499006761 ABC-ATPase subunit interface; other site 756499006762 dimer interface [polypeptide binding]; other site 756499006763 putative PBP binding regions; other site 756499006764 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 756499006765 metal binding site 2 [ion binding]; metal-binding site 756499006766 putative DNA binding helix; other site 756499006767 metal binding site 1 [ion binding]; metal-binding site 756499006768 dimer interface [polypeptide binding]; other site 756499006769 structural Zn2+ binding site [ion binding]; other site 756499006770 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 756499006771 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 756499006772 SpoVR like protein; Region: SpoVR; pfam04293 756499006773 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 756499006774 sporulation protein YhbH; Region: spore_yhbH; TIGR02877 756499006775 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 756499006776 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 756499006777 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 756499006778 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 756499006779 homodimer interface [polypeptide binding]; other site 756499006780 Walker A motif; other site 756499006781 ATP binding site [chemical binding]; other site 756499006782 hydroxycobalamin binding site [chemical binding]; other site 756499006783 Walker B motif; other site 756499006784 Tetratricopeptide repeat; Region: TPR_12; pfam13424 756499006785 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 756499006786 binding surface 756499006787 TPR motif; other site 756499006788 Tetratricopeptide repeat; Region: TPR_12; pfam13424 756499006789 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 756499006790 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 756499006791 Uncharacterized conserved protein [Function unknown]; Region: COG1284 756499006792 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 756499006793 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 756499006794 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 756499006795 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 756499006796 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 756499006797 TMP-binding site; other site 756499006798 ATP-binding site [chemical binding]; other site 756499006799 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 756499006800 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 756499006801 peptide binding site [polypeptide binding]; other site 756499006802 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 756499006803 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 756499006804 Walker A/P-loop; other site 756499006805 ATP binding site [chemical binding]; other site 756499006806 Q-loop/lid; other site 756499006807 ABC transporter signature motif; other site 756499006808 Walker B; other site 756499006809 D-loop; other site 756499006810 H-loop/switch region; other site 756499006811 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 756499006812 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 756499006813 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 756499006814 Walker A/P-loop; other site 756499006815 ATP binding site [chemical binding]; other site 756499006816 Q-loop/lid; other site 756499006817 ABC transporter signature motif; other site 756499006818 Walker B; other site 756499006819 D-loop; other site 756499006820 H-loop/switch region; other site 756499006821 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 756499006822 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 756499006823 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 756499006824 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 756499006825 dimer interface [polypeptide binding]; other site 756499006826 conserved gate region; other site 756499006827 putative PBP binding loops; other site 756499006828 ABC-ATPase subunit interface; other site 756499006829 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 756499006830 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 756499006831 dimer interface [polypeptide binding]; other site 756499006832 conserved gate region; other site 756499006833 putative PBP binding loops; other site 756499006834 ABC-ATPase subunit interface; other site 756499006835 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 756499006836 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499006837 active site 756499006838 phosphorylation site [posttranslational modification] 756499006839 intermolecular recognition site; other site 756499006840 dimerization interface [polypeptide binding]; other site 756499006841 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 756499006842 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 756499006843 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499006844 Coenzyme A binding pocket [chemical binding]; other site 756499006845 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 756499006846 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 756499006847 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 756499006848 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 756499006849 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 756499006850 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 756499006851 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 756499006852 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 756499006853 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 756499006854 active site 756499006855 catalytic site [active] 756499006856 substrate binding site [chemical binding]; other site 756499006857 DEAD/DEAH box helicase; Region: DEAD; pfam00270 756499006858 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 756499006859 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 756499006860 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 756499006861 transcriptional regulator ICP4; Provisional; Region: PHA03307 756499006862 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 756499006863 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 756499006864 active site 756499006865 metal binding site [ion binding]; metal-binding site 756499006866 homotetramer interface [polypeptide binding]; other site 756499006867 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 756499006868 H+ Antiporter protein; Region: 2A0121; TIGR00900 756499006869 putative substrate translocation pore; other site 756499006870 Protein of unknown function, DUF606; Region: DUF606; pfam04657 756499006871 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 756499006872 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 756499006873 GIY-YIG motif/motif A; other site 756499006874 active site 756499006875 catalytic site [active] 756499006876 putative DNA binding site [nucleotide binding]; other site 756499006877 metal binding site [ion binding]; metal-binding site 756499006878 UvrB/uvrC motif; Region: UVR; pfam02151 756499006879 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 756499006880 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 756499006881 NlpC/P60 family; Region: NLPC_P60; pfam00877 756499006882 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499006883 Zn2+ binding site [ion binding]; other site 756499006884 Mg2+ binding site [ion binding]; other site 756499006885 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499006886 Coenzyme A binding pocket [chemical binding]; other site 756499006887 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 756499006888 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 756499006889 Walker A motif; other site 756499006890 ATP binding site [chemical binding]; other site 756499006891 Walker B motif; other site 756499006892 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 756499006893 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 756499006894 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 756499006895 homotetramer interface [polypeptide binding]; other site 756499006896 ligand binding site [chemical binding]; other site 756499006897 catalytic site [active] 756499006898 NAD binding site [chemical binding]; other site 756499006899 AAA domain; Region: AAA_31; pfam13614 756499006900 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 756499006901 Walker A motif; other site 756499006902 oligoendopeptidase F; Region: pepF; TIGR00181 756499006903 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 756499006904 active site 756499006905 Zn binding site [ion binding]; other site 756499006906 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 756499006907 Prephenate dehydratase; Region: PDT; pfam00800 756499006908 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 756499006909 putative L-Phe binding site [chemical binding]; other site 756499006910 hypothetical protein; Provisional; Region: PRK04164 756499006911 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 756499006912 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 756499006913 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 756499006914 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499006915 catalytic residue [active] 756499006916 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 756499006917 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 756499006918 active site 756499006919 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 756499006920 GIY-YIG motif/motif A; other site 756499006921 putative active site [active] 756499006922 putative metal binding site [ion binding]; other site 756499006923 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 756499006924 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 756499006925 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 756499006926 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 756499006927 endonuclease III; Region: ENDO3c; smart00478 756499006928 minor groove reading motif; other site 756499006929 helix-hairpin-helix signature motif; other site 756499006930 substrate binding pocket [chemical binding]; other site 756499006931 active site 756499006932 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 756499006933 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499006934 Zn2+ binding site [ion binding]; other site 756499006935 Mg2+ binding site [ion binding]; other site 756499006936 hypothetical protein; Provisional; Region: PRK10621 756499006937 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 756499006938 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 756499006939 VanW like protein; Region: VanW; pfam04294 756499006940 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 756499006941 PRC-barrel domain; Region: PRC; pfam05239 756499006942 Uncharacterized conserved protein [Function unknown]; Region: COG1739 756499006943 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 756499006944 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 756499006945 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 756499006946 subunit interaction site [polypeptide binding]; other site 756499006947 PHB binding site; other site 756499006948 CoenzymeA binding site [chemical binding]; other site 756499006949 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 756499006950 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 756499006951 S-adenosylmethionine binding site [chemical binding]; other site 756499006952 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 756499006953 active site 756499006954 homotetramer interface [polypeptide binding]; other site 756499006955 homodimer interface [polypeptide binding]; other site 756499006956 Late competence development protein ComFB; Region: ComFB; pfam10719 756499006957 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 756499006958 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 756499006959 ligand binding site [chemical binding]; other site 756499006960 flexible hinge region; other site 756499006961 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 756499006962 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 756499006963 ATP binding site [chemical binding]; other site 756499006964 putative Mg++ binding site [ion binding]; other site 756499006965 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 756499006966 nucleotide binding region [chemical binding]; other site 756499006967 ATP-binding site [chemical binding]; other site 756499006968 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 756499006969 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 756499006970 TFIIB zinc-binding; Region: TF_Zn_Ribbon; pfam08271 756499006971 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 756499006972 Repair protein; Region: Repair_PSII; pfam04536 756499006973 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 756499006974 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_5; cd03408 756499006975 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 756499006976 Rubredoxin [Energy production and conversion]; Region: COG1773 756499006977 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 756499006978 iron binding site [ion binding]; other site 756499006979 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 756499006980 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 756499006981 motif II; other site 756499006982 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 756499006983 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 756499006984 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 756499006985 Cysteine-rich domain; Region: CCG; pfam02754 756499006986 Cysteine-rich domain; Region: CCG; pfam02754 756499006987 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 756499006988 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 756499006989 Malic enzyme, N-terminal domain; Region: malic; pfam00390 756499006990 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 756499006991 putative NAD(P) binding site [chemical binding]; other site 756499006992 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 756499006993 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 756499006994 CoA binding domain; Region: CoA_binding; smart00881 756499006995 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 756499006996 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 756499006997 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 756499006998 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 756499006999 binding surface 756499007000 TPR motif; other site 756499007001 Tetratricopeptide repeat; Region: TPR_12; pfam13424 756499007002 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499007003 Coenzyme A binding pocket [chemical binding]; other site 756499007004 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 756499007005 homodimer interface [polypeptide binding]; other site 756499007006 homotetramer interface [polypeptide binding]; other site 756499007007 active site pocket [active] 756499007008 cleavage site 756499007009 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 756499007010 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 756499007011 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 756499007012 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 756499007013 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 756499007014 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 756499007015 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499007016 homodimer interface [polypeptide binding]; other site 756499007017 catalytic residue [active] 756499007018 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 756499007019 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 756499007020 active site 756499007021 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 756499007022 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 756499007023 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 756499007024 active site 756499007025 dimer interface [polypeptide binding]; other site 756499007026 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 756499007027 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 756499007028 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 756499007029 putative active site [active] 756499007030 metal binding site [ion binding]; metal-binding site 756499007031 homodimer binding site [polypeptide binding]; other site 756499007032 phosphodiesterase; Provisional; Region: PRK12704 756499007033 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 756499007034 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499007035 Zn2+ binding site [ion binding]; other site 756499007036 Mg2+ binding site [ion binding]; other site 756499007037 Uncharacterized protein conserved in bacteria [General function prediction only]; Region: OraA; COG2137 756499007038 recombinase A; Provisional; Region: recA; PRK09354 756499007039 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 756499007040 hexamer interface [polypeptide binding]; other site 756499007041 Walker A motif; other site 756499007042 ATP binding site [chemical binding]; other site 756499007043 Walker B motif; other site 756499007044 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 756499007045 trimer interface [polypeptide binding]; other site 756499007046 active site 756499007047 substrate binding site [chemical binding]; other site 756499007048 CoA binding site [chemical binding]; other site 756499007049 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 756499007050 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 756499007051 ATP binding site [chemical binding]; other site 756499007052 Mg++ binding site [ion binding]; other site 756499007053 motif III; other site 756499007054 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 756499007055 nucleotide binding region [chemical binding]; other site 756499007056 ATP-binding site [chemical binding]; other site 756499007057 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 756499007058 RNA binding site [nucleotide binding]; other site 756499007059 competence damage-inducible protein A; Provisional; Region: PRK00549 756499007060 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 756499007061 putative MPT binding site; other site 756499007062 Competence-damaged protein; Region: CinA; pfam02464 756499007063 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 756499007064 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 756499007065 Walker A motif; other site 756499007066 ATP binding site [chemical binding]; other site 756499007067 Walker B motif; other site 756499007068 arginine finger; other site 756499007069 Peptidase family M41; Region: Peptidase_M41; pfam01434 756499007070 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 756499007071 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 756499007072 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 756499007073 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 756499007074 FeS/SAM binding site; other site 756499007075 TRAM domain; Region: TRAM; cl01282 756499007076 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 756499007077 hypothetical protein; Provisional; Region: PRK00955 756499007078 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 756499007079 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 756499007080 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 756499007081 Helix-turn-helix domain; Region: HTH_25; pfam13413 756499007082 non-specific DNA binding site [nucleotide binding]; other site 756499007083 salt bridge; other site 756499007084 sequence-specific DNA binding site [nucleotide binding]; other site 756499007085 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 756499007086 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 756499007087 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 756499007088 tRNA 2-selenouridine synthase; Region: tRNA_sel_U_synt; TIGR03167 756499007089 active site residue [active] 756499007090 AAA domain; Region: AAA_17; cl17253 756499007091 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 756499007092 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 756499007093 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 756499007094 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 756499007095 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 756499007096 active site 756499007097 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 756499007098 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499007099 Walker A/P-loop; other site 756499007100 ATP binding site [chemical binding]; other site 756499007101 Q-loop/lid; other site 756499007102 ABC transporter signature motif; other site 756499007103 Walker B; other site 756499007104 D-loop; other site 756499007105 H-loop/switch region; other site 756499007106 ABC transporter; Region: ABC_tran_2; pfam12848 756499007107 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 756499007108 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 756499007109 catalytic core [active] 756499007110 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 756499007111 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 756499007112 XdhC Rossmann domain; Region: XdhC_C; pfam13478 756499007113 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 756499007114 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 756499007115 Ligand binding site; other site 756499007116 metal-binding site 756499007117 tRNA 2'-O-methylase; Reviewed; Region: PRK12703 756499007118 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 756499007119 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 756499007120 acyl-activating enzyme (AAE) consensus motif; other site 756499007121 active site 756499007122 AMP binding site [chemical binding]; other site 756499007123 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 756499007124 Radical SAM superfamily; Region: Radical_SAM; pfam04055 756499007125 FeS/SAM binding site; other site 756499007126 Methyltransferase domain; Region: Methyltransf_31; pfam13847 756499007127 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 756499007128 S-adenosylmethionine binding site [chemical binding]; other site 756499007129 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 756499007130 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 756499007131 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 756499007132 Cysteine-rich domain; Region: CCG; pfam02754 756499007133 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 756499007134 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 756499007135 catalytic loop [active] 756499007136 iron binding site [ion binding]; other site 756499007137 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 756499007138 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 756499007139 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 756499007140 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 756499007141 GAF domain; Region: GAF; pfam01590 756499007142 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 756499007143 putative active site [active] 756499007144 heme pocket [chemical binding]; other site 756499007145 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 756499007146 Walker A motif; other site 756499007147 ATP binding site [chemical binding]; other site 756499007148 Walker B motif; other site 756499007149 arginine finger; other site 756499007150 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 756499007151 Uncharacterized conserved protein [Function unknown]; Region: COG0398 756499007152 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 756499007153 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 756499007154 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 756499007155 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 756499007156 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 756499007157 molybdopterin cofactor binding site; other site 756499007158 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 756499007159 molybdopterin cofactor binding site; other site 756499007160 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 756499007161 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 756499007162 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 756499007163 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499007164 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 756499007165 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 756499007166 Sulfate transporter family; Region: Sulfate_transp; pfam00916 756499007167 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 756499007168 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 756499007169 Gamma carbonic anhydrases (CA): Carbonic anhydrases are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed...; Region: LbH_gamma_CA; cd00710 756499007170 trimer interface [polypeptide binding]; other site 756499007171 active site 756499007172 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 756499007173 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 756499007174 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 756499007175 ligand binding site [chemical binding]; other site 756499007176 flexible hinge region; other site 756499007177 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 756499007178 putative switch regulator; other site 756499007179 non-specific DNA interactions [nucleotide binding]; other site 756499007180 DNA binding site [nucleotide binding] 756499007181 sequence specific DNA binding site [nucleotide binding]; other site 756499007182 putative cAMP binding site [chemical binding]; other site 756499007183 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 756499007184 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 756499007185 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 756499007186 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 756499007187 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 756499007188 non-specific DNA binding site [nucleotide binding]; other site 756499007189 salt bridge; other site 756499007190 sequence-specific DNA binding site [nucleotide binding]; other site 756499007191 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 756499007192 S-adenosylmethionine binding site [chemical binding]; other site 756499007193 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 756499007194 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 756499007195 active site 756499007196 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 756499007197 active site 2 [active] 756499007198 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 756499007199 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 756499007200 putative substrate translocation pore; other site 756499007201 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 756499007202 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 756499007203 ligand binding site [chemical binding]; other site 756499007204 flexible hinge region; other site 756499007205 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 756499007206 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 756499007207 Walker A motif; other site 756499007208 ATP binding site [chemical binding]; other site 756499007209 Walker B motif; other site 756499007210 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 756499007211 4Fe-4S binding domain; Region: Fer4_5; pfam12801 756499007212 glucokinase, proteobacterial type; Region: glk; TIGR00749 756499007213 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 756499007214 nucleotide binding site [chemical binding]; other site 756499007215 Transposase, Mutator family; Region: Transposase_mut; pfam00872 756499007216 MULE transposase domain; Region: MULE; pfam10551 756499007217 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 756499007218 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499007219 active site 756499007220 phosphorylation site [posttranslational modification] 756499007221 intermolecular recognition site; other site 756499007222 dimerization interface [polypeptide binding]; other site 756499007223 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 756499007224 DNA binding residues [nucleotide binding] 756499007225 dimerization interface [polypeptide binding]; other site 756499007226 Trans-Isoprenyl Diphosphate Synthases; Region: Trans_IPPS; cd00867 756499007227 substrate binding pocket [chemical binding]; other site 756499007228 substrate-Mg2+ binding site; other site 756499007229 aspartate-rich region 1; other site 756499007230 aspartate-rich region 2; other site 756499007231 L-lactate permease; Region: Lactate_perm; cl00701 756499007232 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 756499007233 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14096 756499007234 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 756499007235 active site 756499007236 dimer interface [polypeptide binding]; other site 756499007237 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 756499007238 dimer interface [polypeptide binding]; other site 756499007239 active site 756499007240 putative bifunctional 4-alpha-glucanotransferase/glycogen debranching enzyme; Provisional; Region: PRK14510 756499007241 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 756499007242 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 756499007243 active site 756499007244 homodimer interface [polypeptide binding]; other site 756499007245 catalytic site [active] 756499007246 4-alpha-glucanotransferase; Provisional; Region: PRK14508 756499007247 glycogen synthase; Provisional; Region: glgA; PRK00654 756499007248 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 756499007249 ADP-binding pocket [chemical binding]; other site 756499007250 homodimer interface [polypeptide binding]; other site 756499007251 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 756499007252 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 756499007253 ligand binding site; other site 756499007254 oligomer interface; other site 756499007255 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 756499007256 dimer interface [polypeptide binding]; other site 756499007257 N-terminal domain interface [polypeptide binding]; other site 756499007258 sulfate 1 binding site; other site 756499007259 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 756499007260 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 756499007261 ligand binding site; other site 756499007262 oligomer interface; other site 756499007263 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 756499007264 dimer interface [polypeptide binding]; other site 756499007265 N-terminal domain interface [polypeptide binding]; other site 756499007266 sulfate 1 binding site; other site 756499007267 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 756499007268 homodimer interface [polypeptide binding]; other site 756499007269 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 756499007270 active site pocket [active] 756499007271 glycogen branching enzyme; Provisional; Region: PRK12313 756499007272 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 756499007273 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 756499007274 active site 756499007275 catalytic site [active] 756499007276 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 756499007277 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 756499007278 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 756499007279 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 756499007280 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 756499007281 active site 756499007282 metal binding site [ion binding]; metal-binding site 756499007283 Uncharacterized conserved protein [Function unknown]; Region: COG3603 756499007284 Family description; Region: ACT_7; pfam13840 756499007285 Protein of unknown function (DUF975); Region: DUF975; cl10504 756499007286 YCII-related domain; Region: YCII; cl00999 756499007287 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 756499007288 Transposase; Region: DEDD_Tnp_IS110; pfam01548 756499007289 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 756499007290 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 756499007291 nudix motif; other site 756499007292 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 756499007293 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 756499007294 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 756499007295 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 756499007296 active site 756499007297 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 756499007298 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 756499007299 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 756499007300 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 756499007301 Sulfatase; Region: Sulfatase; pfam00884 756499007302 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 756499007303 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 756499007304 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 756499007305 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_2; cd04602 756499007306 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 756499007307 active site 756499007308 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 756499007309 HD domain; Region: HD_3; pfam13023 756499007310 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 756499007311 Ligand Binding Site [chemical binding]; other site 756499007312 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 756499007313 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 756499007314 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499007315 Walker A/P-loop; other site 756499007316 ATP binding site [chemical binding]; other site 756499007317 Q-loop/lid; other site 756499007318 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 756499007319 ABC transporter signature motif; other site 756499007320 Walker B; other site 756499007321 D-loop; other site 756499007322 ABC transporter; Region: ABC_tran_2; pfam12848 756499007323 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 756499007324 peptidase T; Region: peptidase-T; TIGR01882 756499007325 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 756499007326 metal binding site [ion binding]; metal-binding site 756499007327 dimer interface [polypeptide binding]; other site 756499007328 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 756499007329 Major Facilitator Superfamily; Region: MFS_1; pfam07690 756499007330 putative substrate translocation pore; other site 756499007331 TSCPD domain; Region: TSCPD; cl14834 756499007332 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 756499007333 FAD binding domain; Region: FAD_binding_4; pfam01565 756499007334 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 756499007335 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 756499007336 dimer interface [polypeptide binding]; other site 756499007337 phosphorylation site [posttranslational modification] 756499007338 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499007339 ATP binding site [chemical binding]; other site 756499007340 Mg2+ binding site [ion binding]; other site 756499007341 G-X-G motif; other site 756499007342 heat shock protein 90; Provisional; Region: PRK05218 756499007343 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499007344 ATP binding site [chemical binding]; other site 756499007345 Mg2+ binding site [ion binding]; other site 756499007346 G-X-G motif; other site 756499007347 RmuC family; Region: RmuC; pfam02646 756499007348 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 756499007349 Protein export membrane protein; Region: SecD_SecF; cl14618 756499007350 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 756499007351 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 756499007352 HlyD family secretion protein; Region: HlyD_3; pfam13437 756499007353 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 756499007354 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 756499007355 DNA topoisomerase III; Provisional; Region: PRK07726 756499007356 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 756499007357 active site 756499007358 putative interdomain interaction site [polypeptide binding]; other site 756499007359 putative metal-binding site [ion binding]; other site 756499007360 putative nucleotide binding site [chemical binding]; other site 756499007361 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 756499007362 domain I; other site 756499007363 DNA binding groove [nucleotide binding] 756499007364 phosphate binding site [ion binding]; other site 756499007365 domain II; other site 756499007366 domain III; other site 756499007367 nucleotide binding site [chemical binding]; other site 756499007368 catalytic site [active] 756499007369 domain IV; other site 756499007370 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 756499007371 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 756499007372 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499007373 Walker A/P-loop; other site 756499007374 ATP binding site [chemical binding]; other site 756499007375 Q-loop/lid; other site 756499007376 ABC transporter signature motif; other site 756499007377 Walker B; other site 756499007378 D-loop; other site 756499007379 H-loop/switch region; other site 756499007380 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 756499007381 CAAX protease self-immunity; Region: Abi; pfam02517 756499007382 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 756499007383 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 756499007384 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 756499007385 aspartate kinase; Validated; Region: PRK09181 756499007386 AAK_AK-Ectoine: Amino Acid Kinase Superfamily (AAK), AK-Ectoine; this CD includes the N-terminal catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium...; Region: AAK_AK-Ectoine; cd04248 756499007387 putative catalytic residues [active] 756499007388 putative nucleotide binding site [chemical binding]; other site 756499007389 putative aspartate binding site [chemical binding]; other site 756499007390 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 756499007391 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 756499007392 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 756499007393 endonuclease III; Region: ENDO3c; smart00478 756499007394 minor groove reading motif; other site 756499007395 helix-hairpin-helix signature motif; other site 756499007396 substrate binding pocket [chemical binding]; other site 756499007397 active site 756499007398 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 756499007399 Coenzyme A binding pocket [chemical binding]; other site 756499007400 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 756499007401 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499007402 Coenzyme A binding pocket [chemical binding]; other site 756499007403 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 756499007404 ABC1 family; Region: ABC1; pfam03109 756499007405 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 756499007406 active site 756499007407 ATP binding site [chemical binding]; other site 756499007408 Uncharacterized conserved protein [Function unknown]; Region: COG3937 756499007409 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 756499007410 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 756499007411 putative binding site residues; other site 756499007412 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 756499007413 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 756499007414 ABC-ATPase subunit interface; other site 756499007415 dimer interface [polypeptide binding]; other site 756499007416 putative PBP binding regions; other site 756499007417 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 756499007418 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 756499007419 Walker A/P-loop; other site 756499007420 ATP binding site [chemical binding]; other site 756499007421 Q-loop/lid; other site 756499007422 ABC transporter signature motif; other site 756499007423 Walker B; other site 756499007424 D-loop; other site 756499007425 H-loop/switch region; other site 756499007426 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 756499007427 NlpC/P60 family; Region: NLPC_P60; pfam00877 756499007428 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 756499007429 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 756499007430 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 756499007431 G1 box; other site 756499007432 putative GEF interaction site [polypeptide binding]; other site 756499007433 GTP/Mg2+ binding site [chemical binding]; other site 756499007434 Switch I region; other site 756499007435 G2 box; other site 756499007436 G3 box; other site 756499007437 Switch II region; other site 756499007438 G4 box; other site 756499007439 G5 box; other site 756499007440 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 756499007441 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 756499007442 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 756499007443 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 756499007444 Cysteine-rich domain; Region: CCG; pfam02754 756499007445 Cysteine-rich domain; Region: CCG; pfam02754 756499007446 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 756499007447 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 756499007448 4Fe-4S binding domain; Region: Fer4_6; pfam12837 756499007449 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 756499007450 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 756499007451 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 756499007452 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 756499007453 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 756499007454 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 756499007455 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 756499007456 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 756499007457 Predicted membrane protein [Function unknown]; Region: COG2323 756499007458 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 756499007459 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 756499007460 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 756499007461 PAS domain; Region: PAS_9; pfam13426 756499007462 putative active site [active] 756499007463 heme pocket [chemical binding]; other site 756499007464 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 756499007465 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 756499007466 metal binding site [ion binding]; metal-binding site 756499007467 active site 756499007468 I-site; other site 756499007469 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 756499007470 Chemotaxis phosphatase CheX; Region: CheX; cl15816 756499007471 Response regulator receiver domain; Region: Response_reg; pfam00072 756499007472 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499007473 active site 756499007474 phosphorylation site [posttranslational modification] 756499007475 intermolecular recognition site; other site 756499007476 dimerization interface [polypeptide binding]; other site 756499007477 heat shock protein HtpX; Provisional; Region: PRK03982 756499007478 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 756499007479 Domain of unknown function DUF21; Region: DUF21; pfam01595 756499007480 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 756499007481 Transporter associated domain; Region: CorC_HlyC; pfam03471 756499007482 biotin--protein ligase; Provisional; Region: PRK08330 756499007483 plasmid segregation protein ParM; Provisional; Region: PRK13917 756499007484 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 756499007485 Mg binding site [ion binding]; other site 756499007486 nucleotide binding site [chemical binding]; other site 756499007487 putative protofilament interface [polypeptide binding]; other site 756499007488 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 756499007489 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 756499007490 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 756499007491 Spore germination protein; Region: Spore_permease; cl17796 756499007492 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 756499007493 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 756499007494 Walker A motif; other site 756499007495 ATP binding site [chemical binding]; other site 756499007496 Walker B motif; other site 756499007497 arginine finger; other site 756499007498 GSCFA family; Region: GSCFA; pfam08885 756499007499 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 756499007500 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 756499007501 putative dimer interface [polypeptide binding]; other site 756499007502 active site pocket [active] 756499007503 putative cataytic base [active] 756499007504 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 756499007505 homotrimer interface [polypeptide binding]; other site 756499007506 Walker A motif; other site 756499007507 GTP binding site [chemical binding]; other site 756499007508 Walker B motif; other site 756499007509 cobalamin synthase; Reviewed; Region: cobS; PRK00235 756499007510 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 756499007511 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 756499007512 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499007513 homodimer interface [polypeptide binding]; other site 756499007514 catalytic residue [active] 756499007515 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 756499007516 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 756499007517 Catalytic site [active] 756499007518 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 756499007519 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 756499007520 metal binding site [ion binding]; metal-binding site 756499007521 active site 756499007522 I-site; other site 756499007523 glycerate kinase; Region: TIGR00045 756499007524 yybP-ykoY leader; Desde_2758 756499007525 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 756499007526 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 756499007527 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 756499007528 putative substrate translocation pore; other site 756499007529 Transcriptional regulators [Transcription]; Region: FadR; COG2186 756499007530 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 756499007531 DNA-binding site [nucleotide binding]; DNA binding site 756499007532 FCD domain; Region: FCD; pfam07729 756499007533 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 756499007534 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 756499007535 catalytic loop [active] 756499007536 iron binding site [ion binding]; other site 756499007537 Guanylyl transferase CofC like; Region: CofC; cl17472 756499007538 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 756499007539 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 756499007540 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 756499007541 ABC transporter; Region: ABC_tran_2; pfam12848 756499007542 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 756499007543 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 756499007544 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 756499007545 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 756499007546 Transposase domain (DUF772); Region: DUF772; pfam05598 756499007547 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 756499007548 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 756499007549 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 756499007550 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 756499007551 CO dehydrogenase/acetyl-CoA synthase gamma subunit (corrinoid Fe-S protein) [Energy production and conversion]; Region: CdhE; COG1456 756499007552 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 756499007553 Low molecular weight phosphatase family; Region: LMWPc; cd00115 756499007554 active site 756499007555 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 756499007556 dimerization interface [polypeptide binding]; other site 756499007557 putative DNA binding site [nucleotide binding]; other site 756499007558 putative Zn2+ binding site [ion binding]; other site 756499007559 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 756499007560 RNA binding site [nucleotide binding]; other site 756499007561 GTPase RsgA; Reviewed; Region: PRK00098 756499007562 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 756499007563 GTP/Mg2+ binding site [chemical binding]; other site 756499007564 G4 box; other site 756499007565 G5 box; other site 756499007566 Switch I region; other site 756499007567 G2 box; other site 756499007568 G3 box; other site 756499007569 Switch II region; other site 756499007570 RNHCP domain; Region: RNHCP; pfam12647 756499007571 Mor transcription activator family; Region: Mor; cl02360 756499007572 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 756499007573 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499007574 Coenzyme A binding pocket [chemical binding]; other site 756499007575 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 756499007576 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499007577 Zn2+ binding site [ion binding]; other site 756499007578 Mg2+ binding site [ion binding]; other site 756499007579 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 756499007580 hypothetical protein; Provisional; Region: PRK04194 756499007581 FOG: CBS domain [General function prediction only]; Region: COG0517 756499007582 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 756499007583 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 756499007584 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 756499007585 NAD(P) binding site [chemical binding]; other site 756499007586 active site 756499007587 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 756499007588 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 756499007589 substrate binding pocket [chemical binding]; other site 756499007590 chain length determination region; other site 756499007591 substrate-Mg2+ binding site; other site 756499007592 catalytic residues [active] 756499007593 aspartate-rich region 1; other site 756499007594 active site lid residues [active] 756499007595 aspartate-rich region 2; other site 756499007596 Protein of unknown function (DUF2600); Region: DUF2600; pfam10776 756499007597 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 756499007598 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 756499007599 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 756499007600 active site 756499007601 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 756499007602 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 756499007603 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 756499007604 inhibitor-cofactor binding pocket; inhibition site 756499007605 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499007606 catalytic residue [active] 756499007607 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 756499007608 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 756499007609 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 756499007610 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 756499007611 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 756499007612 FeS/SAM binding site; other site 756499007613 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 756499007614 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 756499007615 dimer interface [polypeptide binding]; other site 756499007616 active site 756499007617 Schiff base residues; other site 756499007618 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 756499007619 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 756499007620 FeS/SAM binding site; other site 756499007621 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 756499007622 diphthine synthase; Region: dph5; TIGR00522 756499007623 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 756499007624 active site 756499007625 SAM binding site [chemical binding]; other site 756499007626 homodimer interface [polypeptide binding]; other site 756499007627 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 756499007628 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 756499007629 active site 756499007630 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 756499007631 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 756499007632 domain interfaces; other site 756499007633 active site 756499007634 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 756499007635 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 756499007636 tRNA; other site 756499007637 putative tRNA binding site [nucleotide binding]; other site 756499007638 putative NADP binding site [chemical binding]; other site 756499007639 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 756499007640 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 756499007641 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 756499007642 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 756499007643 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 756499007644 ResB-like family; Region: ResB; pfam05140 756499007645 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 756499007646 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 756499007647 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 756499007648 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 756499007649 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 756499007650 substrate binding pocket [chemical binding]; other site 756499007651 chain length determination region; other site 756499007652 substrate-Mg2+ binding site; other site 756499007653 catalytic residues [active] 756499007654 aspartate-rich region 1; other site 756499007655 active site lid residues [active] 756499007656 aspartate-rich region 2; other site 756499007657 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 756499007658 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 756499007659 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 756499007660 S-adenosylmethionine decarboxylase proenzyme; Provisional; Region: PRK03124 756499007661 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 756499007662 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 756499007663 active site 756499007664 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 756499007665 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 756499007666 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 756499007667 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 756499007668 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 756499007669 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 756499007670 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 756499007671 yybP-ykoY leader; Desde_2816 756499007672 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 756499007673 Transcriptional regulator PadR-like family; Region: PadR; cl17335 756499007674 Predicted transcriptional regulators [Transcription]; Region: COG1695 756499007675 hypothetical protein; Provisional; Region: PRK04435 756499007676 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 756499007677 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 756499007678 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 756499007679 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 756499007680 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 756499007681 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 756499007682 membrane protein; Provisional; Region: PRK14395 756499007683 GTP-binding protein Der; Reviewed; Region: PRK00093 756499007684 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 756499007685 G1 box; other site 756499007686 GTP/Mg2+ binding site [chemical binding]; other site 756499007687 Switch I region; other site 756499007688 G2 box; other site 756499007689 Switch II region; other site 756499007690 G3 box; other site 756499007691 G4 box; other site 756499007692 G5 box; other site 756499007693 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 756499007694 G1 box; other site 756499007695 GTP/Mg2+ binding site [chemical binding]; other site 756499007696 Switch I region; other site 756499007697 G2 box; other site 756499007698 G3 box; other site 756499007699 Switch II region; other site 756499007700 G4 box; other site 756499007701 G5 box; other site 756499007702 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 756499007703 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 756499007704 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 756499007705 Protein of unknown function (DUF512); Region: DUF512; pfam04459 756499007706 cell division protein FtsW; Region: ftsW; TIGR02614 756499007707 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 756499007708 LytB protein; Region: LYTB; cl00507 756499007709 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 756499007710 RNA binding site [nucleotide binding]; other site 756499007711 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 756499007712 RNA binding site [nucleotide binding]; other site 756499007713 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 756499007714 RNA binding site [nucleotide binding]; other site 756499007715 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 756499007716 RNA binding site [nucleotide binding]; other site 756499007717 domain interface; other site 756499007718 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 756499007719 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 756499007720 putative acyl-acceptor binding pocket; other site 756499007721 cytidylate kinase; Provisional; Region: cmk; PRK00023 756499007722 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 756499007723 CMP-binding site; other site 756499007724 The sites determining sugar specificity; other site 756499007725 CAAX protease self-immunity; Region: Abi; pfam02517 756499007726 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 756499007727 L-lactate permease; Region: Lactate_perm; cl00701 756499007728 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 756499007729 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 756499007730 hinge; other site 756499007731 active site 756499007732 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 756499007733 prephenate dehydrogenase; Validated; Region: PRK08507 756499007734 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 756499007735 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 756499007736 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 756499007737 homotrimer interaction site [polypeptide binding]; other site 756499007738 active site 756499007739 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 756499007740 RNA binding site [nucleotide binding]; other site 756499007741 hexamer interface [polypeptide binding]; other site 756499007742 Histidine-zinc binding site [chemical binding]; other site 756499007743 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 756499007744 GEMM cis-regulatory element; Desde_2843 756499007745 flavoprotein, HI0933 family; Region: TIGR00275 756499007746 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 756499007747 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 756499007748 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 756499007749 Transcriptional regulators [Transcription]; Region: FadR; COG2186 756499007750 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 756499007751 DNA-binding site [nucleotide binding]; DNA binding site 756499007752 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 756499007753 Transcriptional regulators [Transcription]; Region: FadR; COG2186 756499007754 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 756499007755 DNA-binding site [nucleotide binding]; DNA binding site 756499007756 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 756499007757 L-lactate permease; Region: Lactate_perm; cl00701 756499007758 glycolate transporter; Provisional; Region: PRK09695 756499007759 L-lactate permease; Region: Lactate_perm; cl00701 756499007760 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 756499007761 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 756499007762 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 756499007763 RNA binding surface [nucleotide binding]; other site 756499007764 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 756499007765 active site 756499007766 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 756499007767 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 756499007768 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 756499007769 active site 756499007770 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 756499007771 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 756499007772 sporulation protein YtfJ; Region: spore_ytfJ; TIGR02874 756499007773 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 756499007774 MarR family; Region: MarR_2; pfam12802 756499007775 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 756499007776 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 756499007777 ScpA/B protein; Region: ScpA_ScpB; cl00598 756499007778 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 756499007779 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 756499007780 active site 756499007781 HIGH motif; other site 756499007782 dimer interface [polypeptide binding]; other site 756499007783 KMSKS motif; other site 756499007784 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 756499007785 Peptidase family M50; Region: Peptidase_M50; pfam02163 756499007786 active site 756499007787 putative substrate binding region [chemical binding]; other site 756499007788 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 756499007789 DHH family; Region: DHH; pfam01368 756499007790 DHHA1 domain; Region: DHHA1; pfam02272 756499007791 FOG: CBS domain [General function prediction only]; Region: COG0517 756499007792 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 756499007793 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 756499007794 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 756499007795 active site 756499007796 NTP binding site [chemical binding]; other site 756499007797 metal binding triad [ion binding]; metal-binding site 756499007798 Transcriptional regulator [Transcription]; Region: LytR; COG1316 756499007799 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 756499007800 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 756499007801 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 756499007802 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 756499007803 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 756499007804 SpoVA protein; Region: SpoVA; cl04298 756499007805 stage V sporulation protein AD; Validated; Region: PRK08304 756499007806 stage V sporulation protein AD; Provisional; Region: PRK12404 756499007807 SpoVA protein; Region: SpoVA; cl04298 756499007808 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 756499007809 anti sigma factor interaction site; other site 756499007810 regulatory phosphorylation site [posttranslational modification]; other site 756499007811 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 756499007812 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499007813 ATP binding site [chemical binding]; other site 756499007814 Mg2+ binding site [ion binding]; other site 756499007815 G-X-G motif; other site 756499007816 sporulation sigma factor SigF; Validated; Region: PRK05572 756499007817 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499007818 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 756499007819 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 756499007820 DNA binding residues [nucleotide binding] 756499007821 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 756499007822 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 756499007823 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 756499007824 CoA binding domain; Region: CoA_binding_2; pfam13380 756499007825 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 756499007826 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 756499007827 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 756499007828 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 756499007829 purine nucleoside phosphorylase; Provisional; Region: PRK08202 756499007830 phosphopentomutase; Provisional; Region: PRK05362 756499007831 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 756499007832 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 756499007833 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 756499007834 active site 756499007835 Int/Topo IB signature motif; other site 756499007836 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 756499007837 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 756499007838 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 756499007839 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 756499007840 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 756499007841 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 756499007842 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 756499007843 acyl-activating enzyme (AAE) consensus motif; other site 756499007844 putative AMP binding site [chemical binding]; other site 756499007845 putative active site [active] 756499007846 putative CoA binding site [chemical binding]; other site 756499007847 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 756499007848 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 756499007849 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 756499007850 active site 756499007851 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 756499007852 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 756499007853 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 756499007854 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 756499007855 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 756499007856 G1 box; other site 756499007857 GTP/Mg2+ binding site [chemical binding]; other site 756499007858 Switch I region; other site 756499007859 G2 box; other site 756499007860 G3 box; other site 756499007861 Switch II region; other site 756499007862 G4 box; other site 756499007863 G5 box; other site 756499007864 Nucleoside recognition; Region: Gate; pfam07670 756499007865 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 756499007866 Nucleoside recognition; Region: Gate; pfam07670 756499007867 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 756499007868 FeoA domain; Region: FeoA; pfam04023 756499007869 Integral membrane protein DUF95; Region: DUF95; cl00572 756499007870 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 756499007871 Y-family of DNA polymerases; Region: PolY; cl12025 756499007872 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 756499007873 dimer interface [polypeptide binding]; other site 756499007874 ADP-ribose binding site [chemical binding]; other site 756499007875 active site 756499007876 nudix motif; other site 756499007877 metal binding site [ion binding]; metal-binding site 756499007878 Beta propeller domain; Region: Beta_propel; pfam09826 756499007879 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 756499007880 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 756499007881 non-specific DNA binding site [nucleotide binding]; other site 756499007882 salt bridge; other site 756499007883 sequence-specific DNA binding site [nucleotide binding]; other site 756499007884 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 756499007885 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 756499007886 metal binding site [ion binding]; metal-binding site 756499007887 active site 756499007888 I-site; other site 756499007889 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 756499007890 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499007891 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 756499007892 DNA binding residues [nucleotide binding] 756499007893 Methyltransferase domain; Region: Methyltransf_31; pfam13847 756499007894 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 756499007895 S-adenosylmethionine binding site [chemical binding]; other site 756499007896 methionine aminopeptidase; Provisional; Region: PRK12318 756499007897 SEC-C motif; Region: SEC-C; pfam02810 756499007898 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 756499007899 active site 756499007900 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 756499007901 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 756499007902 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 756499007903 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499007904 active site 756499007905 phosphorylation site [posttranslational modification] 756499007906 intermolecular recognition site; other site 756499007907 dimerization interface [polypeptide binding]; other site 756499007908 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 756499007909 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 756499007910 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 756499007911 protein binding site [polypeptide binding]; other site 756499007912 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 756499007913 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 756499007914 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 756499007915 Walker A/P-loop; other site 756499007916 ATP binding site [chemical binding]; other site 756499007917 Q-loop/lid; other site 756499007918 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 756499007919 ABC transporter signature motif; other site 756499007920 Walker B; other site 756499007921 D-loop; other site 756499007922 H-loop/switch region; other site 756499007923 Arginine repressor [Transcription]; Region: ArgR; COG1438 756499007924 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 756499007925 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 756499007926 Methyltransferase domain; Region: Methyltransf_31; pfam13847 756499007927 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 756499007928 S-adenosylmethionine binding site [chemical binding]; other site 756499007929 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 756499007930 ATP-NAD kinase; Region: NAD_kinase; pfam01513 756499007931 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 756499007932 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 756499007933 RNA binding surface [nucleotide binding]; other site 756499007934 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 756499007935 S-adenosylmethionine binding site [chemical binding]; other site 756499007936 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 756499007937 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 756499007938 TPP-binding site; other site 756499007939 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 756499007940 PYR/PP interface [polypeptide binding]; other site 756499007941 dimer interface [polypeptide binding]; other site 756499007942 TPP binding site [chemical binding]; other site 756499007943 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 756499007944 Divergent PAP2 family; Region: DUF212; pfam02681 756499007945 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 756499007946 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 756499007947 substrate binding pocket [chemical binding]; other site 756499007948 chain length determination region; other site 756499007949 substrate-Mg2+ binding site; other site 756499007950 catalytic residues [active] 756499007951 aspartate-rich region 1; other site 756499007952 active site lid residues [active] 756499007953 aspartate-rich region 2; other site 756499007954 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 756499007955 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 756499007956 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 756499007957 generic binding surface II; other site 756499007958 generic binding surface I; other site 756499007959 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 756499007960 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 756499007961 Cl binding site [ion binding]; other site 756499007962 oligomer interface [polypeptide binding]; other site 756499007963 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 756499007964 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 756499007965 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 756499007966 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 756499007967 homodimer interface [polypeptide binding]; other site 756499007968 NADP binding site [chemical binding]; other site 756499007969 substrate binding site [chemical binding]; other site 756499007970 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 756499007971 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 756499007972 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499007973 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 756499007974 DNA binding residues [nucleotide binding] 756499007975 Protein of unknown function (DUF507); Region: DUF507; cl01112 756499007976 Putative amidase domain; Region: Amidase_6; pfam12671 756499007977 putative oxidoreductase; Provisional; Region: PRK12831 756499007978 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 756499007979 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 756499007980 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 756499007981 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 756499007982 FAD binding pocket [chemical binding]; other site 756499007983 FAD binding motif [chemical binding]; other site 756499007984 phosphate binding motif [ion binding]; other site 756499007985 beta-alpha-beta structure motif; other site 756499007986 NAD binding pocket [chemical binding]; other site 756499007987 Iron coordination center [ion binding]; other site 756499007988 Metal-dependent proteases with possible chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: QRI7; COG0533 756499007989 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 756499007990 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 756499007991 putative RNA binding site [nucleotide binding]; other site 756499007992 Asp23 family; Region: Asp23; cl00574 756499007993 Asp23 family; Region: Asp23; pfam03780 756499007994 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 756499007995 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 756499007996 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 756499007997 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 756499007998 pyruvate carboxylase subunit B; Validated; Region: PRK09282 756499007999 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 756499008000 active site 756499008001 catalytic residues [active] 756499008002 metal binding site [ion binding]; metal-binding site 756499008003 homodimer binding site [polypeptide binding]; other site 756499008004 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 756499008005 carboxyltransferase (CT) interaction site; other site 756499008006 biotinylation site [posttranslational modification]; other site 756499008007 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 756499008008 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 756499008009 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 756499008010 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; pfam09546 756499008011 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 756499008012 stage III sporulation protein SpoAB; Provisional; Region: PRK08307 756499008013 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 756499008014 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 756499008015 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 756499008016 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 756499008017 elongation factor P; Validated; Region: PRK00529 756499008018 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 756499008019 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 756499008020 RNA binding site [nucleotide binding]; other site 756499008021 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 756499008022 RNA binding site [nucleotide binding]; other site 756499008023 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 756499008024 Dehydroquinase class II; Region: DHquinase_II; pfam01220 756499008025 trimer interface [polypeptide binding]; other site 756499008026 active site 756499008027 dimer interface [polypeptide binding]; other site 756499008028 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499008029 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 756499008030 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 756499008031 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 756499008032 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 756499008033 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 756499008034 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 756499008035 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 756499008036 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 756499008037 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 756499008038 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 756499008039 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 756499008040 Walker A motif; other site 756499008041 ATP binding site [chemical binding]; other site 756499008042 Walker B motif; other site 756499008043 PilX N-terminal; Region: PilX_N; pfam14341 756499008044 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 756499008045 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 756499008046 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 756499008047 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 756499008048 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 756499008049 active site 756499008050 dimer interface [polypeptide binding]; other site 756499008051 metal binding site [ion binding]; metal-binding site 756499008052 shikimate kinase; Provisional; Region: PRK13947 756499008053 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 756499008054 ADP binding site [chemical binding]; other site 756499008055 magnesium binding site [ion binding]; other site 756499008056 putative shikimate binding site; other site 756499008057 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 756499008058 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 756499008059 Tetramer interface [polypeptide binding]; other site 756499008060 active site 756499008061 FMN-binding site [chemical binding]; other site 756499008062 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 756499008063 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 756499008064 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 756499008065 shikimate binding site; other site 756499008066 NAD(P) binding site [chemical binding]; other site 756499008067 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 756499008068 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 756499008069 active site 756499008070 motif I; other site 756499008071 motif II; other site 756499008072 phosphatidylserine decarboxylase; Provisional; Region: PRK00723 756499008073 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 756499008074 AzlC protein; Region: AzlC; cl00570 756499008075 putative DNA binding site [nucleotide binding]; other site 756499008076 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 756499008077 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 756499008078 putative Zn2+ binding site [ion binding]; other site 756499008079 AsnC family; Region: AsnC_trans_reg; pfam01037 756499008080 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 756499008081 butyrate kinase; Provisional; Region: PRK03011 756499008082 putative acyltransferase; Provisional; Region: PRK05790 756499008083 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 756499008084 dimer interface [polypeptide binding]; other site 756499008085 active site 756499008086 sporulation sigma factor SigK; Reviewed; Region: PRK05803 756499008087 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499008088 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 756499008089 DNA binding residues [nucleotide binding] 756499008090 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 756499008091 Peptidase family U32; Region: Peptidase_U32; pfam01136 756499008092 YceG-like family; Region: YceG; pfam02618 756499008093 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 756499008094 dimerization interface [polypeptide binding]; other site 756499008095 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 756499008096 VanW like protein; Region: VanW; pfam04294 756499008097 G5 domain; Region: G5; pfam07501 756499008098 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 756499008099 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 756499008100 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 756499008101 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 756499008102 active site 756499008103 catalytic tetrad [active] 756499008104 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 756499008105 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 756499008106 hypothetical protein; Provisional; Region: PRK05473 756499008107 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 756499008108 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 756499008109 motif 1; other site 756499008110 active site 756499008111 motif 2; other site 756499008112 motif 3; other site 756499008113 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 756499008114 DHHA1 domain; Region: DHHA1; pfam02272 756499008115 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 756499008116 non-specific DNA binding site [nucleotide binding]; other site 756499008117 salt bridge; other site 756499008118 sequence-specific DNA binding site [nucleotide binding]; other site 756499008119 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 756499008120 Domain of unknown function DUF20; Region: UPF0118; pfam01594 756499008121 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 756499008122 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 756499008123 PRC-barrel domain; Region: PRC; pfam05239 756499008124 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 756499008125 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 756499008126 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 756499008127 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 756499008128 trimerization site [polypeptide binding]; other site 756499008129 active site 756499008130 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 756499008131 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 756499008132 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 756499008133 catalytic residue [active] 756499008134 Transcriptional regulator; Region: Rrf2; cl17282 756499008135 Rrf2 family protein; Region: rrf2_super; TIGR00738 756499008136 recombination factor protein RarA; Reviewed; Region: PRK13342 756499008137 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 756499008138 Walker A motif; other site 756499008139 ATP binding site [chemical binding]; other site 756499008140 Walker B motif; other site 756499008141 arginine finger; other site 756499008142 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 756499008143 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 756499008144 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 756499008145 catalytic residues [active] 756499008146 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; cd10148 756499008147 putative homodimer interface [polypeptide binding]; other site 756499008148 putative homotetramer interface [polypeptide binding]; other site 756499008149 putative allosteric switch controlling residues; other site 756499008150 putative metal binding site [ion binding]; other site 756499008151 putative homodimer-homodimer interface [polypeptide binding]; other site 756499008152 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 756499008153 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 756499008154 dimer interface [polypeptide binding]; other site 756499008155 anticodon binding site; other site 756499008156 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 756499008157 homodimer interface [polypeptide binding]; other site 756499008158 motif 1; other site 756499008159 active site 756499008160 motif 2; other site 756499008161 GAD domain; Region: GAD; pfam02938 756499008162 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 756499008163 motif 3; other site 756499008164 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 756499008165 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 756499008166 dimer interface [polypeptide binding]; other site 756499008167 motif 1; other site 756499008168 active site 756499008169 motif 2; other site 756499008170 motif 3; other site 756499008171 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 756499008172 anticodon binding site; other site 756499008173 putative septicolysin, cholesterol-dependent cytolysin family and related proteins; Region: septicolysin_like; cd12208 756499008174 oligomer interface [polypeptide binding]; other site 756499008175 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499008176 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 756499008177 dimer interface [polypeptide binding]; other site 756499008178 phosphorylation site [posttranslational modification] 756499008179 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499008180 ATP binding site [chemical binding]; other site 756499008181 Mg2+ binding site [ion binding]; other site 756499008182 G-X-G motif; other site 756499008183 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499008184 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499008185 active site 756499008186 phosphorylation site [posttranslational modification] 756499008187 intermolecular recognition site; other site 756499008188 dimerization interface [polypeptide binding]; other site 756499008189 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 756499008190 DNA binding site [nucleotide binding] 756499008191 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 756499008192 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 756499008193 ATP-binding cassette domain of MutS-like homolog; Region: ABC_MutS-like; cd03283 756499008194 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 756499008195 Walker A/P-loop; other site 756499008196 ATP binding site [chemical binding]; other site 756499008197 Q-loop/lid; other site 756499008198 ABC transporter signature motif; other site 756499008199 Walker B; other site 756499008200 D-loop; other site 756499008201 H-loop/switch region; other site 756499008202 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 756499008203 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 756499008204 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499008205 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 756499008206 DNA binding residues [nucleotide binding] 756499008207 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 756499008208 putative active site [active] 756499008209 Protein of unknown function (DUF458); Region: DUF458; pfam04308 756499008210 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 756499008211 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 756499008212 FeS/SAM binding site; other site 756499008213 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 756499008214 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 756499008215 putative active site [active] 756499008216 dimerization interface [polypeptide binding]; other site 756499008217 putative tRNAtyr binding site [nucleotide binding]; other site 756499008218 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 756499008219 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499008220 Zn2+ binding site [ion binding]; other site 756499008221 Mg2+ binding site [ion binding]; other site 756499008222 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 756499008223 synthetase active site [active] 756499008224 NTP binding site [chemical binding]; other site 756499008225 metal binding site [ion binding]; metal-binding site 756499008226 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 756499008227 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 756499008228 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 756499008229 active site 756499008230 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 756499008231 DHH family; Region: DHH; pfam01368 756499008232 DHHA1 domain; Region: DHHA1; pfam02272 756499008233 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 756499008234 putative active site [active] 756499008235 putative metal binding site [ion binding]; other site 756499008236 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 756499008237 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 756499008238 putative valine binding site [chemical binding]; other site 756499008239 dimer interface [polypeptide binding]; other site 756499008240 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 756499008241 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 756499008242 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 756499008243 PYR/PP interface [polypeptide binding]; other site 756499008244 dimer interface [polypeptide binding]; other site 756499008245 TPP binding site [chemical binding]; other site 756499008246 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 756499008247 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 756499008248 TPP-binding site [chemical binding]; other site 756499008249 dimer interface [polypeptide binding]; other site 756499008250 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 756499008251 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 756499008252 Protein export membrane protein; Region: SecD_SecF; cl14618 756499008253 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 756499008254 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 756499008255 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499008256 Zn2+ binding site [ion binding]; other site 756499008257 Mg2+ binding site [ion binding]; other site 756499008258 EcsC protein family; Region: EcsC; pfam12787 756499008259 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 756499008260 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 756499008261 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 756499008262 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 756499008263 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 756499008264 Stage II sporulation protein; Region: SpoIID; pfam08486 756499008265 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 756499008266 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 756499008267 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 756499008268 Walker A motif; other site 756499008269 ATP binding site [chemical binding]; other site 756499008270 Walker B motif; other site 756499008271 arginine finger; other site 756499008272 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 756499008273 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 756499008274 RuvA N terminal domain; Region: RuvA_N; pfam01330 756499008275 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 756499008276 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 756499008277 active site 756499008278 putative DNA-binding cleft [nucleotide binding]; other site 756499008279 dimer interface [polypeptide binding]; other site 756499008280 hypothetical protein; Validated; Region: PRK00110 756499008281 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 756499008282 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 756499008283 Cytochrome c552; Region: Cytochrom_C552; pfam02335 756499008284 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 756499008285 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 756499008286 dimerization interface [polypeptide binding]; other site 756499008287 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 756499008288 ATP binding site [chemical binding]; other site 756499008289 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 756499008290 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 756499008291 HupF/HypC family; Region: HupF_HypC; pfam01455 756499008292 Acylphosphatase; Region: Acylphosphatase; pfam00708 756499008293 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 756499008294 HypF finger; Region: zf-HYPF; pfam07503 756499008295 HypF finger; Region: zf-HYPF; pfam07503 756499008296 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 756499008297 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 756499008298 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 756499008299 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 756499008300 acyl-activating enzyme (AAE) consensus motif; other site 756499008301 putative AMP binding site [chemical binding]; other site 756499008302 putative active site [active] 756499008303 putative CoA binding site [chemical binding]; other site 756499008304 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 756499008305 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 756499008306 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 756499008307 substrate binding pocket [chemical binding]; other site 756499008308 membrane-bound complex binding site; other site 756499008309 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 756499008310 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 756499008311 Walker A/P-loop; other site 756499008312 ATP binding site [chemical binding]; other site 756499008313 Q-loop/lid; other site 756499008314 ABC transporter signature motif; other site 756499008315 Walker B; other site 756499008316 D-loop; other site 756499008317 H-loop/switch region; other site 756499008318 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 756499008319 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 756499008320 dimer interface [polypeptide binding]; other site 756499008321 conserved gate region; other site 756499008322 putative PBP binding loops; other site 756499008323 ABC-ATPase subunit interface; other site 756499008324 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 756499008325 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 756499008326 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 756499008327 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 756499008328 dihydrodipicolinate synthase; Region: dapA; TIGR00674 756499008329 dimer interface [polypeptide binding]; other site 756499008330 active site 756499008331 catalytic residue [active] 756499008332 aspartate kinase I; Reviewed; Region: PRK08210 756499008333 AAK_AKi-DapG-BS: Amino Acid Kinase Superfamily (AAK), AKi-DapG; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional class enzyme found in Bacilli; Region: AAK_AKi-DapG-BS; cd04260 756499008334 putative catalytic residues [active] 756499008335 putative nucleotide binding site [chemical binding]; other site 756499008336 putative aspartate binding site [chemical binding]; other site 756499008337 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 756499008338 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 756499008339 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 756499008340 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 756499008341 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 756499008342 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 756499008343 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 756499008344 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 756499008345 NAD binding site [chemical binding]; other site 756499008346 dihydrodipicolinate reductase; Provisional; Region: PRK00048 756499008347 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 756499008348 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 756499008349 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 756499008350 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 756499008351 trimer interface [polypeptide binding]; other site 756499008352 active site 756499008353 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 756499008354 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 756499008355 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 756499008356 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 756499008357 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 756499008358 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 756499008359 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 756499008360 NodB motif; other site 756499008361 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 756499008362 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 756499008363 RNase E interface [polypeptide binding]; other site 756499008364 trimer interface [polypeptide binding]; other site 756499008365 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 756499008366 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 756499008367 RNase E interface [polypeptide binding]; other site 756499008368 trimer interface [polypeptide binding]; other site 756499008369 active site 756499008370 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 756499008371 putative nucleic acid binding region [nucleotide binding]; other site 756499008372 G-X-X-G motif; other site 756499008373 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 756499008374 RNA binding site [nucleotide binding]; other site 756499008375 domain interface; other site 756499008376 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 756499008377 16S/18S rRNA binding site [nucleotide binding]; other site 756499008378 S13e-L30e interaction site [polypeptide binding]; other site 756499008379 25S rRNA binding site [nucleotide binding]; other site 756499008380 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 756499008381 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 756499008382 active site 756499008383 Riboflavin kinase; Region: Flavokinase; pfam01687 756499008384 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 756499008385 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 756499008386 RNA binding site [nucleotide binding]; other site 756499008387 active site 756499008388 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 756499008389 DHH family; Region: DHH; pfam01368 756499008390 DHHA1 domain; Region: DHHA1; pfam02272 756499008391 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 756499008392 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 756499008393 Invertebrate innate immunity transcript family; Region: Innate_immun; pfam12782 756499008394 translation initiation factor IF-2; Region: IF-2; TIGR00487 756499008395 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 756499008396 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 756499008397 G1 box; other site 756499008398 putative GEF interaction site [polypeptide binding]; other site 756499008399 GTP/Mg2+ binding site [chemical binding]; other site 756499008400 Switch I region; other site 756499008401 G2 box; other site 756499008402 G3 box; other site 756499008403 Switch II region; other site 756499008404 G4 box; other site 756499008405 G5 box; other site 756499008406 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 756499008407 Translation-initiation factor 2; Region: IF-2; pfam11987 756499008408 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 756499008409 Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]; Region: RPL8A; COG1358 756499008410 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 756499008411 putative RNA binding cleft [nucleotide binding]; other site 756499008412 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 756499008413 NusA N-terminal domain; Region: NusA_N; pfam08529 756499008414 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 756499008415 RNA binding site [nucleotide binding]; other site 756499008416 homodimer interface [polypeptide binding]; other site 756499008417 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 756499008418 G-X-X-G motif; other site 756499008419 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 756499008420 G-X-X-G motif; other site 756499008421 ribosome maturation protein RimP; Reviewed; Region: PRK00092 756499008422 Sm and related proteins; Region: Sm_like; cl00259 756499008423 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 756499008424 putative oligomer interface [polypeptide binding]; other site 756499008425 putative RNA binding site [nucleotide binding]; other site 756499008426 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 756499008427 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 756499008428 putative active site [active] 756499008429 putative metal binding site [ion binding]; other site 756499008430 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 756499008431 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 756499008432 ykkC-yxkD leader; Desde_3095 756499008433 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 756499008434 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 756499008435 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 756499008436 FeS/SAM binding site; other site 756499008437 prolyl-tRNA synthetase; Provisional; Region: PRK09194 756499008438 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 756499008439 dimer interface [polypeptide binding]; other site 756499008440 motif 1; other site 756499008441 active site 756499008442 motif 2; other site 756499008443 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 756499008444 putative deacylase active site [active] 756499008445 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 756499008446 active site 756499008447 motif 3; other site 756499008448 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 756499008449 anticodon binding site; other site 756499008450 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 756499008451 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 756499008452 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 756499008453 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 756499008454 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 756499008455 active site 756499008456 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 756499008457 protein binding site [polypeptide binding]; other site 756499008458 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 756499008459 putative substrate binding region [chemical binding]; other site 756499008460 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 756499008461 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 756499008462 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 756499008463 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 756499008464 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 756499008465 Domain of unknown function DUF20; Region: UPF0118; pfam01594 756499008466 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 756499008467 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 756499008468 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 756499008469 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 756499008470 catalytic residue [active] 756499008471 putative FPP diphosphate binding site; other site 756499008472 putative FPP binding hydrophobic cleft; other site 756499008473 dimer interface [polypeptide binding]; other site 756499008474 putative IPP diphosphate binding site; other site 756499008475 ribosome recycling factor; Reviewed; Region: frr; PRK00083 756499008476 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 756499008477 hinge region; other site 756499008478 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 756499008479 putative nucleotide binding site [chemical binding]; other site 756499008480 uridine monophosphate binding site [chemical binding]; other site 756499008481 homohexameric interface [polypeptide binding]; other site 756499008482 elongation factor Ts; Reviewed; Region: tsf; PRK12332 756499008483 UBA/TS-N domain; Region: UBA; pfam00627 756499008484 Elongation factor TS; Region: EF_TS; pfam00889 756499008485 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 756499008486 rRNA interaction site [nucleotide binding]; other site 756499008487 S8 interaction site; other site 756499008488 putative laminin-1 binding site; other site 756499008489 transcriptional repressor CodY; Validated; Region: PRK04158 756499008490 CodY GAF-like domain; Region: CodY; pfam06018 756499008491 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 756499008492 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 756499008493 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 756499008494 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 756499008495 Walker A motif; other site 756499008496 ATP binding site [chemical binding]; other site 756499008497 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 756499008498 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 756499008499 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 756499008500 active site 756499008501 HslU subunit interaction site [polypeptide binding]; other site 756499008502 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 756499008503 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 756499008504 active site 756499008505 DNA binding site [nucleotide binding] 756499008506 Int/Topo IB signature motif; other site 756499008507 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 756499008508 Glucose inhibited division protein A; Region: GIDA; pfam01134 756499008509 DNA topoisomerase I; Validated; Region: PRK05582 756499008510 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 756499008511 active site 756499008512 interdomain interaction site; other site 756499008513 putative metal-binding site [ion binding]; other site 756499008514 nucleotide binding site [chemical binding]; other site 756499008515 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 756499008516 domain I; other site 756499008517 DNA binding groove [nucleotide binding] 756499008518 phosphate binding site [ion binding]; other site 756499008519 domain II; other site 756499008520 domain III; other site 756499008521 nucleotide binding site [chemical binding]; other site 756499008522 catalytic site [active] 756499008523 domain IV; other site 756499008524 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 756499008525 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 756499008526 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 756499008527 DNA protecting protein DprA; Region: dprA; TIGR00732 756499008528 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 756499008529 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 756499008530 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 756499008531 putative DNA binding site [nucleotide binding]; other site 756499008532 putative homodimer interface [polypeptide binding]; other site 756499008533 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 756499008534 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 756499008535 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 756499008536 Walker A/P-loop; other site 756499008537 ATP binding site [chemical binding]; other site 756499008538 Q-loop/lid; other site 756499008539 ABC transporter signature motif; other site 756499008540 Walker B; other site 756499008541 D-loop; other site 756499008542 H-loop/switch region; other site 756499008543 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 756499008544 FtsX-like permease family; Region: FtsX; pfam02687 756499008545 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 756499008546 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 756499008547 AP (apurinic/apyrimidinic) site pocket; other site 756499008548 DNA interaction; other site 756499008549 Metal-binding active site; metal-binding site 756499008550 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 756499008551 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 756499008552 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 756499008553 putative dimer interface [polypeptide binding]; other site 756499008554 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 756499008555 metal-binding site [ion binding] 756499008556 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 756499008557 metal-binding site [ion binding] 756499008558 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 756499008559 metal-binding site [ion binding] 756499008560 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 756499008561 metal-binding site [ion binding] 756499008562 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 756499008563 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 756499008564 metal-binding site [ion binding] 756499008565 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 756499008566 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 756499008567 motif II; other site 756499008568 Staphylococcus aureus copper-sensitive operon repressor (CsoR), and related domains; this family was previously known as part of DUF156; Region: SaCsoR-like_DUF156; cd10152 756499008569 putative homodimer interface [polypeptide binding]; other site 756499008570 putative homotetramer interface [polypeptide binding]; other site 756499008571 allosteric switch controlling residues; other site 756499008572 putative metal binding site [ion binding]; other site 756499008573 putative homodimer-homodimer interface [polypeptide binding]; other site 756499008574 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 756499008575 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 756499008576 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 756499008577 UbiA prenyltransferase family; Region: UbiA; pfam01040 756499008578 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 756499008579 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 756499008580 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 756499008581 Walker A motif; other site 756499008582 ATP binding site [chemical binding]; other site 756499008583 Walker B motif; other site 756499008584 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 756499008585 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 756499008586 non-specific DNA binding site [nucleotide binding]; other site 756499008587 salt bridge; other site 756499008588 sequence-specific DNA binding site [nucleotide binding]; other site 756499008589 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 756499008590 non-specific DNA binding site [nucleotide binding]; other site 756499008591 salt bridge; other site 756499008592 sequence-specific DNA binding site [nucleotide binding]; other site 756499008593 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 756499008594 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 756499008595 Coenzyme A binding pocket [chemical binding]; other site 756499008596 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 756499008597 non-specific DNA binding site [nucleotide binding]; other site 756499008598 salt bridge; other site 756499008599 sequence-specific DNA binding site [nucleotide binding]; other site 756499008600 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 756499008601 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 756499008602 Replication-relaxation; Region: Replic_Relax; pfam13814 756499008603 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 756499008604 Peptidase family M23; Region: Peptidase_M23; pfam01551 756499008605 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 756499008606 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 756499008607 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 756499008608 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 756499008609 NAD(P) binding site [chemical binding]; other site 756499008610 active site 756499008611 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 756499008612 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 756499008613 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 756499008614 NAD(P) binding site [chemical binding]; other site 756499008615 homodimer interface [polypeptide binding]; other site 756499008616 substrate binding site [chemical binding]; other site 756499008617 active site 756499008618 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 756499008619 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 756499008620 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14960 756499008621 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 756499008622 DNA-binding site [nucleotide binding]; DNA binding site 756499008623 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 756499008624 Peptidase family M23; Region: Peptidase_M23; pfam01551 756499008625 AAA-like domain; Region: AAA_10; pfam12846 756499008626 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 756499008627 active site 756499008628 Protein of unknown function (DUF3529); Region: DUF3529; pfam12046 756499008629 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 756499008630 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 756499008631 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 756499008632 active site 756499008633 DNA binding site [nucleotide binding] 756499008634 Int/Topo IB signature motif; other site 756499008635 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 756499008636 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 756499008637 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 756499008638 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 756499008639 Walker A motif; other site 756499008640 ATP binding site [chemical binding]; other site 756499008641 Walker B motif; other site 756499008642 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 756499008643 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 756499008644 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 756499008645 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 756499008646 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 756499008647 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 756499008648 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 756499008649 NACHT domain; Region: NACHT; pfam05729 756499008650 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 756499008651 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 756499008652 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 756499008653 Sel1-like repeats; Region: SEL1; smart00671 756499008654 Sel1-like repeats; Region: SEL1; smart00671 756499008655 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 756499008656 Sel1-like repeats; Region: SEL1; smart00671 756499008657 Sel1-like repeats; Region: SEL1; smart00671 756499008658 Sel1-like repeats; Region: SEL1; smart00671 756499008659 Sel1-like repeats; Region: SEL1; smart00671 756499008660 Sel1-like repeats; Region: SEL1; smart00671 756499008661 Sel1-like repeats; Region: SEL1; smart00671 756499008662 Sel1-like repeats; Region: SEL1; smart00671 756499008663 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 756499008664 CHC2 zinc finger; Region: zf-CHC2; cl17510 756499008665 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 756499008666 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 756499008667 active site 756499008668 metal binding site [ion binding]; metal-binding site 756499008669 interdomain interaction site; other site 756499008670 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 756499008671 MPN+ (JAMM) motif; other site 756499008672 Zinc-binding site [ion binding]; other site 756499008673 ParB-like nuclease domain; Region: ParB; smart00470 756499008674 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 756499008675 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 756499008676 P-loop; other site 756499008677 Magnesium ion binding site [ion binding]; other site 756499008678 transport-energizing ATPase, TRC40/GET3/ArsA family; Region: GET3_arsA_TRC40; TIGR00345 756499008679 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 756499008680 Magnesium ion binding site [ion binding]; other site 756499008681 Fic/DOC family; Region: Fic; cl00960 756499008682 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 756499008683 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 756499008684 FIC domain binding interface [polypeptide binding]; other site 756499008685 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 756499008686 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 756499008687 catalytic residues [active] 756499008688 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 756499008689 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 756499008690 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 756499008691 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 756499008692 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 756499008693 non-specific DNA binding site [nucleotide binding]; other site 756499008694 salt bridge; other site 756499008695 sequence-specific DNA binding site [nucleotide binding]; other site 756499008696 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 756499008697 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 756499008698 non-specific DNA binding site [nucleotide binding]; other site 756499008699 salt bridge; other site 756499008700 sequence-specific DNA binding site [nucleotide binding]; other site 756499008701 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 756499008702 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 756499008703 Catalytic site [active] 756499008704 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 756499008705 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499008706 Zn2+ binding site [ion binding]; other site 756499008707 Mg2+ binding site [ion binding]; other site 756499008708 multiple promoter invertase; Provisional; Region: mpi; PRK13413 756499008709 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 756499008710 catalytic residues [active] 756499008711 catalytic nucleophile [active] 756499008712 Recombinase; Region: Recombinase; pfam07508 756499008713 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 756499008714 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 756499008715 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 756499008716 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 756499008717 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 756499008718 benzoate transport; Region: 2A0115; TIGR00895 756499008719 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 756499008720 putative substrate translocation pore; other site 756499008721 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 756499008722 Transcriptional regulator [Transcription]; Region: LysR; COG0583 756499008723 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 756499008724 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 756499008725 dimerization interface [polypeptide binding]; other site 756499008726 Transcriptional regulator [Transcription]; Region: LysR; COG0583 756499008727 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 756499008728 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 756499008729 dimerization interface [polypeptide binding]; other site 756499008730 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 756499008731 dimerization interface [polypeptide binding]; other site 756499008732 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 756499008733 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 756499008734 dimer interface [polypeptide binding]; other site 756499008735 phosphorylation site [posttranslational modification] 756499008736 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499008737 ATP binding site [chemical binding]; other site 756499008738 Mg2+ binding site [ion binding]; other site 756499008739 G-X-G motif; other site 756499008740 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499008741 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499008742 active site 756499008743 phosphorylation site [posttranslational modification] 756499008744 intermolecular recognition site; other site 756499008745 dimerization interface [polypeptide binding]; other site 756499008746 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 756499008747 DNA binding site [nucleotide binding] 756499008748 hypothetical protein; Reviewed; Region: PRK12497 756499008749 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 756499008750 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 756499008751 NAD(P)H-quinone oxidoreductase subunit 4; Provisional; Region: PRK12561 756499008752 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 756499008753 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 756499008754 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 756499008755 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 756499008756 NADH-Ubiquinone oxidoreductase (complex I) subunit C-terminus; Region: Oxidored_q1_C; pfam01010 756499008757 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 756499008758 NADH-ubiquinone/plastoquinone oxidoreductase chain 6; Region: Oxidored_q3; pfam00499 756499008759 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 756499008760 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 756499008761 4Fe-4S binding domain; Region: Fer4; cl02805 756499008762 4Fe-4S binding domain; Region: Fer4; cl02805 756499008763 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 756499008764 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 756499008765 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 756499008766 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 756499008767 NADH dehydrogenase subunit B; Validated; Region: PRK06411 756499008768 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 756499008769 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 756499008770 RNA/DNA hybrid binding site [nucleotide binding]; other site 756499008771 active site 756499008772 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 756499008773 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 756499008774 GTP/Mg2+ binding site [chemical binding]; other site 756499008775 G4 box; other site 756499008776 G5 box; other site 756499008777 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 756499008778 G1 box; other site 756499008779 G1 box; other site 756499008780 GTP/Mg2+ binding site [chemical binding]; other site 756499008781 Switch I region; other site 756499008782 G2 box; other site 756499008783 G2 box; other site 756499008784 G3 box; other site 756499008785 G3 box; other site 756499008786 Switch II region; other site 756499008787 Switch II region; other site 756499008788 G4 box; other site 756499008789 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 756499008790 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 756499008791 Catalytic site [active] 756499008792 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 756499008793 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 756499008794 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 756499008795 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 756499008796 RimM N-terminal domain; Region: RimM; pfam01782 756499008797 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 756499008798 hypothetical protein; Provisional; Region: PRK00468 756499008799 G-X-X-G motif; other site 756499008800 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 756499008801 signal recognition particle protein; Provisional; Region: PRK10867 756499008802 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 756499008803 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 756499008804 P loop; other site 756499008805 GTP binding site [chemical binding]; other site 756499008806 Signal peptide binding domain; Region: SRP_SPB; pfam02978 756499008807 putative DNA-binding protein; Validated; Region: PRK00118 756499008808 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 756499008809 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 756499008810 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 756499008811 active site 756499008812 putative substrate binding pocket [chemical binding]; other site 756499008813 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 756499008814 intersubunit interface [polypeptide binding]; other site 756499008815 active site 756499008816 Zn2+ binding site [ion binding]; other site 756499008817 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 756499008818 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 756499008819 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 756499008820 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 756499008821 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 756499008822 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 756499008823 GTP binding site [chemical binding]; other site 756499008824 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 756499008825 Nucleoside recognition; Region: Gate; pfam07670 756499008826 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 756499008827 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 756499008828 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 756499008829 G1 box; other site 756499008830 GTP/Mg2+ binding site [chemical binding]; other site 756499008831 Switch I region; other site 756499008832 G2 box; other site 756499008833 G3 box; other site 756499008834 Switch II region; other site 756499008835 G4 box; other site 756499008836 G5 box; other site 756499008837 FeoA domain; Region: FeoA; cl00838 756499008838 manganese transport transcriptional regulator; Provisional; Region: PRK03902 756499008839 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 756499008840 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 756499008841 catalytic loop [active] 756499008842 iron binding site [ion binding]; other site 756499008843 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 756499008844 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 756499008845 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 756499008846 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 756499008847 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 756499008848 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 756499008849 Penicillinase repressor; Region: Pencillinase_R; pfam03965 756499008850 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 756499008851 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 756499008852 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 756499008853 ligand binding site [chemical binding]; other site 756499008854 flexible hinge region; other site 756499008855 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 756499008856 putative switch regulator; other site 756499008857 non-specific DNA interactions [nucleotide binding]; other site 756499008858 DNA binding site [nucleotide binding] 756499008859 sequence specific DNA binding site [nucleotide binding]; other site 756499008860 putative cAMP binding site [chemical binding]; other site 756499008861 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 756499008862 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 756499008863 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 756499008864 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 756499008865 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 756499008866 ACS interaction site; other site 756499008867 CODH interaction site; other site 756499008868 cubane metal cluster (B-cluster) [ion binding]; other site 756499008869 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 756499008870 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 756499008871 P-loop; other site 756499008872 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 756499008873 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 756499008874 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 756499008875 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 756499008876 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 756499008877 nucleophilic elbow; other site 756499008878 catalytic triad; other site 756499008879 HEPN domain; Region: HEPN; pfam05168 756499008880 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 756499008881 active site 756499008882 NTP binding site [chemical binding]; other site 756499008883 metal binding triad [ion binding]; metal-binding site 756499008884 antibiotic binding site [chemical binding]; other site 756499008885 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 756499008886 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 756499008887 Walker A/P-loop; other site 756499008888 ATP binding site [chemical binding]; other site 756499008889 Q-loop/lid; other site 756499008890 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 756499008891 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 756499008892 ABC transporter signature motif; other site 756499008893 Walker B; other site 756499008894 D-loop; other site 756499008895 H-loop/switch region; other site 756499008896 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 756499008897 ribonuclease III; Reviewed; Region: rnc; PRK00102 756499008898 dimerization interface [polypeptide binding]; other site 756499008899 active site 756499008900 metal binding site [ion binding]; metal-binding site 756499008901 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 756499008902 dsRNA binding site [nucleotide binding]; other site 756499008903 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 756499008904 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 756499008905 dimer interface [polypeptide binding]; other site 756499008906 active site 756499008907 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 756499008908 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 756499008909 FMN binding site [chemical binding]; other site 756499008910 substrate binding site [chemical binding]; other site 756499008911 putative catalytic residue [active] 756499008912 acyl carrier protein; Provisional; Region: acpP; PRK00982 756499008913 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 756499008914 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 756499008915 NAD(P) binding site [chemical binding]; other site 756499008916 homotetramer interface [polypeptide binding]; other site 756499008917 homodimer interface [polypeptide binding]; other site 756499008918 active site 756499008919 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 756499008920 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 756499008921 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 756499008922 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 756499008923 FMN binding site [chemical binding]; other site 756499008924 substrate binding site [chemical binding]; other site 756499008925 putative catalytic residue [active] 756499008926 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 756499008927 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 756499008928 dimer interface [polypeptide binding]; other site 756499008929 active site 756499008930 CoA binding pocket [chemical binding]; other site 756499008931 putative phosphate acyltransferase; Provisional; Region: PRK05331 756499008932 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 756499008933 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 756499008934 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 756499008935 active site 2 [active] 756499008936 active site 1 [active] 756499008937 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 756499008938 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 756499008939 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 756499008940 propionate/acetate kinase; Provisional; Region: PRK12379 756499008941 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 756499008942 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 756499008943 nucleophile elbow; other site 756499008944 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 756499008945 Nucleoside recognition; Region: Gate; pfam07670 756499008946 major vault protein; Provisional; Region: PTZ00491 756499008947 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 756499008948 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 756499008949 S-adenosylmethionine binding site [chemical binding]; other site 756499008950 germination protease; Provisional; Region: PRK12362 756499008951 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 756499008952 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 756499008953 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 756499008954 ssDNA binding site; other site 756499008955 generic binding surface II; other site 756499008956 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 756499008957 ATP binding site [chemical binding]; other site 756499008958 putative Mg++ binding site [ion binding]; other site 756499008959 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 756499008960 nucleotide binding region [chemical binding]; other site 756499008961 ATP-binding site [chemical binding]; other site 756499008962 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 756499008963 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 756499008964 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 756499008965 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 756499008966 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 756499008967 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 756499008968 DAK2 domain; Region: Dak2; pfam02734 756499008969 Asp23 family; Region: Asp23; pfam03780 756499008970 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 756499008971 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 756499008972 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 756499008973 dimerization interface [polypeptide binding]; other site 756499008974 domain crossover interface; other site 756499008975 redox-dependent activation switch; other site 756499008976 Thiamine pyrophosphokinase; Region: TPK; cd07995 756499008977 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 756499008978 active site 756499008979 dimerization interface [polypeptide binding]; other site 756499008980 thiamine binding site [chemical binding]; other site 756499008981 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 756499008982 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 756499008983 substrate binding site [chemical binding]; other site 756499008984 hexamer interface [polypeptide binding]; other site 756499008985 metal binding site [ion binding]; metal-binding site 756499008986 GTPase RsgA; Reviewed; Region: PRK00098 756499008987 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 756499008988 RNA binding site [nucleotide binding]; other site 756499008989 homodimer interface [polypeptide binding]; other site 756499008990 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 756499008991 GTPase/Zn-binding domain interface [polypeptide binding]; other site 756499008992 GTP/Mg2+ binding site [chemical binding]; other site 756499008993 G4 box; other site 756499008994 G5 box; other site 756499008995 G1 box; other site 756499008996 Switch I region; other site 756499008997 G2 box; other site 756499008998 G3 box; other site 756499008999 Switch II region; other site 756499009000 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 756499009001 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 756499009002 active site 756499009003 ATP binding site [chemical binding]; other site 756499009004 substrate binding site [chemical binding]; other site 756499009005 activation loop (A-loop); other site 756499009006 Protein of unknown function (DUF1405); Region: DUF1405; cl01798 756499009007 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 756499009008 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 756499009009 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 756499009010 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 756499009011 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 756499009012 Protein phosphatase 2C; Region: PP2C; pfam00481 756499009013 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 756499009014 active site 756499009015 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 756499009016 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 756499009017 phosphopeptide binding site; other site 756499009018 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 756499009019 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 756499009020 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 756499009021 phosphopeptide binding site; other site 756499009022 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 756499009023 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 756499009024 FeS/SAM binding site; other site 756499009025 16S rRNA methyltransferase B; Provisional; Region: PRK14902 756499009026 NusB family; Region: NusB; pfam01029 756499009027 putative RNA binding site [nucleotide binding]; other site 756499009028 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 756499009029 S-adenosylmethionine binding site [chemical binding]; other site 756499009030 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 756499009031 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 756499009032 putative active site [active] 756499009033 substrate binding site [chemical binding]; other site 756499009034 putative cosubstrate binding site; other site 756499009035 catalytic site [active] 756499009036 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 756499009037 substrate binding site [chemical binding]; other site 756499009038 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 756499009039 active site 756499009040 catalytic residues [active] 756499009041 metal binding site [ion binding]; metal-binding site 756499009042 primosome assembly protein PriA; Validated; Region: PRK05580 756499009043 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 756499009044 ATP binding site [chemical binding]; other site 756499009045 putative Mg++ binding site [ion binding]; other site 756499009046 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 756499009047 ATP-binding site [chemical binding]; other site 756499009048 hypothetical protein; Provisional; Region: PRK02877 756499009049 uracil transporter; Provisional; Region: PRK10720 756499009050 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 756499009051 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 756499009052 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 756499009053 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 756499009054 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 756499009055 Probable Catalytic site; other site 756499009056 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 756499009057 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 756499009058 FeS/SAM binding site; other site 756499009059 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 756499009060 alkylhydroperoxidase/carboxymuconolactone decarboxylase family protein; Region: perox_w_seleSAM; TIGR04169 756499009061 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 756499009062 Uncharacterized conserved protein [Function unknown]; Region: COG0398 756499009063 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 756499009064 Uncharacterized conserved protein [Function unknown]; Region: COG0398 756499009065 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 756499009066 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 756499009067 active site residue [active] 756499009068 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 756499009069 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 756499009070 catalytic loop [active] 756499009071 iron binding site [ion binding]; other site 756499009072 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 756499009073 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 756499009074 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 756499009075 DNA-binding site [nucleotide binding]; DNA binding site 756499009076 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 756499009077 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 756499009078 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 756499009079 B12 binding site [chemical binding]; other site 756499009080 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 756499009081 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 756499009082 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 756499009083 substrate binding pocket [chemical binding]; other site 756499009084 dimer interface [polypeptide binding]; other site 756499009085 inhibitor binding site; inhibition site 756499009086 CmuA_CmuC_like: uncharacterized protein family similar to uroporphyrinogen decarboxylase (URO-D) and the methyltransferases CmuA and CmuC; Region: CmuA_CmuC_like; cd03308 756499009087 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 756499009088 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 756499009089 B12 binding site [chemical binding]; other site 756499009090 Transposase; Region: DEDD_Tnp_IS110; pfam01548 756499009091 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 756499009092 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 756499009093 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 756499009094 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 756499009095 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 756499009096 Walker A/P-loop; other site 756499009097 ATP binding site [chemical binding]; other site 756499009098 Q-loop/lid; other site 756499009099 ABC transporter signature motif; other site 756499009100 Walker B; other site 756499009101 D-loop; other site 756499009102 H-loop/switch region; other site 756499009103 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 756499009104 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 756499009105 Walker A/P-loop; other site 756499009106 ATP binding site [chemical binding]; other site 756499009107 Q-loop/lid; other site 756499009108 ABC transporter signature motif; other site 756499009109 Walker B; other site 756499009110 D-loop; other site 756499009111 H-loop/switch region; other site 756499009112 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 756499009113 AIR synthase related protein, N-terminal domain; Region: AIRS; pfam00586 756499009114 S-adenosylmethionine synthetase; Validated; Region: PRK05250 756499009115 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 756499009116 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 756499009117 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 756499009118 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 756499009119 Flavoprotein; Region: Flavoprotein; pfam02441 756499009120 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 756499009121 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 756499009122 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 756499009123 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 756499009124 catalytic site [active] 756499009125 G-X2-G-X-G-K; other site 756499009126 hypothetical protein; Provisional; Region: PRK04323 756499009127 hypothetical protein; Provisional; Region: PRK11820 756499009128 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 756499009129 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 756499009130 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 756499009131 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 756499009132 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 756499009133 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 756499009134 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 756499009135 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 756499009136 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 756499009137 catalytic residue [active] 756499009138 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 756499009139 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 756499009140 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 756499009141 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 756499009142 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 756499009143 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 756499009144 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 756499009145 Soluble P-type ATPase [General function prediction only]; Region: COG4087 756499009146 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 756499009147 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 756499009148 Domain of unknown function (DUF814); Region: DUF814; pfam05670 756499009149 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 756499009150 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 756499009151 Predicted membrane protein [Function unknown]; Region: COG1511 756499009152 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 756499009153 conjugal transfer protein TrbJ; Provisional; Region: PRK13874; cl02193 756499009154 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 756499009155 Predicted membrane protein [Function unknown]; Region: COG1511 756499009156 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 756499009157 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 756499009158 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 756499009159 Peptidase family U32; Region: Peptidase_U32; pfam01136 756499009160 Part of AAA domain; Region: AAA_19; pfam13245 756499009161 Family description; Region: UvrD_C_2; pfam13538 756499009162 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 756499009163 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 756499009164 non-specific DNA binding site [nucleotide binding]; other site 756499009165 salt bridge; other site 756499009166 sequence-specific DNA binding site [nucleotide binding]; other site 756499009167 FMN-binding domain; Region: FMN_bind; cl01081 756499009168 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 756499009169 L-aspartate oxidase; Provisional; Region: PRK06175 756499009170 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 756499009171 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 756499009172 DNA binding residues [nucleotide binding] 756499009173 dimer interface [polypeptide binding]; other site 756499009174 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 756499009175 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 756499009176 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 756499009177 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 756499009178 putative deacylase active site [active] 756499009179 putative acetyltransferase; Provisional; Region: PRK03624 756499009180 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499009181 Coenzyme A binding pocket [chemical binding]; other site 756499009182 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 756499009183 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 756499009184 Protein of unknown function; Region: DUF3658; pfam12395 756499009185 Uncharacterized conserved protein [Function unknown]; Region: COG2361 756499009186 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 756499009187 active site 756499009188 NTP binding site [chemical binding]; other site 756499009189 metal binding triad [ion binding]; metal-binding site 756499009190 antibiotic binding site [chemical binding]; other site 756499009191 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 756499009192 nudix motif; other site 756499009193 CRISPR associated protein Cas6; Region: Cas_Cas6; pfam01881 756499009194 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 756499009195 active site 756499009196 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 756499009197 active site 756499009198 dimer interface [polypeptide binding]; other site 756499009199 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 756499009200 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 756499009201 heterodimer interface [polypeptide binding]; other site 756499009202 active site 756499009203 FMN binding site [chemical binding]; other site 756499009204 homodimer interface [polypeptide binding]; other site 756499009205 substrate binding site [chemical binding]; other site 756499009206 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 756499009207 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 756499009208 FAD binding pocket [chemical binding]; other site 756499009209 FAD binding motif [chemical binding]; other site 756499009210 phosphate binding motif [ion binding]; other site 756499009211 beta-alpha-beta structure motif; other site 756499009212 NAD binding pocket [chemical binding]; other site 756499009213 Iron coordination center [ion binding]; other site 756499009214 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 756499009215 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 756499009216 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 756499009217 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 756499009218 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 756499009219 ATP-grasp domain; Region: ATP-grasp_4; cl17255 756499009220 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 756499009221 IMP binding site; other site 756499009222 dimer interface [polypeptide binding]; other site 756499009223 interdomain contacts; other site 756499009224 partial ornithine binding site; other site 756499009225 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 756499009226 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 756499009227 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 756499009228 catalytic site [active] 756499009229 subunit interface [polypeptide binding]; other site 756499009230 dihydroorotase; Validated; Region: pyrC; PRK09357 756499009231 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 756499009232 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 756499009233 active site 756499009234 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 756499009235 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 756499009236 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 756499009237 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 756499009238 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 756499009239 active site 756499009240 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 756499009241 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 756499009242 RNA binding surface [nucleotide binding]; other site 756499009243 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 756499009244 active site 756499009245 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 756499009246 lipoprotein signal peptidase; Provisional; Region: PRK14787 756499009247 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 756499009248 Pirin-related protein [General function prediction only]; Region: COG1741 756499009249 Pirin; Region: Pirin; pfam02678 756499009250 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 756499009251 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 756499009252 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 756499009253 Metal-binding active site; metal-binding site 756499009254 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 756499009255 UbiA prenyltransferase family; Region: UbiA; pfam01040 756499009256 flavoprotein, HI0933 family; Region: TIGR00275 756499009257 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 756499009258 Propanediol utilisation protein PduL; Region: PduL; pfam06130 756499009259 Propanediol utilisation protein PduL; Region: PduL; pfam06130 756499009260 RHS Repeat; Region: RHS_repeat; pfam05593 756499009261 RHS Repeat; Region: RHS_repeat; pfam05593 756499009262 RHS Repeat; Region: RHS_repeat; pfam05593 756499009263 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 756499009264 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499009265 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 756499009266 Transposase; Region: DEDD_Tnp_IS110; pfam01548 756499009267 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 756499009268 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 756499009269 Uncharacterized protein conserved in bacteria (DUF2247); Region: DUF2247; cl01763 756499009270 TGF-beta propeptide; Region: TGFb_propeptide; pfam00688 756499009271 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 756499009272 RHS Repeat; Region: RHS_repeat; pfam05593 756499009273 RHS Repeat; Region: RHS_repeat; pfam05593 756499009274 RHS Repeat; Region: RHS_repeat; pfam05593 756499009275 RHS Repeat; Region: RHS_repeat; pfam05593 756499009276 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 756499009277 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 756499009278 RHS Repeat; Region: RHS_repeat; pfam05593 756499009279 RHS Repeat; Region: RHS_repeat; pfam05593 756499009280 RHS Repeat; Region: RHS_repeat; pfam05593 756499009281 RHS Repeat; Region: RHS_repeat; pfam05593 756499009282 RHS Repeat; Region: RHS_repeat; pfam05593 756499009283 RHS Repeat; Region: RHS_repeat; pfam05593 756499009284 RHS Repeat; Region: RHS_repeat; pfam05593 756499009285 RHS Repeat; Region: RHS_repeat; pfam05593 756499009286 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 756499009287 RHS Repeat; Region: RHS_repeat; pfam05593 756499009288 RHS Repeat; Region: RHS_repeat; pfam05593 756499009289 RHS Repeat; Region: RHS_repeat; pfam05593 756499009290 RHS Repeat; Region: RHS_repeat; cl11982 756499009291 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 756499009292 RHS Repeat; Region: RHS_repeat; cl11982 756499009293 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 756499009294 RHS Repeat; Region: RHS_repeat; pfam05593 756499009295 RHS Repeat; Region: RHS_repeat; pfam05593 756499009296 RHS Repeat; Region: RHS_repeat; pfam05593 756499009297 RHS Repeat; Region: RHS_repeat; pfam05593 756499009298 RHS Repeat; Region: RHS_repeat; pfam05593 756499009299 RHS Repeat; Region: RHS_repeat; pfam05593 756499009300 RHS Repeat; Region: RHS_repeat; pfam05593 756499009301 RHS Repeat; Region: RHS_repeat; pfam05593 756499009302 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 756499009303 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 756499009304 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 756499009305 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499009306 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 756499009307 tetramer interface [polypeptide binding]; other site 756499009308 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499009309 catalytic residue [active] 756499009310 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 756499009311 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 756499009312 tetramer interface [polypeptide binding]; other site 756499009313 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499009314 catalytic residue [active] 756499009315 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 756499009316 lipoyl attachment site [posttranslational modification]; other site 756499009317 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 756499009318 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 756499009319 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 756499009320 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499009321 putative CheW interface [polypeptide binding]; other site 756499009322 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 756499009323 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 756499009324 HIGH motif; other site 756499009325 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 756499009326 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 756499009327 active site 756499009328 KMSKS motif; other site 756499009329 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 756499009330 tRNA binding surface [nucleotide binding]; other site 756499009331 anticodon binding site; other site 756499009332 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 756499009333 DivIVA protein; Region: DivIVA; pfam05103 756499009334 DivIVA domain; Region: DivI1A_domain; TIGR03544 756499009335 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 756499009336 RNA-binding S4 domain-containing protein; Provisional; Region: PLN00051 756499009337 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 756499009338 RNA binding surface [nucleotide binding]; other site 756499009339 YGGT family; Region: YGGT; pfam02325 756499009340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 756499009341 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 756499009342 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 756499009343 catalytic residue [active] 756499009344 HlyD family secretion protein; Region: HlyD_2; pfam12700 756499009345 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 756499009346 putative membrane fusion protein; Region: TIGR02828 756499009347 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 756499009348 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 756499009349 putative active site [active] 756499009350 heme pocket [chemical binding]; other site 756499009351 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 756499009352 dimer interface [polypeptide binding]; other site 756499009353 phosphorylation site [posttranslational modification] 756499009354 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499009355 ATP binding site [chemical binding]; other site 756499009356 Mg2+ binding site [ion binding]; other site 756499009357 G-X-G motif; other site 756499009358 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499009359 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499009360 active site 756499009361 phosphorylation site [posttranslational modification] 756499009362 intermolecular recognition site; other site 756499009363 dimerization interface [polypeptide binding]; other site 756499009364 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 756499009365 DNA binding site [nucleotide binding] 756499009366 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 756499009367 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 756499009368 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 756499009369 sporulation sigma factor SigG; Reviewed; Region: PRK08215 756499009370 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499009371 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 756499009372 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 756499009373 DNA binding residues [nucleotide binding] 756499009374 sporulation sigma factor SigE; Reviewed; Region: PRK08301 756499009375 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499009376 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 756499009377 DNA binding residues [nucleotide binding] 756499009378 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 756499009379 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 756499009380 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 756499009381 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 756499009382 Walker A/P-loop; other site 756499009383 ATP binding site [chemical binding]; other site 756499009384 Q-loop/lid; other site 756499009385 ABC transporter signature motif; other site 756499009386 Walker B; other site 756499009387 D-loop; other site 756499009388 H-loop/switch region; other site 756499009389 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 756499009390 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 756499009391 Walker A/P-loop; other site 756499009392 ATP binding site [chemical binding]; other site 756499009393 Q-loop/lid; other site 756499009394 ABC transporter signature motif; other site 756499009395 Walker B; other site 756499009396 D-loop; other site 756499009397 H-loop/switch region; other site 756499009398 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 756499009399 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 756499009400 TM-ABC transporter signature motif; other site 756499009401 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 756499009402 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 756499009403 TM-ABC transporter signature motif; other site 756499009404 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 756499009405 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 756499009406 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 756499009407 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 756499009408 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 756499009409 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499009410 active site 756499009411 phosphorylation site [posttranslational modification] 756499009412 intermolecular recognition site; other site 756499009413 dimerization interface [polypeptide binding]; other site 756499009414 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 756499009415 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 756499009416 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 756499009417 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499009418 ATP binding site [chemical binding]; other site 756499009419 Mg2+ binding site [ion binding]; other site 756499009420 G-X-G motif; other site 756499009421 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 756499009422 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 756499009423 putative active site [active] 756499009424 cell division protein FtsZ; Validated; Region: PRK09330 756499009425 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 756499009426 nucleotide binding site [chemical binding]; other site 756499009427 SulA interaction site; other site 756499009428 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 756499009429 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 756499009430 Cell division protein FtsQ; Region: FtsQ; pfam03799 756499009431 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 756499009432 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 756499009433 hinge; other site 756499009434 active site 756499009435 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 756499009436 FAD binding domain; Region: FAD_binding_4; pfam01565 756499009437 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 756499009438 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 756499009439 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 756499009440 active site 756499009441 homodimer interface [polypeptide binding]; other site 756499009442 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 756499009443 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 756499009444 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 756499009445 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 756499009446 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 756499009447 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 756499009448 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 756499009449 Mg++ binding site [ion binding]; other site 756499009450 putative catalytic motif [active] 756499009451 putative substrate binding site [chemical binding]; other site 756499009452 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 756499009453 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 756499009454 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 756499009455 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 756499009456 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 756499009457 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 756499009458 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 756499009459 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 756499009460 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 756499009461 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 756499009462 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 756499009463 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 756499009464 Septum formation initiator; Region: DivIC; cl17659 756499009465 MraW methylase family; Region: Methyltransf_5; pfam01795 756499009466 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 756499009467 cell division protein MraZ; Reviewed; Region: PRK00326 756499009468 MraZ protein; Region: MraZ; pfam02381 756499009469 MraZ protein; Region: MraZ; pfam02381 756499009470 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 756499009471 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 756499009472 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 756499009473 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 756499009474 HAMP domain; Region: HAMP; pfam00672 756499009475 dimerization interface [polypeptide binding]; other site 756499009476 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 756499009477 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499009478 dimer interface [polypeptide binding]; other site 756499009479 putative CheW interface [polypeptide binding]; other site 756499009480 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 756499009481 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 756499009482 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 756499009483 ferric uptake regulator; Provisional; Region: fur; PRK09462 756499009484 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 756499009485 metal binding site 2 [ion binding]; metal-binding site 756499009486 putative DNA binding helix; other site 756499009487 metal binding site 1 [ion binding]; metal-binding site 756499009488 dimer interface [polypeptide binding]; other site 756499009489 structural Zn2+ binding site [ion binding]; other site 756499009490 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 756499009491 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 756499009492 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 756499009493 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 756499009494 metal ion-dependent adhesion site (MIDAS); other site 756499009495 MoxR-like ATPases [General function prediction only]; Region: COG0714 756499009496 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 756499009497 Walker A motif; other site 756499009498 ATP binding site [chemical binding]; other site 756499009499 Walker B motif; other site 756499009500 arginine finger; other site 756499009501 Protein of unknown function (DUF964); Region: DUF964; pfam06133 756499009502 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499009503 Zn2+ binding site [ion binding]; other site 756499009504 Mg2+ binding site [ion binding]; other site 756499009505 histidinol-phosphatase; Provisional; Region: PRK07328 756499009506 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 756499009507 active site 756499009508 dimer interface [polypeptide binding]; other site 756499009509 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 756499009510 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 756499009511 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 756499009512 Coenzyme A binding pocket [chemical binding]; other site 756499009513 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 756499009514 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 756499009515 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 756499009516 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 756499009517 Walker A motif; other site 756499009518 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 756499009519 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 756499009520 dimer interface [polypeptide binding]; other site 756499009521 putative functional site; other site 756499009522 putative MPT binding site; other site 756499009523 Protein of unknown function (DUF342); Region: DUF342; pfam03961 756499009524 Transcriptional regulator [Transcription]; Region: LytR; COG1316 756499009525 Negative regulator of genetic competence (MecA); Region: MecA; pfam05389 756499009526 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 756499009527 Uncharacterized conserved protein [Function unknown]; Region: COG2006 756499009528 4Fe-4S binding domain; Region: Fer4; pfam00037 756499009529 4Fe-4S binding domain; Region: Fer4_6; pfam12837 756499009530 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 756499009531 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 756499009532 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499009533 Zn2+ binding site [ion binding]; other site 756499009534 Mg2+ binding site [ion binding]; other site 756499009535 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 756499009536 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 756499009537 4Fe-4S binding domain; Region: Fer4; pfam00037 756499009538 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 756499009539 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 756499009540 CysD dimerization site [polypeptide binding]; other site 756499009541 G1 box; other site 756499009542 putative GEF interaction site [polypeptide binding]; other site 756499009543 GTP/Mg2+ binding site [chemical binding]; other site 756499009544 Switch I region; other site 756499009545 G2 box; other site 756499009546 G3 box; other site 756499009547 Switch II region; other site 756499009548 G4 box; other site 756499009549 G5 box; other site 756499009550 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 756499009551 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 756499009552 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 756499009553 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 756499009554 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 756499009555 Active Sites [active] 756499009556 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 756499009557 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 756499009558 Active Sites [active] 756499009559 MarR family; Region: MarR_2; pfam12802 756499009560 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 756499009561 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 756499009562 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 756499009563 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 756499009564 Walker A/P-loop; other site 756499009565 ATP binding site [chemical binding]; other site 756499009566 Q-loop/lid; other site 756499009567 ABC transporter signature motif; other site 756499009568 Walker B; other site 756499009569 D-loop; other site 756499009570 H-loop/switch region; other site 756499009571 TOBE-like domain; Region: TOBE_3; pfam12857 756499009572 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 756499009573 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 756499009574 dimer interface [polypeptide binding]; other site 756499009575 conserved gate region; other site 756499009576 putative PBP binding loops; other site 756499009577 ABC-ATPase subunit interface; other site 756499009578 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 756499009579 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 756499009580 dimer interface [polypeptide binding]; other site 756499009581 conserved gate region; other site 756499009582 putative PBP binding loops; other site 756499009583 ABC-ATPase subunit interface; other site 756499009584 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 756499009585 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 756499009586 substrate binding pocket [chemical binding]; other site 756499009587 membrane-bound complex binding site; other site 756499009588 hinge residues; other site 756499009589 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 756499009590 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 756499009591 N-acetyl-D-glucosamine binding site [chemical binding]; other site 756499009592 catalytic residue [active] 756499009593 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 756499009594 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 756499009595 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 756499009596 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 756499009597 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 756499009598 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 756499009599 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 756499009600 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 756499009601 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 756499009602 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 756499009603 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 756499009604 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 756499009605 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 756499009606 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 756499009607 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 756499009608 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499009609 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 756499009610 DNA binding residues [nucleotide binding] 756499009611 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13488 756499009612 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 756499009613 CheC-like family; Region: CheC; pfam04509 756499009614 CheC-like family; Region: CheC; pfam04509 756499009615 Flagellar protein YcgR; Region: YcgR_2; pfam12945 756499009616 PilZ domain; Region: PilZ; pfam07238 756499009617 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 756499009618 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 756499009619 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 756499009620 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 756499009621 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 756499009622 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 756499009623 FHIPEP family; Region: FHIPEP; pfam00771 756499009624 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 756499009625 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 756499009626 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 756499009627 Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliQ; COG1987 756499009628 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 756499009629 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 756499009630 Response regulator receiver domain; Region: Response_reg; pfam00072 756499009631 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499009632 active site 756499009633 phosphorylation site [posttranslational modification] 756499009634 intermolecular recognition site; other site 756499009635 dimerization interface [polypeptide binding]; other site 756499009636 flagellar motor switch protein; Validated; Region: PRK08119 756499009637 CheC-like family; Region: CheC; pfam04509 756499009638 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 756499009639 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 756499009640 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 756499009641 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07718 756499009642 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 756499009643 Flagellar protein (FlbD); Region: FlbD; pfam06289 756499009644 Flagellar FliJ protein; Region: FliJ; pfam02050 756499009645 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 756499009646 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 756499009647 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 756499009648 Walker A motif/ATP binding site; other site 756499009649 Walker B motif; other site 756499009650 Flagellar assembly protein FliH; Region: FliH; pfam02108 756499009651 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 756499009652 MgtE intracellular N domain; Region: MgtE_N; cl15244 756499009653 FliG C-terminal domain; Region: FliG_C; pfam01706 756499009654 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 756499009655 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 756499009656 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 756499009657 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 756499009658 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 756499009659 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 756499009660 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 756499009661 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 756499009662 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499009663 active site 756499009664 phosphorylation site [posttranslational modification] 756499009665 intermolecular recognition site; other site 756499009666 dimerization interface [polypeptide binding]; other site 756499009667 CheB methylesterase; Region: CheB_methylest; pfam01339 756499009668 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 756499009669 putative CheA interaction surface; other site 756499009670 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 756499009671 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 756499009672 putative binding surface; other site 756499009673 active site 756499009674 P2 response regulator binding domain; Region: P2; pfam07194 756499009675 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 756499009676 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499009677 ATP binding site [chemical binding]; other site 756499009678 Mg2+ binding site [ion binding]; other site 756499009679 G-X-G motif; other site 756499009680 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 756499009681 FlaG protein; Region: FlaG; pfam03646 756499009682 Flagellar protein FliS; Region: FliS; cl00654 756499009683 flagellar capping protein; Validated; Region: fliD; PRK07737 756499009684 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 756499009685 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 756499009686 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 756499009687 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 756499009688 trimer interface [polypeptide binding]; other site 756499009689 active site 756499009690 substrate binding site [chemical binding]; other site 756499009691 CoA binding site [chemical binding]; other site 756499009692 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 756499009693 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 756499009694 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 756499009695 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 756499009696 NAD(P) binding site [chemical binding]; other site 756499009697 active site 756499009698 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 756499009699 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 756499009700 NAD binding site [chemical binding]; other site 756499009701 homotetramer interface [polypeptide binding]; other site 756499009702 homodimer interface [polypeptide binding]; other site 756499009703 substrate binding site [chemical binding]; other site 756499009704 active site 756499009705 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 756499009706 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 756499009707 substrate binding site; other site 756499009708 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 756499009709 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 756499009710 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 756499009711 active site 756499009712 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 756499009713 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 756499009714 putative metal binding site; other site 756499009715 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 756499009716 Tetratricopeptide repeat; Region: TPR_12; pfam13424 756499009717 binding surface 756499009718 TPR motif; other site 756499009719 flagellin; Reviewed; Region: PRK08869 756499009720 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 756499009721 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 756499009722 FlaG protein; Region: FlaG; pfam03646 756499009723 Global regulator protein family; Region: CsrA; pfam02599 756499009724 flagellar assembly protein FliW; Provisional; Region: PRK13285 756499009725 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 756499009726 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 756499009727 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 756499009728 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 756499009729 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 756499009730 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 756499009731 FlgN protein; Region: FlgN; pfam05130 756499009732 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 756499009733 Transposase domain (DUF772); Region: DUF772; pfam05598 756499009734 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 756499009735 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 756499009736 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 756499009737 flagellar motor protein MotD; Reviewed; Region: PRK09038 756499009738 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 756499009739 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 756499009740 ligand binding site [chemical binding]; other site 756499009741 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 756499009742 Peptidase family M28; Region: Peptidase_M28; pfam04389 756499009743 metal binding site [ion binding]; metal-binding site 756499009744 Protein of unknown function (DUF327); Region: DUF327; pfam03885 756499009745 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 756499009746 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 756499009747 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 756499009748 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 756499009749 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 756499009750 Coenzyme A transferase; Region: CoA_trans; cl17247 756499009751 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 756499009752 citrate lyase subunit gamma; Provisional; Region: PRK13253 756499009753 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 756499009754 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 756499009755 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 756499009756 NAD binding site [chemical binding]; other site 756499009757 catalytic Zn binding site [ion binding]; other site 756499009758 structural Zn binding site [ion binding]; other site 756499009759 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 756499009760 Uncharacterized conserved protein [Function unknown]; Region: COG0327 756499009761 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 756499009762 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 756499009763 Uncharacterized conserved protein [Function unknown]; Region: COG0327 756499009764 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 756499009765 Family of unknown function (DUF633); Region: DUF633; pfam04816 756499009766 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 756499009767 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 756499009768 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 756499009769 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499009770 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 756499009771 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 756499009772 DNA binding residues [nucleotide binding] 756499009773 DNA primase; Validated; Region: dnaG; PRK05667 756499009774 CHC2 zinc finger; Region: zf-CHC2; pfam01807 756499009775 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 756499009776 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 756499009777 active site 756499009778 metal binding site [ion binding]; metal-binding site 756499009779 interdomain interaction site; other site 756499009780 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 756499009781 Sporulation and spore germination; Region: Germane; pfam10646 756499009782 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 756499009783 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499009784 Zn2+ binding site [ion binding]; other site 756499009785 Mg2+ binding site [ion binding]; other site 756499009786 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 756499009787 FMN-binding domain; Region: FMN_bind; pfam04205 756499009788 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 756499009789 4Fe-4S binding domain; Region: Fer4_5; pfam12801 756499009790 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 756499009791 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 756499009792 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 756499009793 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499009794 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 756499009795 The MopB_4 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_4; cd02765 756499009796 putative [4Fe-4S] binding site [ion binding]; other site 756499009797 putative molybdopterin cofactor binding site [chemical binding]; other site 756499009798 The MopB_CT_4 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. This CD is...; Region: MopB_CT_4; cd02785 756499009799 putative molybdopterin cofactor binding site; other site 756499009800 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 756499009801 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 756499009802 ligand binding site [chemical binding]; other site 756499009803 flexible hinge region; other site 756499009804 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 756499009805 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 756499009806 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 756499009807 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499009808 dimer interface [polypeptide binding]; other site 756499009809 putative CheW interface [polypeptide binding]; other site 756499009810 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 756499009811 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 756499009812 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499009813 homodimer interface [polypeptide binding]; other site 756499009814 catalytic residue [active] 756499009815 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 756499009816 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499009817 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 756499009818 The MopB_4 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_4; cd02765 756499009819 putative [4Fe-4S] binding site [ion binding]; other site 756499009820 putative molybdopterin cofactor binding site [chemical binding]; other site 756499009821 The MopB_CT_4 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. This CD is...; Region: MopB_CT_4; cd02785 756499009822 putative molybdopterin cofactor binding site; other site 756499009823 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 756499009824 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 756499009825 ligand binding site [chemical binding]; other site 756499009826 flexible hinge region; other site 756499009827 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 756499009828 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 756499009829 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 756499009830 metal binding site [ion binding]; metal-binding site 756499009831 dimer interface [polypeptide binding]; other site 756499009832 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 756499009833 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 756499009834 putative [Fe4-S4] binding site [ion binding]; other site 756499009835 putative molybdopterin cofactor binding site [chemical binding]; other site 756499009836 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 756499009837 molybdopterin cofactor binding site; other site 756499009838 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 756499009839 4Fe-4S binding domain; Region: Fer4; pfam00037 756499009840 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 756499009841 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 756499009842 ligand binding site [chemical binding]; other site 756499009843 flexible hinge region; other site 756499009844 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 756499009845 Coenzyme A transferase; Region: CoA_trans; cl17247 756499009846 Coenzyme A transferase; Region: CoA_trans; smart00882 756499009847 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 756499009848 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 756499009849 FAD binding site [chemical binding]; other site 756499009850 homotetramer interface [polypeptide binding]; other site 756499009851 substrate binding pocket [chemical binding]; other site 756499009852 catalytic base [active] 756499009853 putative acyltransferase; Provisional; Region: PRK05790 756499009854 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 756499009855 dimer interface [polypeptide binding]; other site 756499009856 active site 756499009857 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 756499009858 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 756499009859 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 756499009860 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 756499009861 B12 binding site [chemical binding]; other site 756499009862 cobalt ligand [ion binding]; other site 756499009863 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 756499009864 ArgK protein; Region: ArgK; pfam03308 756499009865 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 756499009866 Walker A; other site 756499009867 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 756499009868 G4 box; other site 756499009869 G5 box; other site 756499009870 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 756499009871 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 756499009872 homodimer interface [polypeptide binding]; other site 756499009873 Walker A motif; other site 756499009874 ATP binding site [chemical binding]; other site 756499009875 hydroxycobalamin binding site [chemical binding]; other site 756499009876 Walker B motif; other site 756499009877 FOG: CBS domain [General function prediction only]; Region: COG0517 756499009878 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 756499009879 PAS domain; Region: PAS; smart00091 756499009880 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 756499009881 putative active site [active] 756499009882 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 756499009883 putative active site [active] 756499009884 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 756499009885 Walker A motif; other site 756499009886 ATP binding site [chemical binding]; other site 756499009887 Walker B motif; other site 756499009888 arginine finger; other site 756499009889 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 756499009890 Helix-Turn-Helix DNA binding domain of putative HspR-like transcription regulators; Region: HTH_HspR-like_MBC; cd04767 756499009891 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 756499009892 DNA binding residues [nucleotide binding] 756499009893 putative dimer interface [polypeptide binding]; other site 756499009894 putative metal binding residues [ion binding]; other site 756499009895 Cytochrome c552; Region: Cytochrom_C552; pfam02335 756499009896 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 756499009897 Predicted transcriptional regulators [Transcription]; Region: COG1695 756499009898 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 756499009899 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 756499009900 pyruvate phosphate dikinase; Provisional; Region: PRK09279 756499009901 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 756499009902 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 756499009903 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 756499009904 PEP synthetase regulatory protein; Provisional; Region: PRK05339 756499009905 HTH domain; Region: HTH_11; pfam08279 756499009906 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 756499009907 FOG: CBS domain [General function prediction only]; Region: COG0517 756499009908 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 756499009909 tRNA binding surface [nucleotide binding]; other site 756499009910 DALR anticodon binding domain; Region: DALR_1; pfam05746 756499009911 anticodon binding site; other site 756499009912 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 756499009913 dimer interface [polypeptide binding]; other site 756499009914 motif 1; other site 756499009915 active site 756499009916 motif 2; other site 756499009917 motif 3; other site 756499009918 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 756499009919 NTPase; Region: NTPase_1; cl17478 756499009920 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 756499009921 S-adenosylmethionine binding site [chemical binding]; other site 756499009922 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 756499009923 Domain of unknown function (DUF364); Region: DUF364; pfam04016 756499009924 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 756499009925 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499009926 Walker A/P-loop; other site 756499009927 ATP binding site [chemical binding]; other site 756499009928 Q-loop/lid; other site 756499009929 ABC transporter signature motif; other site 756499009930 Walker B; other site 756499009931 H-loop/switch region; other site 756499009932 Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]; Region: HypB; COG0378 756499009933 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 756499009934 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 756499009935 ABC-ATPase subunit interface; other site 756499009936 dimer interface [polypeptide binding]; other site 756499009937 putative PBP binding regions; other site 756499009938 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 756499009939 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 756499009940 Walker A/P-loop; other site 756499009941 ATP binding site [chemical binding]; other site 756499009942 Q-loop/lid; other site 756499009943 ABC transporter signature motif; other site 756499009944 Walker B; other site 756499009945 D-loop; other site 756499009946 H-loop/switch region; other site 756499009947 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 756499009948 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 756499009949 intersubunit interface [polypeptide binding]; other site 756499009950 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 756499009951 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 756499009952 G1 box; other site 756499009953 putative GEF interaction site [polypeptide binding]; other site 756499009954 GTP/Mg2+ binding site [chemical binding]; other site 756499009955 Switch I region; other site 756499009956 G2 box; other site 756499009957 G3 box; other site 756499009958 Switch II region; other site 756499009959 G4 box; other site 756499009960 G5 box; other site 756499009961 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 756499009962 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 756499009963 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 756499009964 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 756499009965 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 756499009966 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 756499009967 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 756499009968 catalytic residue [active] 756499009969 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 756499009970 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 756499009971 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 756499009972 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 756499009973 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 756499009974 4Fe-4S binding domain; Region: Fer4; pfam00037 756499009975 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 756499009976 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 756499009977 molybdopterin cofactor binding site; other site 756499009978 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 756499009979 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 756499009980 molybdopterin cofactor binding site; other site 756499009981 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 756499009982 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 756499009983 Recombination protein O N terminal; Region: RecO_N; pfam11967 756499009984 Recombination protein O C terminal; Region: RecO_C; pfam02565 756499009985 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 756499009986 intersubunit interface [polypeptide binding]; other site 756499009987 active site 756499009988 catalytic residue [active] 756499009989 GTPase Era; Reviewed; Region: era; PRK00089 756499009990 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 756499009991 G1 box; other site 756499009992 GTP/Mg2+ binding site [chemical binding]; other site 756499009993 Switch I region; other site 756499009994 G2 box; other site 756499009995 Switch II region; other site 756499009996 G3 box; other site 756499009997 G4 box; other site 756499009998 G5 box; other site 756499009999 KH domain; Region: KH_2; pfam07650 756499010000 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 756499010001 active site 756499010002 catalytic motif [active] 756499010003 Zn binding site [ion binding]; other site 756499010004 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 756499010005 metal-binding heat shock protein; Provisional; Region: PRK00016 756499010006 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 756499010007 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 756499010008 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499010009 Zn2+ binding site [ion binding]; other site 756499010010 Mg2+ binding site [ion binding]; other site 756499010011 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 756499010012 PhoH-like protein; Region: PhoH; pfam02562 756499010013 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 756499010014 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 756499010015 YabP family; Region: YabP; cl06766 756499010016 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 756499010017 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 756499010018 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 756499010019 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 756499010020 hydrogenase 4 subunit F; Validated; Region: PRK06458 756499010021 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 756499010022 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 756499010023 NADH dehydrogenase; Region: NADHdh; cl00469 756499010024 hydrogenase 4 subunit B; Validated; Region: PRK06521 756499010025 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 756499010026 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 756499010027 active site 756499010028 catalytic triad [active] 756499010029 oxyanion hole [active] 756499010030 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 756499010031 putative deacylase active site [active] 756499010032 Yqey-like protein; Region: YqeY; pfam09424 756499010033 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 756499010034 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 756499010035 nucleotide binding site/active site [active] 756499010036 HIT family signature motif; other site 756499010037 catalytic residue [active] 756499010038 PEGA domain; Region: PEGA; pfam08308 756499010039 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 756499010040 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 756499010041 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 756499010042 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 756499010043 FeS/SAM binding site; other site 756499010044 TRAM domain; Region: TRAM; cl01282 756499010045 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 756499010046 RNA methyltransferase, RsmE family; Region: TIGR00046 756499010047 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 756499010048 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 756499010049 S-adenosylmethionine binding site [chemical binding]; other site 756499010050 chaperone protein DnaJ; Provisional; Region: PRK10767 756499010051 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 756499010052 HSP70 interaction site [polypeptide binding]; other site 756499010053 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 756499010054 substrate binding site [polypeptide binding]; other site 756499010055 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 756499010056 Zn binding sites [ion binding]; other site 756499010057 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 756499010058 dimer interface [polypeptide binding]; other site 756499010059 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 756499010060 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 756499010061 nucleotide binding site [chemical binding]; other site 756499010062 NEF interaction site [polypeptide binding]; other site 756499010063 SBD interface [polypeptide binding]; other site 756499010064 GrpE; Region: GrpE; pfam01025 756499010065 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 756499010066 dimer interface [polypeptide binding]; other site 756499010067 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 756499010068 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 756499010069 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 756499010070 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 756499010071 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 756499010072 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 756499010073 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499010074 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499010075 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499010076 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 756499010077 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499010078 active site 756499010079 phosphorylation site [posttranslational modification] 756499010080 intermolecular recognition site; other site 756499010081 dimerization interface [polypeptide binding]; other site 756499010082 Histidine kinase; Region: His_kinase; pfam06580 756499010083 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499010084 ATP binding site [chemical binding]; other site 756499010085 Mg2+ binding site [ion binding]; other site 756499010086 G-X-G motif; other site 756499010087 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 756499010088 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 756499010089 FeS/SAM binding site; other site 756499010090 HemN C-terminal domain; Region: HemN_C; pfam06969 756499010091 GTP-binding protein LepA; Provisional; Region: PRK05433 756499010092 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 756499010093 G1 box; other site 756499010094 putative GEF interaction site [polypeptide binding]; other site 756499010095 GTP/Mg2+ binding site [chemical binding]; other site 756499010096 Switch I region; other site 756499010097 G2 box; other site 756499010098 G3 box; other site 756499010099 Switch II region; other site 756499010100 G4 box; other site 756499010101 G5 box; other site 756499010102 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 756499010103 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 756499010104 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 756499010105 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 756499010106 L-aspartate oxidase; Provisional; Region: PRK06175 756499010107 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 756499010108 FMN-binding domain; Region: FMN_bind; pfam04205 756499010109 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 756499010110 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499010111 active site 756499010112 phosphorylation site [posttranslational modification] 756499010113 intermolecular recognition site; other site 756499010114 dimerization interface [polypeptide binding]; other site 756499010115 sensory histidine kinase DcuS; Provisional; Region: PRK11086 756499010116 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499010117 ATP binding site [chemical binding]; other site 756499010118 Mg2+ binding site [ion binding]; other site 756499010119 G-X-G motif; other site 756499010120 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 756499010121 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 756499010122 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 756499010123 stage II sporulation protein P; Region: spore_II_P; TIGR02867 756499010124 Membrane protein of unknown function; Region: DUF360; pfam04020 756499010125 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 756499010126 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 756499010127 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 756499010128 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 756499010129 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 756499010130 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 756499010131 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 756499010132 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 756499010133 Potassium binding sites [ion binding]; other site 756499010134 Cesium cation binding sites [ion binding]; other site 756499010135 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 756499010136 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 756499010137 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 756499010138 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 756499010139 homodimer interface [polypeptide binding]; other site 756499010140 NADP binding site [chemical binding]; other site 756499010141 substrate binding site [chemical binding]; other site 756499010142 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 756499010143 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 756499010144 Competence protein; Region: Competence; pfam03772 756499010145 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 756499010146 SLBB domain; Region: SLBB; pfam10531 756499010147 Helix-hairpin-helix motif; Region: HHH; pfam00633 756499010148 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 756499010149 BCCT family transporter; Region: BCCT; pfam02028 756499010150 Sensory domain found in PocR; Region: PocR; pfam10114 756499010151 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 756499010152 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 756499010153 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 756499010154 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 756499010155 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 756499010156 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 756499010157 B12 binding site [chemical binding]; other site 756499010158 cobalt ligand [ion binding]; other site 756499010159 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 756499010160 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 756499010161 catalytic loop [active] 756499010162 iron binding site [ion binding]; other site 756499010163 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 756499010164 nucleotide binding site [chemical binding]; other site 756499010165 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 756499010166 BCCT family transporter; Region: BCCT; pfam02028 756499010167 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 756499010168 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 756499010169 B12 binding site [chemical binding]; other site 756499010170 cobalt ligand [ion binding]; other site 756499010171 Trimethylamine:corrinoid methyltransferase [Coenzyme metabolism]; Region: COG5598 756499010172 tetrahydromethanopterin S-methyltransferase subunit H; Provisional; Region: PRK00979 756499010173 Tetrahydromethanopterin S-methyltransferase, subunit H [Coenzyme metabolism]; Region: MtrH; cl15798 756499010174 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 756499010175 Major Facilitator Superfamily; Region: MFS_1; pfam07690 756499010176 putative substrate translocation pore; other site 756499010177 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 756499010178 CRP/FNR family transcriptional regulator; Provisional; Region: PRK13918 756499010179 ligand binding site [chemical binding]; other site 756499010180 flexible hinge region; other site 756499010181 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 756499010182 putative switch regulator; other site 756499010183 non-specific DNA interactions [nucleotide binding]; other site 756499010184 DNA binding site [nucleotide binding] 756499010185 sequence specific DNA binding site [nucleotide binding]; other site 756499010186 putative cAMP binding site [chemical binding]; other site 756499010187 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 756499010188 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499010189 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 756499010190 The MopB_4 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_4; cd02765 756499010191 putative [4Fe-4S] binding site [ion binding]; other site 756499010192 putative molybdopterin cofactor binding site [chemical binding]; other site 756499010193 The MopB_CT_4 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. This CD is...; Region: MopB_CT_4; cd02785 756499010194 putative molybdopterin cofactor binding site; other site 756499010195 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 756499010196 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 756499010197 HIGH motif; other site 756499010198 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 756499010199 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 756499010200 active site 756499010201 KMSKS motif; other site 756499010202 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 756499010203 tRNA binding surface [nucleotide binding]; other site 756499010204 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 756499010205 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499010206 Zn2+ binding site [ion binding]; other site 756499010207 Mg2+ binding site [ion binding]; other site 756499010208 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 756499010209 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 756499010210 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 756499010211 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 756499010212 active site 756499010213 (T/H)XGH motif; other site 756499010214 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 756499010215 GTPase CgtA; Reviewed; Region: obgE; PRK12297 756499010216 GTP1/OBG; Region: GTP1_OBG; pfam01018 756499010217 Obg GTPase; Region: Obg; cd01898 756499010218 G1 box; other site 756499010219 GTP/Mg2+ binding site [chemical binding]; other site 756499010220 Switch I region; other site 756499010221 G2 box; other site 756499010222 G3 box; other site 756499010223 Switch II region; other site 756499010224 G4 box; other site 756499010225 G5 box; other site 756499010226 Obg family GTPase CgtA, C-terminal extension; Region: Obg_CgtA_exten; TIGR03595 756499010227 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 756499010228 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 756499010229 Protein of unknown function (DUF464); Region: DUF464; pfam04327 756499010230 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 756499010231 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 756499010232 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 756499010233 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 756499010234 homodimer interface [polypeptide binding]; other site 756499010235 oligonucleotide binding site [chemical binding]; other site 756499010236 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 756499010237 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 756499010238 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 756499010239 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 756499010240 B12 binding site [chemical binding]; other site 756499010241 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 756499010242 FeS/SAM binding site; other site 756499010243 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 756499010244 Peptidase family M50; Region: Peptidase_M50; pfam02163 756499010245 active site 756499010246 putative substrate binding region [chemical binding]; other site 756499010247 Peptidase family M23; Region: Peptidase_M23; pfam01551 756499010248 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 756499010249 Septum formation topological specificity factor MinE; Region: MinE; cl00538 756499010250 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 756499010251 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 756499010252 Switch I; other site 756499010253 Switch II; other site 756499010254 septum formation inhibitor; Reviewed; Region: minC; PRK00513 756499010255 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 756499010256 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 756499010257 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 756499010258 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 756499010259 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 756499010260 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 756499010261 rod shape-determining protein MreC; Provisional; Region: PRK13922 756499010262 rod shape-determining protein MreC; Region: MreC; pfam04085 756499010263 rod shape-determining protein MreB; Provisional; Region: PRK13927 756499010264 MreB and similar proteins; Region: MreB_like; cd10225 756499010265 nucleotide binding site [chemical binding]; other site 756499010266 Mg binding site [ion binding]; other site 756499010267 putative protofilament interaction site [polypeptide binding]; other site 756499010268 RodZ interaction site [polypeptide binding]; other site 756499010269 hypothetical protein; Reviewed; Region: PRK00024 756499010270 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 756499010271 MPN+ (JAMM) motif; other site 756499010272 Zinc-binding site [ion binding]; other site 756499010273 Maf-like protein; Region: Maf; pfam02545 756499010274 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 756499010275 active site 756499010276 dimer interface [polypeptide binding]; other site 756499010277 Domain of unknown function (DUF4321); Region: DUF4321; pfam14209 756499010278 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 756499010279 Aspartase; Region: Aspartase; cd01357 756499010280 active sites [active] 756499010281 tetramer interface [polypeptide binding]; other site 756499010282 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 756499010283 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 756499010284 CoA binding domain; Region: CoA_binding; smart00881 756499010285 Sporulation related domain; Region: SPOR; pfam05036 756499010286 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 756499010287 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 756499010288 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 756499010289 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 756499010290 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 756499010291 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 756499010292 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 756499010293 HIGH motif; other site 756499010294 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 756499010295 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 756499010296 active site 756499010297 KMSKS motif; other site 756499010298 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 756499010299 tRNA binding surface [nucleotide binding]; other site 756499010300 anticodon binding site; other site 756499010301 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 756499010302 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 756499010303 dimerization interface [polypeptide binding]; other site 756499010304 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 756499010305 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499010306 dimer interface [polypeptide binding]; other site 756499010307 putative CheW interface [polypeptide binding]; other site 756499010308 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 756499010309 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 756499010310 active site 756499010311 FMN binding site [chemical binding]; other site 756499010312 substrate binding site [chemical binding]; other site 756499010313 3Fe-4S cluster binding site [ion binding]; other site 756499010314 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 756499010315 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 756499010316 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499010317 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 756499010318 dinuclear metal binding motif [ion binding]; other site 756499010319 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 756499010320 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 756499010321 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 756499010322 G1 box; other site 756499010323 GTP/Mg2+ binding site [chemical binding]; other site 756499010324 Switch I region; other site 756499010325 G2 box; other site 756499010326 G3 box; other site 756499010327 Switch II region; other site 756499010328 G4 box; other site 756499010329 G5 box; other site 756499010330 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 756499010331 Found in ATP-dependent protease La (LON); Region: LON; smart00464 756499010332 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 756499010333 Walker A motif; other site 756499010334 ATP binding site [chemical binding]; other site 756499010335 Walker B motif; other site 756499010336 arginine finger; other site 756499010337 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 756499010338 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 756499010339 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 756499010340 Walker A motif; other site 756499010341 ATP binding site [chemical binding]; other site 756499010342 Walker B motif; other site 756499010343 arginine finger; other site 756499010344 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 756499010345 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 756499010346 active site 756499010347 ribulose/triose binding site [chemical binding]; other site 756499010348 phosphate binding site [ion binding]; other site 756499010349 substrate (anthranilate) binding pocket [chemical binding]; other site 756499010350 product (indole) binding pocket [chemical binding]; other site 756499010351 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 756499010352 active site 756499010353 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 756499010354 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 756499010355 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 756499010356 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 756499010357 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 756499010358 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499010359 catalytic residue [active] 756499010360 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 756499010361 substrate binding site [chemical binding]; other site 756499010362 active site 756499010363 catalytic residues [active] 756499010364 heterodimer interface [polypeptide binding]; other site 756499010365 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 756499010366 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 756499010367 Glutamine amidotransferase class-I; Region: GATase; pfam00117 756499010368 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 756499010369 glutamine binding [chemical binding]; other site 756499010370 catalytic triad [active] 756499010371 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 756499010372 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 756499010373 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 756499010374 Walker A motif; other site 756499010375 ATP binding site [chemical binding]; other site 756499010376 Walker B motif; other site 756499010377 arginine finger; other site 756499010378 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 756499010379 trigger factor; Provisional; Region: tig; PRK01490 756499010380 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 756499010381 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 756499010382 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 756499010383 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 756499010384 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 756499010385 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 756499010386 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 756499010387 FAD binding domain; Region: FAD_binding_4; pfam01565 756499010388 FAD binding domain; Region: FAD_binding_4; pfam01565 756499010389 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 756499010390 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 756499010391 Cysteine-rich domain; Region: CCG; pfam02754 756499010392 Cysteine-rich domain; Region: CCG; pfam02754 756499010393 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 756499010394 Transcriptional regulator [Transcription]; Region: IclR; COG1414 756499010395 Bacterial transcriptional regulator; Region: IclR; pfam01614 756499010396 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 756499010397 active site 756499010398 dimerization interface [polypeptide binding]; other site 756499010399 ribonuclease PH; Reviewed; Region: rph; PRK00173 756499010400 Ribonuclease PH; Region: RNase_PH_bact; cd11362 756499010401 hexamer interface [polypeptide binding]; other site 756499010402 active site 756499010403 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 756499010404 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 756499010405 S-adenosylmethionine binding site [chemical binding]; other site 756499010406 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499010407 Zn2+ binding site [ion binding]; other site 756499010408 Mg2+ binding site [ion binding]; other site 756499010409 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 756499010410 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499010411 Zn2+ binding site [ion binding]; other site 756499010412 Mg2+ binding site [ion binding]; other site 756499010413 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 756499010414 heme-binding site [chemical binding]; other site 756499010415 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 756499010416 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499010417 dimer interface [polypeptide binding]; other site 756499010418 putative CheW interface [polypeptide binding]; other site 756499010419 hypothetical protein; Provisional; Region: PRK10220 756499010420 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 756499010421 dimer interface [polypeptide binding]; other site 756499010422 phosphorylation site [posttranslational modification] 756499010423 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499010424 ATP binding site [chemical binding]; other site 756499010425 Mg2+ binding site [ion binding]; other site 756499010426 G-X-G motif; other site 756499010427 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 756499010428 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 756499010429 Fumarase C-terminus; Region: Fumerase_C; cl00795 756499010430 fumarate hydratase; Provisional; Region: PRK06246 756499010431 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 756499010432 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 756499010433 methylaspartate ammonia-lyase; Region: B_methylAsp_ase; TIGR01502 756499010434 Methylaspartate ammonia lyase (3-methylaspartase, MAL) is a homodimeric enzyme, catalyzing the magnesium-dependent reversible alpha,beta-elimination of ammonia from L-threo-(2S,3S)-3-methylaspartic acid to mesaconic acid. This reaction is part of the...; Region: MAL; cd03314 756499010435 dimer interface [polypeptide binding]; other site 756499010436 active site 756499010437 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cd00245 756499010438 substrate binding site [chemical binding]; other site 756499010439 B12 cofactor binding site [chemical binding]; other site 756499010440 heterodimer (sigma-epsilon) interface [polypeptide binding]; other site 756499010441 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 756499010442 MutL protein; Region: MutL; pfam13941 756499010443 B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'...; Region: Glm_B12_BD; cd02072 756499010444 B12 binding site [chemical binding]; other site 756499010445 heterodimer interface [polypeptide binding]; other site 756499010446 cobalt ligand [ion binding]; other site 756499010447 glutamate racemase; Provisional; Region: PRK00865 756499010448 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 756499010449 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499010450 Zn2+ binding site [ion binding]; other site 756499010451 Mg2+ binding site [ion binding]; other site 756499010452 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 756499010453 MarR family; Region: MarR; pfam01047 756499010454 MarR family; Region: MarR_2; cl17246 756499010455 Sporulation and spore germination; Region: Germane; pfam10646 756499010456 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 756499010457 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499010458 active site 756499010459 phosphorylation site [posttranslational modification] 756499010460 intermolecular recognition site; other site 756499010461 dimerization interface [polypeptide binding]; other site 756499010462 LytTr DNA-binding domain; Region: LytTR; smart00850 756499010463 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 756499010464 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 756499010465 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_like_4; cd04501 756499010466 active site 756499010467 catalytic triad [active] 756499010468 oxyanion hole [active] 756499010469 Transcriptional regulators [Transcription]; Region: FadR; COG2186 756499010470 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 756499010471 DNA-binding site [nucleotide binding]; DNA binding site 756499010472 FCD domain; Region: FCD; pfam07729 756499010473 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 756499010474 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 756499010475 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499010476 dimer interface [polypeptide binding]; other site 756499010477 putative CheW interface [polypeptide binding]; other site 756499010478 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 756499010479 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 756499010480 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 756499010481 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 756499010482 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 756499010483 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 756499010484 Protein of unknown function (DUF964); Region: DUF964; pfam06133 756499010485 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 756499010486 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499010487 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 756499010488 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in uncharacterized protein from Archaeoglobus fulgidus (Af0060) and its bacterial homologs; Region: NTP-PPase_Af0060_like; cd11533 756499010489 homodimer interface [polypeptide binding]; other site 756499010490 metal binding site [ion binding]; metal-binding site 756499010491 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 756499010492 C-terminal peptidase (prc); Region: prc; TIGR00225 756499010493 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 756499010494 protein binding site [polypeptide binding]; other site 756499010495 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 756499010496 Catalytic dyad [active] 756499010497 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 756499010498 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 756499010499 minor groove reading motif; other site 756499010500 helix-hairpin-helix signature motif; other site 756499010501 substrate binding pocket [chemical binding]; other site 756499010502 active site 756499010503 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 756499010504 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 756499010505 DNA binding and oxoG recognition site [nucleotide binding] 756499010506 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 756499010507 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 756499010508 homodimer interface [polypeptide binding]; other site 756499010509 substrate-cofactor binding pocket; other site 756499010510 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499010511 catalytic residue [active] 756499010512 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 756499010513 4Fe-4S binding domain; Region: Fer4; cl02805 756499010514 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 756499010515 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 756499010516 dimerization interface [polypeptide binding]; other site 756499010517 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 756499010518 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499010519 dimer interface [polypeptide binding]; other site 756499010520 putative CheW interface [polypeptide binding]; other site 756499010521 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 756499010522 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 756499010523 anti sigma factor interaction site; other site 756499010524 regulatory phosphorylation site [posttranslational modification]; other site 756499010525 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 756499010526 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499010527 Mg2+ binding site [ion binding]; other site 756499010528 G-X-G motif; other site 756499010529 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 756499010530 PAS domain; Region: PAS_9; pfam13426 756499010531 putative active site [active] 756499010532 heme pocket [chemical binding]; other site 756499010533 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 756499010534 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 756499010535 Peptidase family M23; Region: Peptidase_M23; pfam01551 756499010536 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 756499010537 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 756499010538 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 756499010539 VanW like protein; Region: VanW; pfam04294 756499010540 G5 domain; Region: G5; pfam07501 756499010541 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 756499010542 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 756499010543 non-specific DNA binding site [nucleotide binding]; other site 756499010544 salt bridge; other site 756499010545 sequence-specific DNA binding site [nucleotide binding]; other site 756499010546 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 756499010547 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 756499010548 non-specific DNA binding site [nucleotide binding]; other site 756499010549 salt bridge; other site 756499010550 sequence-specific DNA binding site [nucleotide binding]; other site 756499010551 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 756499010552 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 756499010553 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499010554 catalytic residue [active] 756499010555 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 756499010556 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 756499010557 glutamine binding [chemical binding]; other site 756499010558 catalytic triad [active] 756499010559 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 756499010560 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 756499010561 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 756499010562 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 756499010563 Transposase domain (DUF772); Region: DUF772; pfam05598 756499010564 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 756499010565 Predicted integral membrane protein [Function unknown]; Region: COG5652 756499010566 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 756499010567 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 756499010568 NAD binding site [chemical binding]; other site 756499010569 homodimer interface [polypeptide binding]; other site 756499010570 active site 756499010571 substrate binding site [chemical binding]; other site 756499010572 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 756499010573 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 756499010574 homotetramer interface [polypeptide binding]; other site 756499010575 ligand binding site [chemical binding]; other site 756499010576 catalytic site [active] 756499010577 NAD binding site [chemical binding]; other site 756499010578 S-adenosylmethionine synthetase; Validated; Region: PRK05250 756499010579 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 756499010580 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 756499010581 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 756499010582 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 756499010583 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 756499010584 putative ADP-binding pocket [chemical binding]; other site 756499010585 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 756499010586 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 756499010587 NAD(P) binding site [chemical binding]; other site 756499010588 active site 756499010589 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 756499010590 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 756499010591 active site 756499010592 homodimer interface [polypeptide binding]; other site 756499010593 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 756499010594 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 756499010595 NAD(P) binding site [chemical binding]; other site 756499010596 homodimer interface [polypeptide binding]; other site 756499010597 substrate binding site [chemical binding]; other site 756499010598 active site 756499010599 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 756499010600 Methyltransferase domain; Region: Methyltransf_23; pfam13489 756499010601 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 756499010602 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 756499010603 Methyltransferase domain; Region: Methyltransf_23; pfam13489 756499010604 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 756499010605 S-adenosylmethionine binding site [chemical binding]; other site 756499010606 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 756499010607 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 756499010608 FeS/SAM binding site; other site 756499010609 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 756499010610 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 756499010611 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 756499010612 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 756499010613 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 756499010614 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 756499010615 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 756499010616 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 756499010617 Walker A/P-loop; other site 756499010618 ATP binding site [chemical binding]; other site 756499010619 Q-loop/lid; other site 756499010620 ABC transporter signature motif; other site 756499010621 Walker B; other site 756499010622 D-loop; other site 756499010623 H-loop/switch region; other site 756499010624 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 756499010625 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 756499010626 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 756499010627 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 756499010628 putative ADP-binding pocket [chemical binding]; other site 756499010629 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 756499010630 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 756499010631 Bacterial sugar transferase; Region: Bac_transf; pfam02397 756499010632 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 756499010633 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 756499010634 Bacterial Ig-like domain 2; Region: BID_2; smart00635 756499010635 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499010636 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499010637 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499010638 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 756499010639 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 756499010640 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 756499010641 Interdomain contacts; other site 756499010642 Cytokine receptor motif; other site 756499010643 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499010644 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499010645 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499010646 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 756499010647 Interdomain contacts; other site 756499010648 Cytokine receptor motif; other site 756499010649 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 756499010650 Interdomain contacts; other site 756499010651 Cytokine receptor motif; other site 756499010652 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 756499010653 Interdomain contacts; other site 756499010654 Cytokine receptor motif; other site 756499010655 O-Antigen ligase; Region: Wzy_C; pfam04932 756499010656 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 756499010657 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499010658 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499010659 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499010660 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 756499010661 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 756499010662 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 756499010663 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 756499010664 Substrate binding site [chemical binding]; other site 756499010665 Leucine rich repeat; Region: LRR_8; pfam13855 756499010666 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 756499010667 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499010668 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499010669 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499010670 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499010671 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 756499010672 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 756499010673 active site 756499010674 metal binding site [ion binding]; metal-binding site 756499010675 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499010676 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499010677 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499010678 Glyco_18 domain; Region: Glyco_18; smart00636 756499010679 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 756499010680 active site 756499010681 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 756499010682 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 756499010683 inhibitor-cofactor binding pocket; inhibition site 756499010684 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499010685 catalytic residue [active] 756499010686 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 756499010687 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 756499010688 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 756499010689 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 756499010690 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 756499010691 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 756499010692 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 756499010693 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 756499010694 O-Antigen ligase; Region: Wzy_C; pfam04932 756499010695 putative glycosyl transferase; Provisional; Region: PRK10307 756499010696 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 756499010697 Bacterial sugar transferase; Region: Bac_transf; pfam02397 756499010698 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 756499010699 putative trimer interface [polypeptide binding]; other site 756499010700 putative CoA binding site [chemical binding]; other site 756499010701 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 756499010702 putative trimer interface [polypeptide binding]; other site 756499010703 putative active site [active] 756499010704 putative substrate binding site [chemical binding]; other site 756499010705 putative CoA binding site [chemical binding]; other site 756499010706 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 756499010707 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 756499010708 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 756499010709 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 756499010710 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 756499010711 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 756499010712 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 756499010713 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 756499010714 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 756499010715 NAD(P) binding site [chemical binding]; other site 756499010716 homodimer interface [polypeptide binding]; other site 756499010717 substrate binding site [chemical binding]; other site 756499010718 active site 756499010719 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 756499010720 N-acetyl-D-glucosamine binding site [chemical binding]; other site 756499010721 catalytic residue [active] 756499010722 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499010723 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499010724 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499010725 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 756499010726 SdpI/YhfL protein family; Region: SdpI; pfam13630 756499010727 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 756499010728 dimerization interface [polypeptide binding]; other site 756499010729 putative DNA binding site [nucleotide binding]; other site 756499010730 putative Zn2+ binding site [ion binding]; other site 756499010731 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 756499010732 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 756499010733 active site 756499010734 tetramer interface; other site 756499010735 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 756499010736 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 756499010737 oligomer interface [polypeptide binding]; other site 756499010738 active site residues [active] 756499010739 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 756499010740 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499010741 dimer interface [polypeptide binding]; other site 756499010742 putative CheW interface [polypeptide binding]; other site 756499010743 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 756499010744 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 756499010745 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 756499010746 Cysteine-rich domain; Region: CCG; pfam02754 756499010747 Cysteine-rich domain; Region: CCG; pfam02754 756499010748 FAD binding domain; Region: FAD_binding_4; pfam01565 756499010749 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 756499010750 Transcriptional regulators [Transcription]; Region: FadR; COG2186 756499010751 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 756499010752 DNA-binding site [nucleotide binding]; DNA binding site 756499010753 FCD domain; Region: FCD; pfam07729 756499010754 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 756499010755 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 756499010756 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 756499010757 HlyD family secretion protein; Region: HlyD_3; pfam13437 756499010758 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 756499010759 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 756499010760 Protein of unknown function (DUF445); Region: DUF445; pfam04286 756499010761 Protein of unknown function (DUF445); Region: DUF445; pfam04286 756499010762 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 756499010763 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 756499010764 4Fe-4S binding domain; Region: Fer4_2; pfam12797 756499010765 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 756499010766 Cysteine-rich domain; Region: CCG; pfam02754 756499010767 Cysteine-rich domain; Region: CCG; pfam02754 756499010768 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 756499010769 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 756499010770 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 756499010771 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 756499010772 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 756499010773 active site 756499010774 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 756499010775 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 756499010776 dimer interface [polypeptide binding]; other site 756499010777 active site 756499010778 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 756499010779 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 756499010780 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 756499010781 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 756499010782 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 756499010783 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 756499010784 substrate binding site [chemical binding]; other site 756499010785 oxyanion hole (OAH) forming residues; other site 756499010786 trimer interface [polypeptide binding]; other site 756499010787 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 756499010788 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 756499010789 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 756499010790 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 756499010791 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 756499010792 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 756499010793 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 756499010794 Ligand binding site [chemical binding]; other site 756499010795 Electron transfer flavoprotein domain; Region: ETF; pfam01012 756499010796 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 756499010797 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 756499010798 active site 756499010799 FMN binding site [chemical binding]; other site 756499010800 substrate binding site [chemical binding]; other site 756499010801 putative catalytic residue [active] 756499010802 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 756499010803 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 756499010804 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 756499010805 substrate binding site [chemical binding]; other site 756499010806 oxyanion hole (OAH) forming residues; other site 756499010807 trimer interface [polypeptide binding]; other site 756499010808 hybrid cluster protein; Provisional; Region: PRK05290 756499010809 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 756499010810 ACS interaction site; other site 756499010811 CODH interaction site; other site 756499010812 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 756499010813 hybrid metal cluster; other site 756499010814 Response regulator receiver domain; Region: Response_reg; pfam00072 756499010815 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499010816 active site 756499010817 phosphorylation site [posttranslational modification] 756499010818 intermolecular recognition site; other site 756499010819 dimerization interface [polypeptide binding]; other site 756499010820 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 756499010821 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 756499010822 putative active site [active] 756499010823 heme pocket [chemical binding]; other site 756499010824 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 756499010825 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 756499010826 putative active site [active] 756499010827 heme pocket [chemical binding]; other site 756499010828 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 756499010829 putative active site [active] 756499010830 heme pocket [chemical binding]; other site 756499010831 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 756499010832 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 756499010833 dimer interface [polypeptide binding]; other site 756499010834 phosphorylation site [posttranslational modification] 756499010835 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499010836 ATP binding site [chemical binding]; other site 756499010837 Mg2+ binding site [ion binding]; other site 756499010838 G-X-G motif; other site 756499010839 Response regulator receiver domain; Region: Response_reg; pfam00072 756499010840 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499010841 active site 756499010842 phosphorylation site [posttranslational modification] 756499010843 intermolecular recognition site; other site 756499010844 dimerization interface [polypeptide binding]; other site 756499010845 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 756499010846 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 756499010847 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 756499010848 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 756499010849 Cache domain; Region: Cache_1; pfam02743 756499010850 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 756499010851 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499010852 dimer interface [polypeptide binding]; other site 756499010853 putative CheW interface [polypeptide binding]; other site 756499010854 PAS fold; Region: PAS; pfam00989 756499010855 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 756499010856 putative active site [active] 756499010857 heme pocket [chemical binding]; other site 756499010858 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 756499010859 metal binding site [ion binding]; metal-binding site 756499010860 active site 756499010861 I-site; other site 756499010862 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 756499010863 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 756499010864 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 756499010865 metal binding site [ion binding]; metal-binding site 756499010866 active site 756499010867 I-site; other site 756499010868 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 756499010869 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 756499010870 Walker A/P-loop; other site 756499010871 ATP binding site [chemical binding]; other site 756499010872 Q-loop/lid; other site 756499010873 ABC transporter signature motif; other site 756499010874 Walker B; other site 756499010875 D-loop; other site 756499010876 H-loop/switch region; other site 756499010877 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 756499010878 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 756499010879 dimer interface [polypeptide binding]; other site 756499010880 conserved gate region; other site 756499010881 putative PBP binding loops; other site 756499010882 ABC-ATPase subunit interface; other site 756499010883 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 756499010884 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 756499010885 substrate binding pocket [chemical binding]; other site 756499010886 membrane-bound complex binding site; other site 756499010887 hinge residues; other site 756499010888 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 756499010889 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499010890 Walker A/P-loop; other site 756499010891 ATP binding site [chemical binding]; other site 756499010892 Q-loop/lid; other site 756499010893 ABC transporter signature motif; other site 756499010894 Walker B; other site 756499010895 D-loop; other site 756499010896 H-loop/switch region; other site 756499010897 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 756499010898 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 756499010899 TM-ABC transporter signature motif; other site 756499010900 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 756499010901 zinc binding site [ion binding]; other site 756499010902 putative ligand binding site [chemical binding]; other site 756499010903 PAS domain S-box; Region: sensory_box; TIGR00229 756499010904 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 756499010905 putative active site [active] 756499010906 heme pocket [chemical binding]; other site 756499010907 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 756499010908 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 756499010909 metal binding site [ion binding]; metal-binding site 756499010910 active site 756499010911 I-site; other site 756499010912 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 756499010913 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 756499010914 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 756499010915 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 756499010916 dimer interface [polypeptide binding]; other site 756499010917 conserved gate region; other site 756499010918 putative PBP binding loops; other site 756499010919 ABC-ATPase subunit interface; other site 756499010920 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 756499010921 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 756499010922 Walker A/P-loop; other site 756499010923 ATP binding site [chemical binding]; other site 756499010924 Q-loop/lid; other site 756499010925 ABC transporter signature motif; other site 756499010926 Walker B; other site 756499010927 D-loop; other site 756499010928 H-loop/switch region; other site 756499010929 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499010930 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 756499010931 Walker A/P-loop; other site 756499010932 ATP binding site [chemical binding]; other site 756499010933 Q-loop/lid; other site 756499010934 ABC transporter signature motif; other site 756499010935 Walker B; other site 756499010936 D-loop; other site 756499010937 H-loop/switch region; other site 756499010938 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 756499010939 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 756499010940 putative PBP binding loops; other site 756499010941 dimer interface [polypeptide binding]; other site 756499010942 ABC-ATPase subunit interface; other site 756499010943 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 756499010944 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 756499010945 Helix-turn-helix domain; Region: HTH_17; pfam12728 756499010946 PBP superfamily domain; Region: PBP_like; pfam12727 756499010947 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 756499010948 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 756499010949 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499010950 homodimer interface [polypeptide binding]; other site 756499010951 catalytic residue [active] 756499010952 GAF domain; Region: GAF_3; pfam13492 756499010953 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 756499010954 PAS domain S-box; Region: sensory_box; TIGR00229 756499010955 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 756499010956 putative active site [active] 756499010957 heme pocket [chemical binding]; other site 756499010958 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 756499010959 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 756499010960 metal binding site [ion binding]; metal-binding site 756499010961 active site 756499010962 I-site; other site 756499010963 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 756499010964 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 756499010965 Zn2+ binding site [ion binding]; other site 756499010966 Mg2+ binding site [ion binding]; other site 756499010967 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 756499010968 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 756499010969 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 756499010970 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cd00350 756499010971 Rubredoxin; Region: Rubredoxin; pfam00301 756499010972 iron binding site [ion binding]; other site 756499010973 Rubrerythrin [Energy production and conversion]; Region: COG1592 756499010974 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 756499010975 diiron binding motif [ion binding]; other site 756499010976 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 756499010977 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499010978 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 756499010979 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 756499010980 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 756499010981 molybdopterin cofactor binding site; other site 756499010982 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 756499010983 molybdopterin cofactor binding site; other site 756499010984 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 756499010985 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499010986 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 756499010987 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 756499010988 putative [4Fe-4S] binding site [ion binding]; other site 756499010989 putative molybdopterin cofactor binding site [chemical binding]; other site 756499010990 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 756499010991 molybdopterin cofactor binding site; other site 756499010992 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 756499010993 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 756499010994 Protein of unknown function (DUF1847); Region: DUF1847; pfam08901 756499010995 Uncharacterized conserved protein [Function unknown]; Region: COG4198 756499010996 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 756499010997 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 756499010998 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 756499010999 putative ligand binding site [chemical binding]; other site 756499011000 putative NAD binding site [chemical binding]; other site 756499011001 putative catalytic site [active] 756499011002 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 756499011003 L-serine binding site [chemical binding]; other site 756499011004 ACT domain interface; other site 756499011005 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 756499011006 homodimer interface [polypeptide binding]; other site 756499011007 substrate-cofactor binding pocket; other site 756499011008 pyridoxal 5'-phosphate binding site [chemical binding]; other site 756499011009 catalytic residue [active] 756499011010 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 756499011011 Homoserine O-succinyltransferase; Region: HTS; pfam04204 756499011012 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 756499011013 proposed active site lysine [active] 756499011014 conserved cys residue [active] 756499011015 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 756499011016 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 756499011017 substrate binding pocket [chemical binding]; other site 756499011018 membrane-bound complex binding site; other site 756499011019 hinge residues; other site 756499011020 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 756499011021 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 756499011022 Walker A/P-loop; other site 756499011023 ATP binding site [chemical binding]; other site 756499011024 Q-loop/lid; other site 756499011025 ABC transporter signature motif; other site 756499011026 Walker B; other site 756499011027 D-loop; other site 756499011028 H-loop/switch region; other site 756499011029 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 756499011030 dimer interface [polypeptide binding]; other site 756499011031 conserved gate region; other site 756499011032 ABC-ATPase subunit interface; other site 756499011033 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 756499011034 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 756499011035 dimer interface [polypeptide binding]; other site 756499011036 conserved gate region; other site 756499011037 putative PBP binding loops; other site 756499011038 ABC-ATPase subunit interface; other site 756499011039 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 756499011040 active site 756499011041 putative catalytic site [active] 756499011042 DNA binding site [nucleotide binding] 756499011043 putative phosphate binding site [ion binding]; other site 756499011044 metal binding site A [ion binding]; metal-binding site 756499011045 AP binding site [nucleotide binding]; other site 756499011046 metal binding site B [ion binding]; metal-binding site 756499011047 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 756499011048 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499011049 dimer interface [polypeptide binding]; other site 756499011050 putative CheW interface [polypeptide binding]; other site 756499011051 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 756499011052 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 756499011053 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 756499011054 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 756499011055 active site 756499011056 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 756499011057 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 756499011058 CPxP motif; other site 756499011059 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 756499011060 selenophosphate synthetase; Provisional; Region: PRK00943 756499011061 dimerization interface [polypeptide binding]; other site 756499011062 putative ATP binding site [chemical binding]; other site 756499011063 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 756499011064 CmuC_like. Proteins similar to the putative corrinoid methyltransferase CmuC. Its function has been inferred from sequence similarity to the methyltransferases CmuA and MtaA. Mutants of Methylobacterium sp. disrupted in cmuC and purU appear deficient in...; Region: CmuC_like; cd03309 756499011065 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 756499011066 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 756499011067 B12 binding site [chemical binding]; other site 756499011068 cobalt ligand [ion binding]; other site 756499011069 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 756499011070 substrate binding pocket [chemical binding]; other site 756499011071 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 756499011072 dimer interface [polypeptide binding]; other site 756499011073 inhibitor binding site; inhibition site 756499011074 Transcriptional regulator [Transcription]; Region: LysR; COG0583 756499011075 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 756499011076 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 756499011077 dimerization interface [polypeptide binding]; other site 756499011078 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 756499011079 Ligand Binding Site [chemical binding]; other site 756499011080 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 756499011081 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 756499011082 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 756499011083 PhnA protein; Region: PhnA; pfam03831 756499011084 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 756499011085 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 756499011086 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 756499011087 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 756499011088 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 756499011089 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 756499011090 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 756499011091 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 756499011092 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 756499011093 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 756499011094 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 756499011095 GatB domain; Region: GatB_Yqey; smart00845 756499011096 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 756499011097 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 756499011098 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 756499011099 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 756499011100 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 756499011101 GAF domain; Region: GAF_3; pfam13492 756499011102 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 756499011103 dimer interface [polypeptide binding]; other site 756499011104 phosphorylation site [posttranslational modification] 756499011105 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499011106 ATP binding site [chemical binding]; other site 756499011107 Mg2+ binding site [ion binding]; other site 756499011108 G-X-G motif; other site 756499011109 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499011110 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499011111 active site 756499011112 phosphorylation site [posttranslational modification] 756499011113 intermolecular recognition site; other site 756499011114 dimerization interface [polypeptide binding]; other site 756499011115 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 756499011116 DNA binding site [nucleotide binding] 756499011117 Amino acid permease; Region: AA_permease_2; pfam13520 756499011118 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 756499011119 Domain of unknown function (DUF336); Region: DUF336; pfam03928 756499011120 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 756499011121 DctM-like transporters; Region: DctM; pfam06808 756499011122 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 756499011123 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 756499011124 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 756499011125 Amino acid synthesis; Region: AA_synth; pfam06684 756499011126 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 756499011127 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 756499011128 active site 756499011129 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 756499011130 Major Facilitator Superfamily; Region: MFS_1; pfam07690 756499011131 putative substrate translocation pore; other site 756499011132 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 756499011133 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 756499011134 PYR/PP interface [polypeptide binding]; other site 756499011135 dimer interface [polypeptide binding]; other site 756499011136 TPP binding site [chemical binding]; other site 756499011137 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 756499011138 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 756499011139 TPP-binding site [chemical binding]; other site 756499011140 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 756499011141 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 756499011142 DNA-binding site [nucleotide binding]; DNA binding site 756499011143 UTRA domain; Region: UTRA; pfam07702 756499011144 Propionate catabolism activator; Region: PrpR_N; pfam06506 756499011145 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499011146 putative CheW interface [polypeptide binding]; other site 756499011147 Major Facilitator Superfamily; Region: MFS_1; pfam07690 756499011148 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 756499011149 putative substrate translocation pore; other site 756499011150 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 756499011151 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 756499011152 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 756499011153 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 756499011154 [2Fe-2S] cluster binding site [ion binding]; other site 756499011155 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 756499011156 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 756499011157 GEMM cis-regulatory element; Desde_3984 756499011158 Cache domain; Region: Cache_1; pfam02743 756499011159 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 756499011160 dimerization interface [polypeptide binding]; other site 756499011161 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 756499011162 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499011163 dimer interface [polypeptide binding]; other site 756499011164 putative CheW interface [polypeptide binding]; other site 756499011165 Transposase, Mutator family; Region: Transposase_mut; pfam00872 756499011166 MULE transposase domain; Region: MULE; pfam10551 756499011167 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 756499011168 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 756499011169 P-loop; other site 756499011170 Magnesium ion binding site [ion binding]; other site 756499011171 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 756499011172 Magnesium ion binding site [ion binding]; other site 756499011173 AAA domain; Region: AAA_22; pfam13401 756499011174 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 756499011175 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 756499011176 Integrase core domain; Region: rve; pfam00665 756499011177 TniQ; Region: TniQ; pfam06527 756499011178 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 756499011179 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 756499011180 S-adenosylmethionine binding site [chemical binding]; other site 756499011181 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 756499011182 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 756499011183 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 756499011184 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 756499011185 dimerization interface [polypeptide binding]; other site 756499011186 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 756499011187 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 756499011188 dimer interface [polypeptide binding]; other site 756499011189 phosphorylation site [posttranslational modification] 756499011190 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499011191 ATP binding site [chemical binding]; other site 756499011192 Mg2+ binding site [ion binding]; other site 756499011193 G-X-G motif; other site 756499011194 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 756499011195 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499011196 active site 756499011197 phosphorylation site [posttranslational modification] 756499011198 intermolecular recognition site; other site 756499011199 dimerization interface [polypeptide binding]; other site 756499011200 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 756499011201 Walker A motif; other site 756499011202 ATP binding site [chemical binding]; other site 756499011203 Walker B motif; other site 756499011204 arginine finger; other site 756499011205 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 756499011206 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 756499011207 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 756499011208 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 756499011209 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 756499011210 Walker A/P-loop; other site 756499011211 ATP binding site [chemical binding]; other site 756499011212 Q-loop/lid; other site 756499011213 ABC transporter signature motif; other site 756499011214 Walker B; other site 756499011215 D-loop; other site 756499011216 H-loop/switch region; other site 756499011217 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 756499011218 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 756499011219 FtsX-like permease family; Region: FtsX; pfam02687 756499011220 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 756499011221 lipoprotein releasing system, transmembrane protein LolE; Region: lolE_release; TIGR02213 756499011222 FtsX-like permease family; Region: FtsX; pfam02687 756499011223 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 756499011224 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 756499011225 carboxyltransferase (CT) interaction site; other site 756499011226 biotinylation site [posttranslational modification]; other site 756499011227 HlyD family secretion protein; Region: HlyD_3; pfam13437 756499011228 glycerol kinase; Provisional; Region: glpK; PRK00047 756499011229 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 756499011230 N- and C-terminal domain interface [polypeptide binding]; other site 756499011231 active site 756499011232 MgATP binding site [chemical binding]; other site 756499011233 catalytic site [active] 756499011234 metal binding site [ion binding]; metal-binding site 756499011235 glycerol binding site [chemical binding]; other site 756499011236 homotetramer interface [polypeptide binding]; other site 756499011237 homodimer interface [polypeptide binding]; other site 756499011238 FBP binding site [chemical binding]; other site 756499011239 protein IIAGlc interface [polypeptide binding]; other site 756499011240 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 756499011241 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 756499011242 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 756499011243 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 756499011244 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 756499011245 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 756499011246 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 756499011247 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499011248 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499011249 active site 756499011250 phosphorylation site [posttranslational modification] 756499011251 intermolecular recognition site; other site 756499011252 dimerization interface [polypeptide binding]; other site 756499011253 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 756499011254 DNA binding site [nucleotide binding] 756499011255 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 756499011256 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 756499011257 dimerization interface [polypeptide binding]; other site 756499011258 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 756499011259 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 756499011260 dimer interface [polypeptide binding]; other site 756499011261 phosphorylation site [posttranslational modification] 756499011262 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499011263 ATP binding site [chemical binding]; other site 756499011264 Mg2+ binding site [ion binding]; other site 756499011265 G-X-G motif; other site 756499011266 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 756499011267 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 756499011268 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 756499011269 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 756499011270 molybdopterin cofactor binding site; other site 756499011271 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 756499011272 putative molybdopterin cofactor binding site; other site 756499011273 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 756499011274 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 756499011275 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 756499011276 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 756499011277 metal ion-dependent adhesion site (MIDAS); other site 756499011278 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 756499011279 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 756499011280 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 756499011281 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 756499011282 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 756499011283 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 756499011284 SmpB-tmRNA interface; other site 756499011285 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 756499011286 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 756499011287 Preprotein translocase SecG subunit; Region: SecG; pfam03840 756499011288 enolase; Provisional; Region: eno; PRK00077 756499011289 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 756499011290 dimer interface [polypeptide binding]; other site 756499011291 metal binding site [ion binding]; metal-binding site 756499011292 substrate binding pocket [chemical binding]; other site 756499011293 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 756499011294 phosphoglyceromutase; Provisional; Region: PRK05434 756499011295 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 756499011296 triosephosphate isomerase; Provisional; Region: PRK14565 756499011297 substrate binding site [chemical binding]; other site 756499011298 dimer interface [polypeptide binding]; other site 756499011299 catalytic triad [active] 756499011300 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 756499011301 Phosphoglycerate kinase; Region: PGK; pfam00162 756499011302 substrate binding site [chemical binding]; other site 756499011303 hinge regions; other site 756499011304 ADP binding site [chemical binding]; other site 756499011305 catalytic site [active] 756499011306 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 756499011307 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 756499011308 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 756499011309 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 756499011310 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 756499011311 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 756499011312 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 756499011313 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 756499011314 phosphate binding site [ion binding]; other site 756499011315 putative substrate binding pocket [chemical binding]; other site 756499011316 dimer interface [polypeptide binding]; other site 756499011317 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 756499011318 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 756499011319 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 756499011320 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 756499011321 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 756499011322 FeS/SAM binding site; other site 756499011323 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 756499011324 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 756499011325 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 756499011326 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499011327 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 756499011328 active site 756499011329 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 756499011330 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 756499011331 NodB motif; other site 756499011332 active site 756499011333 catalytic site [active] 756499011334 Zn binding site [ion binding]; other site 756499011335 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499011336 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499011337 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 756499011338 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 756499011339 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 756499011340 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 756499011341 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 756499011342 motif II; other site 756499011343 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 756499011344 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 756499011345 Predicted transcriptional regulators [Transcription]; Region: COG1725 756499011346 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 756499011347 DNA-binding site [nucleotide binding]; DNA binding site 756499011348 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 756499011349 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 756499011350 Walker A/P-loop; other site 756499011351 ATP binding site [chemical binding]; other site 756499011352 Q-loop/lid; other site 756499011353 ABC transporter signature motif; other site 756499011354 Walker B; other site 756499011355 D-loop; other site 756499011356 H-loop/switch region; other site 756499011357 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 756499011358 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 756499011359 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 756499011360 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 756499011361 excinuclease ABC subunit B; Provisional; Region: PRK05298 756499011362 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 756499011363 ATP binding site [chemical binding]; other site 756499011364 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 756499011365 nucleotide binding region [chemical binding]; other site 756499011366 ATP-binding site [chemical binding]; other site 756499011367 Ultra-violet resistance protein B; Region: UvrB; pfam12344 756499011368 UvrB/uvrC motif; Region: UVR; pfam02151 756499011369 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 756499011370 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 756499011371 ligand binding site [chemical binding]; other site 756499011372 hypothetical protein; Provisional; Region: PRK06851 756499011373 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 756499011374 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 756499011375 C-terminal peptidase (prc); Region: prc; TIGR00225 756499011376 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 756499011377 protein binding site [polypeptide binding]; other site 756499011378 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 756499011379 Catalytic dyad [active] 756499011380 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 756499011381 Peptidase family M23; Region: Peptidase_M23; pfam01551 756499011382 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 756499011383 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 756499011384 FtsX-like permease family; Region: FtsX; pfam02687 756499011385 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 756499011386 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 756499011387 Walker A/P-loop; other site 756499011388 ATP binding site [chemical binding]; other site 756499011389 Q-loop/lid; other site 756499011390 ABC transporter signature motif; other site 756499011391 Walker B; other site 756499011392 D-loop; other site 756499011393 H-loop/switch region; other site 756499011394 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 756499011395 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 756499011396 PYR/PP interface [polypeptide binding]; other site 756499011397 dimer interface [polypeptide binding]; other site 756499011398 TPP binding site [chemical binding]; other site 756499011399 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 756499011400 transketolase; Reviewed; Region: PRK05899 756499011401 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 756499011402 TPP-binding site [chemical binding]; other site 756499011403 dimer interface [polypeptide binding]; other site 756499011404 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 756499011405 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 756499011406 ATP binding site [chemical binding]; other site 756499011407 putative Mg++ binding site [ion binding]; other site 756499011408 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 756499011409 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 756499011410 nucleotide binding region [chemical binding]; other site 756499011411 ATP-binding site [chemical binding]; other site 756499011412 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 756499011413 30S subunit binding site; other site 756499011414 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 756499011415 DNA-binding site [nucleotide binding]; DNA binding site 756499011416 RNA-binding motif; other site 756499011417 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 756499011418 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 756499011419 Walker A/P-loop; other site 756499011420 ATP binding site [chemical binding]; other site 756499011421 Q-loop/lid; other site 756499011422 ABC transporter signature motif; other site 756499011423 Walker B; other site 756499011424 D-loop; other site 756499011425 H-loop/switch region; other site 756499011426 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 756499011427 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 756499011428 dimer interface [polypeptide binding]; other site 756499011429 conserved gate region; other site 756499011430 putative PBP binding loops; other site 756499011431 ABC-ATPase subunit interface; other site 756499011432 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 756499011433 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 756499011434 substrate binding pocket [chemical binding]; other site 756499011435 membrane-bound complex binding site; other site 756499011436 hinge residues; other site 756499011437 Probable zinc-binding domain; Region: zf-trcl; pfam13451 756499011438 CxxC-x17-CxxC domain; Region: cxxc_cxxc_Mbark; TIGR04272 756499011439 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 756499011440 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 756499011441 active site 756499011442 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 756499011443 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 756499011444 ATP binding site [chemical binding]; other site 756499011445 putative Mg++ binding site [ion binding]; other site 756499011446 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 756499011447 nucleotide binding region [chemical binding]; other site 756499011448 ATP-binding site [chemical binding]; other site 756499011449 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 756499011450 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 756499011451 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 756499011452 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 756499011453 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 756499011454 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 756499011455 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 756499011456 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 756499011457 rod shape-determining protein Mbl; Provisional; Region: PRK13928 756499011458 MreB and similar proteins; Region: MreB_like; cd10225 756499011459 nucleotide binding site [chemical binding]; other site 756499011460 Mg binding site [ion binding]; other site 756499011461 putative protofilament interaction site [polypeptide binding]; other site 756499011462 RodZ interaction site [polypeptide binding]; other site 756499011463 Stage III sporulation protein D; Region: SpoIIID; pfam12116 756499011464 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 756499011465 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 756499011466 dimer interface [polypeptide binding]; other site 756499011467 PYR/PP interface [polypeptide binding]; other site 756499011468 TPP binding site [chemical binding]; other site 756499011469 substrate binding site [chemical binding]; other site 756499011470 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 756499011471 Domain of unknown function; Region: EKR; smart00890 756499011472 4Fe-4S binding domain; Region: Fer4_6; pfam12837 756499011473 4Fe-4S binding domain; Region: Fer4; pfam00037 756499011474 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 756499011475 TPP-binding site [chemical binding]; other site 756499011476 dimer interface [polypeptide binding]; other site 756499011477 Domain of unknown function (DUF3787); Region: DUF3787; pfam12655 756499011478 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 756499011479 Peptidase family M23; Region: Peptidase_M23; pfam01551 756499011480 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 756499011481 Ligand Binding Site [chemical binding]; other site 756499011482 HPP family; Region: HPP; pfam04982 756499011483 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 756499011484 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499011485 active site 756499011486 phosphorylation site [posttranslational modification] 756499011487 intermolecular recognition site; other site 756499011488 dimerization interface [polypeptide binding]; other site 756499011489 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 756499011490 Walker A motif; other site 756499011491 ATP binding site [chemical binding]; other site 756499011492 Walker B motif; other site 756499011493 arginine finger; other site 756499011494 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 756499011495 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 756499011496 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 756499011497 dimerization interface [polypeptide binding]; other site 756499011498 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 756499011499 dimer interface [polypeptide binding]; other site 756499011500 phosphorylation site [posttranslational modification] 756499011501 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499011502 ATP binding site [chemical binding]; other site 756499011503 Mg2+ binding site [ion binding]; other site 756499011504 G-X-G motif; other site 756499011505 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 756499011506 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 756499011507 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 756499011508 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 756499011509 4Fe-4S binding domain; Region: Fer4; pfam00037 756499011510 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 756499011511 tetrathionate reductase subunit A; Provisional; Region: PRK14991 756499011512 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 756499011513 putative [Fe4-S4] binding site [ion binding]; other site 756499011514 putative molybdopterin cofactor binding site [chemical binding]; other site 756499011515 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 756499011516 putative molybdopterin cofactor binding site; other site 756499011517 DNA topoisomerase III; Provisional; Region: PRK07726 756499011518 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 756499011519 active site 756499011520 putative interdomain interaction site [polypeptide binding]; other site 756499011521 putative metal-binding site [ion binding]; other site 756499011522 putative nucleotide binding site [chemical binding]; other site 756499011523 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 756499011524 domain I; other site 756499011525 DNA binding groove [nucleotide binding] 756499011526 phosphate binding site [ion binding]; other site 756499011527 domain II; other site 756499011528 domain III; other site 756499011529 nucleotide binding site [chemical binding]; other site 756499011530 catalytic site [active] 756499011531 domain IV; other site 756499011532 Stage II sporulation protein; Region: SpoIID; pfam08486 756499011533 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 756499011534 4Fe-4S binding domain; Region: Fer4_5; pfam12801 756499011535 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 756499011536 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 756499011537 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 756499011538 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 756499011539 reductive dehalogenase; Region: RDH; TIGR02486 756499011540 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 756499011541 reductive dehalogenase; Region: RDH; TIGR02486 756499011542 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 756499011543 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499011544 active site 756499011545 phosphorylation site [posttranslational modification] 756499011546 intermolecular recognition site; other site 756499011547 dimerization interface [polypeptide binding]; other site 756499011548 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 756499011549 DNA binding site [nucleotide binding] 756499011550 GAF domain; Region: GAF_3; pfam13492 756499011551 GAF domain; Region: GAF_2; pfam13185 756499011552 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 756499011553 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 756499011554 dimer interface [polypeptide binding]; other site 756499011555 phosphorylation site [posttranslational modification] 756499011556 Histidine kinase-like ATPases; This family includes several ATP-binding 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 756499011557 ATP binding site [chemical binding]; other site 756499011558 Mg2+ binding site [ion binding]; other site 756499011559 G-X-G motif; other site 756499011560 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 756499011561 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 756499011562 hinge; other site 756499011563 active site 756499011564 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13450 756499011565 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 756499011566 gamma subunit interface [polypeptide binding]; other site 756499011567 epsilon subunit interface [polypeptide binding]; other site 756499011568 LBP interface [polypeptide binding]; other site 756499011569 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 756499011570 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 756499011571 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 756499011572 alpha subunit interaction interface [polypeptide binding]; other site 756499011573 Walker A motif; other site 756499011574 ATP binding site [chemical binding]; other site 756499011575 Walker B motif; other site 756499011576 inhibitor binding site; inhibition site 756499011577 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 756499011578 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 756499011579 core domain interface [polypeptide binding]; other site 756499011580 delta subunit interface [polypeptide binding]; other site 756499011581 epsilon subunit interface [polypeptide binding]; other site 756499011582 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 756499011583 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 756499011584 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 756499011585 beta subunit interaction interface [polypeptide binding]; other site 756499011586 Walker A motif; other site 756499011587 ATP binding site [chemical binding]; other site 756499011588 Walker B motif; other site 756499011589 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 756499011590 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 756499011591 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 756499011592 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 756499011593 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 756499011594 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 756499011595 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 756499011596 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 756499011597 Domain of unknown function (DUF955); Region: DUF955; pfam06114 756499011598 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 756499011599 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 756499011600 non-specific DNA binding site [nucleotide binding]; other site 756499011601 salt bridge; other site 756499011602 sequence-specific DNA binding site [nucleotide binding]; other site 756499011603 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 756499011604 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 756499011605 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 756499011606 Phage XkdN-like protein; Region: XkdN; pfam08890 756499011607 tape measure domain; Region: tape_meas_nterm; TIGR02675 756499011608 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 756499011609 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 756499011610 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 756499011611 Baseplate J-like protein; Region: Baseplate_J; pfam04865 756499011612 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 756499011613 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 756499011614 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 756499011615 Radical SAM superfamily; Region: Radical_SAM; pfam04055 756499011616 FeS/SAM binding site; other site 756499011617 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 756499011618 transmembrane helices; other site 756499011619 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 756499011620 amidase catalytic site [active] 756499011621 Zn binding residues [ion binding]; other site 756499011622 substrate binding site [chemical binding]; other site 756499011623 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 756499011624 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 756499011625 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 756499011626 active site 756499011627 homodimer interface [polypeptide binding]; other site 756499011628 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 756499011629 catalytic motif [active] 756499011630 Zn binding site [ion binding]; other site 756499011631 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 756499011632 active site 756499011633 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 756499011634 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 756499011635 dimer interface [polypeptide binding]; other site 756499011636 active site 756499011637 glycine-pyridoxal phosphate binding site [chemical binding]; other site 756499011638 folate binding site [chemical binding]; other site 756499011639 hypothetical protein; Provisional; Region: PRK13690 756499011640 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 756499011641 Low molecular weight phosphatase family; Region: LMWPc; cd00115 756499011642 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 756499011643 active site 756499011644 Domain of unknown function DUF; Region: DUF204; pfam02659 756499011645 Domain of unknown function DUF; Region: DUF204; pfam02659 756499011646 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 756499011647 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 756499011648 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 756499011649 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 756499011650 S-adenosylmethionine binding site [chemical binding]; other site 756499011651 peptide chain release factor 1; Validated; Region: prfA; PRK00591 756499011652 Domain of unknown function (DUF3541); Region: DUF3541; pfam12060 756499011653 This domain is found in peptide chain release factors; Region: PCRF; smart00937 756499011654 RF-1 domain; Region: RF-1; pfam00472 756499011655 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 756499011656 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 756499011657 Peptidase family M23; Region: Peptidase_M23; pfam01551 756499011658 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 756499011659 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 756499011660 putative active site [active] 756499011661 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 756499011662 active site 756499011663 intersubunit interactions; other site 756499011664 catalytic residue [active] 756499011665 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 756499011666 intersubunit interface [polypeptide binding]; other site 756499011667 active site 756499011668 zinc binding site [ion binding]; other site 756499011669 Na+ binding site [ion binding]; other site 756499011670 Response regulator receiver domain; Region: Response_reg; pfam00072 756499011671 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 756499011672 active site 756499011673 phosphorylation site [posttranslational modification] 756499011674 intermolecular recognition site; other site 756499011675 dimerization interface [polypeptide binding]; other site 756499011676 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 756499011677 active site 756499011678 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 756499011679 dimer interface [polypeptide binding]; other site 756499011680 substrate binding site [chemical binding]; other site 756499011681 catalytic residues [active] 756499011682 FemAB family; Region: FemAB; pfam02388 756499011683 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 756499011684 CTP synthetase; Validated; Region: pyrG; PRK05380 756499011685 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 756499011686 Catalytic site [active] 756499011687 active site 756499011688 UTP binding site [chemical binding]; other site 756499011689 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 756499011690 active site 756499011691 putative oxyanion hole; other site 756499011692 catalytic triad [active] 756499011693 DNA-directed RNA polymerase subunit delta; Reviewed; Region: PRK02363 756499011694 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 756499011695 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 756499011696 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 756499011697 active site 756499011698 HIGH motif; other site 756499011699 KMSK motif region; other site 756499011700 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 756499011701 tRNA binding surface [nucleotide binding]; other site 756499011702 anticodon binding site; other site 756499011703 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 756499011704 germination protein YpeB; Region: spore_YpeB; TIGR02889 756499011705 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 756499011706 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 756499011707 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 756499011708 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 756499011709 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 756499011710 catalytic residue [active] 756499011711 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 756499011712 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 756499011713 putative dimer interface [polypeptide binding]; other site 756499011714 putative anticodon binding site; other site 756499011715 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 756499011716 homodimer interface [polypeptide binding]; other site 756499011717 motif 1; other site 756499011718 motif 2; other site 756499011719 active site 756499011720 motif 3; other site 756499011721 glutamate dehydrogenase; Provisional; Region: PRK09414 756499011722 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 756499011723 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 756499011724 NAD(P) binding site [chemical binding]; other site 756499011725 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 756499011726 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 756499011727 active site 756499011728 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 756499011729 substrate binding site [chemical binding]; other site 756499011730 catalytic residues [active] 756499011731 dimer interface [polypeptide binding]; other site 756499011732 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 756499011733 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 756499011734 putative deacylase active site [active] 756499011735 Saccharopine dehydrogenase N-terminal domain; Region: SDH_N_domain; cl04528 756499011736 Uncharacterized conserved protein [Function unknown]; Region: COG1915 756499011737 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 756499011738 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 756499011739 active site 756499011740 HIGH motif; other site 756499011741 nucleotide binding site [chemical binding]; other site 756499011742 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 756499011743 KMSKS motif; other site 756499011744 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 756499011745 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 756499011746 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 756499011747 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 756499011748 amino acid carrier protein; Region: agcS; TIGR00835 756499011749 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 756499011750 dimer interface [polypeptide binding]; other site 756499011751 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 756499011752 active site 756499011753 metal binding site [ion binding]; metal-binding site 756499011754 glutathione binding site [chemical binding]; other site 756499011755 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 756499011756 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 756499011757 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 756499011758 Cache domain; Region: Cache_1; pfam02743 756499011759 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 756499011760 dimerization interface [polypeptide binding]; other site 756499011761 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 756499011762 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 756499011763 dimer interface [polypeptide binding]; other site 756499011764 putative CheW interface [polypeptide binding]; other site 756499011765 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 756499011766 catalytic residues [active] 756499011767 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 756499011768 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 756499011769 Hexamer interface [polypeptide binding]; other site 756499011770 Putative hexagonal pore residue; other site 756499011771 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 756499011772 Propanediol utilisation protein PduL; Region: PduL; pfam06130 756499011773 Propanediol utilisation protein PduL; Region: PduL; pfam06130 756499011774 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 756499011775 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 756499011776 putative catalytic cysteine [active] 756499011777 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 756499011778 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 756499011779 Hexamer interface [polypeptide binding]; other site 756499011780 Hexagonal pore residue; other site 756499011781 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 756499011782 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 756499011783 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 756499011784 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 756499011785 putative hexamer interface [polypeptide binding]; other site 756499011786 putative hexagonal pore; other site 756499011787 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 756499011788 putative hexamer interface [polypeptide binding]; other site 756499011789 putative hexagonal pore; other site 756499011790 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 756499011791 SLBB domain; Region: SLBB; pfam10531 756499011792 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 756499011793 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 756499011794 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 756499011795 Hexamer/Pentamer interface [polypeptide binding]; other site 756499011796 central pore; other site 756499011797 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 756499011798 Hexamer interface [polypeptide binding]; other site 756499011799 Hexagonal pore residue; other site 756499011800 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 756499011801 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 756499011802 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 756499011803 G1 box; other site 756499011804 GTP/Mg2+ binding site [chemical binding]; other site 756499011805 G2 box; other site 756499011806 Switch I region; other site 756499011807 G3 box; other site 756499011808 Switch II region; other site 756499011809 G4 box; other site 756499011810 G5 box; other site 756499011811 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 756499011812 putative hexamer interface [polypeptide binding]; other site 756499011813 putative hexagonal pore; other site 756499011814 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 756499011815 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 756499011816 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 756499011817 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 756499011818 dimer interface [polypeptide binding]; other site 756499011819 active site 756499011820 glycine loop; other site 756499011821 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 756499011822 putative catalytic cysteine [active] 756499011823 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 756499011824 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 756499011825 Hexamer interface [polypeptide binding]; other site 756499011826 Hexagonal pore residue; other site 756499011827 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 756499011828 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 756499011829 Hexamer interface [polypeptide binding]; other site 756499011830 Hexagonal pore residue; other site 756499011831 benzoate transport; Region: 2A0115; TIGR00895 756499011832 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 756499011833 putative substrate translocation pore; other site 756499011834 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 756499011835 Uncharacterized conserved protein [Function unknown]; Region: COG3379 756499011836 Uncharacterized conserved protein [Function unknown]; Region: COG3379 756499011837 Transcriptional regulator [Transcription]; Region: LysR; COG0583 756499011838 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 756499011839 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 756499011840 dimerization interface [polypeptide binding]; other site 756499011841 Transcriptional regulator [Transcription]; Region: LysR; COG0583 756499011842 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 756499011843 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 756499011844 dimerization interface [polypeptide binding]; other site 756499011845 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 756499011846 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 756499011847 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 756499011848 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 756499011849 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 756499011850 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 756499011851 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 756499011852 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 756499011853 TPR motif; other site 756499011854 TPR repeat; Region: TPR_11; pfam13414 756499011855 binding surface 756499011856 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 756499011857 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 756499011858 putative [4Fe-4S] binding site [ion binding]; other site 756499011859 putative molybdopterin cofactor binding site [chemical binding]; other site 756499011860 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 756499011861 molybdopterin cofactor binding site; other site 756499011862 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 756499011863 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 756499011864 FeS/SAM binding site; other site 756499011865 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 756499011866 Protein of unknown function (DUF4001); Region: DUF4001; pfam13165 756499011867 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 756499011868 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 756499011869 Walker A/P-loop; other site 756499011870 ATP binding site [chemical binding]; other site 756499011871 Q-loop/lid; other site 756499011872 ABC transporter signature motif; other site 756499011873 Walker B; other site 756499011874 D-loop; other site 756499011875 H-loop/switch region; other site 756499011876 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 756499011877 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 756499011878 Walker A/P-loop; other site 756499011879 ATP binding site [chemical binding]; other site 756499011880 Q-loop/lid; other site 756499011881 ABC transporter signature motif; other site 756499011882 Walker B; other site 756499011883 D-loop; other site 756499011884 H-loop/switch region; other site 756499011885 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 756499011886 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 756499011887 TM-ABC transporter signature motif; other site 756499011888 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 756499011889 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 756499011890 TM-ABC transporter signature motif; other site 756499011891 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 756499011892 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 756499011893 putative ligand binding site [chemical binding]; other site 756499011894 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 756499011895 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 756499011896 GDP-binding site [chemical binding]; other site 756499011897 ACT binding site; other site 756499011898 IMP binding site; other site 756499011899 adenylosuccinate lyase; Provisional; Region: PRK07380 756499011900 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 756499011901 tetramer interface [polypeptide binding]; other site 756499011902 active site 756499011903 replicative DNA helicase; Region: DnaB; TIGR00665 756499011904 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 756499011905 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 756499011906 Walker A motif; other site 756499011907 ATP binding site [chemical binding]; other site 756499011908 Walker B motif; other site 756499011909 DNA binding loops [nucleotide binding] 756499011910 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 756499011911 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 756499011912 Walker A motif; other site 756499011913 ATP binding site [chemical binding]; other site 756499011914 Walker B motif; other site 756499011915 arginine finger; other site 756499011916 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 756499011917 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 756499011918 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 756499011919 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 756499011920 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 756499011921 MazG-like family; Region: MazG-like; pfam12643 756499011922 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 756499011923 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 756499011924 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 756499011925 dimer interface [polypeptide binding]; other site 756499011926 ssDNA binding site [nucleotide binding]; other site 756499011927 tetramer (dimer of dimers) interface [polypeptide binding]; other site 756499011928 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 756499011929 GTP-binding protein YchF; Reviewed; Region: PRK09601 756499011930 YchF GTPase; Region: YchF; cd01900 756499011931 G1 box; other site 756499011932 GTP/Mg2+ binding site [chemical binding]; other site 756499011933 Switch I region; other site 756499011934 G2 box; other site 756499011935 Switch II region; other site 756499011936 G3 box; other site 756499011937 G4 box; other site 756499011938 G5 box; other site 756499011939 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 756499011940 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 756499011941 FOG: CBS domain [General function prediction only]; Region: COG0517 756499011942 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 756499011943 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 756499011944 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 756499011945 binding surface 756499011946 TPR motif; other site 756499011947 TPR repeat; Region: TPR_11; pfam13414 756499011948 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 756499011949 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 756499011950 G1 box; other site 756499011951 GTP/Mg2+ binding site [chemical binding]; other site 756499011952 G2 box; other site 756499011953 Switch I region; other site 756499011954 G3 box; other site 756499011955 Switch II region; other site 756499011956 G4 box; other site 756499011957 G5 box; other site 756499011958 hydrogenase nickel incorporation protein; Provisional; Region: hypA; PRK03824 756499011959 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 756499011960 Uncharacterized membrane protein [Function unknown]; Region: COG3949 756499011961 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 756499011962 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 756499011963 Protein of unknown function (DUF554); Region: DUF554; pfam04474 756499011964 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 756499011965 ParB-like nuclease domain; Region: ParB; smart00470 756499011966 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 756499011967 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 756499011968 P-loop; other site 756499011969 Magnesium ion binding site [ion binding]; other site 756499011970 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 756499011971 Magnesium ion binding site [ion binding]; other site 756499011972 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 756499011973 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 756499011974 S-adenosylmethionine binding site [chemical binding]; other site 756499011975 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 756499011976 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 756499011977 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 756499011978 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 756499011979 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 756499011980 trmE is a tRNA modification GTPase; Region: trmE; cd04164 756499011981 G1 box; other site 756499011982 GTP/Mg2+ binding site [chemical binding]; other site 756499011983 Switch I region; other site 756499011984 G2 box; other site 756499011985 Switch II region; other site 756499011986 G3 box; other site 756499011987 G4 box; other site 756499011988 G5 box; other site 756499011989 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 756499011990 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 756499011991 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 756499011992 G-X-X-G motif; other site 756499011993 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 756499011994 RxxxH motif; other site 756499011995 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 756499011996 Haemolytic domain; Region: Haemolytic; pfam01809 756499011997 ribonuclease P; Reviewed; Region: rnpA; PRK00499