-- dump date 20111121_010514 -- class Genbank::misc_feature -- table misc_feature_note -- id note 562970000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 562970000002 hypothetical protein; Validated; Region: PRK06672 562970000003 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...; Region: AAA; cd00009 562970000004 Walker A motif; other site 562970000005 ATP binding site [chemical binding]; other site 562970000006 Walker B motif; other site 562970000007 arginine finger; other site 562970000008 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 562970000009 DnaA box-binding interface [nucleotide binding]; other site 562970000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 562970000011 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...; Region: beta_clamp; cd00140 562970000012 putative DNA binding surface [nucleotide binding]; other site 562970000013 dimer interface [polypeptide binding]; other site 562970000014 beta-clamp/clamp loader binding surface; other site 562970000015 beta-clamp/translesion DNA polymerase binding surface; other site 562970000016 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 562970000017 recombination protein F; Reviewed; Region: recF; PRK00064 562970000018 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 562970000019 Walker A/P-loop; other site 562970000020 ATP binding site [chemical binding]; other site 562970000021 Q-loop/lid; other site 562970000022 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970000023 ABC transporter signature motif; other site 562970000024 Walker B; other site 562970000025 D-loop; other site 562970000026 H-loop/switch region; other site 562970000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 562970000028 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 562970000029 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 562970000030 anchoring element; other site 562970000031 dimer interface [polypeptide binding]; other site 562970000032 ATP binding site [chemical binding]; other site 562970000033 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 562970000034 active site 562970000035 putative metal-binding site [ion binding]; other site 562970000036 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 562970000037 DNA gyrase subunit A; Validated; Region: PRK05560 562970000038 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in...; Region: TOP4c; cd00187 562970000039 CAP-like domain; other site 562970000040 Active site [active] 562970000041 primary dimer interface [polypeptide binding]; other site 562970000042 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 562970000043 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 562970000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 562970000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 562970000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 562970000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 562970000048 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 562970000049 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 562970000050 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 562970000051 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the...; Region: IMPDH; cd00381 562970000052 active site 562970000053 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 562970000054 Beta-lactamase; Region: Beta-lactamase; cl01009 562970000055 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 562970000056 pyridoxal biosynthesis lyase PdxS; Provisional; Region: PRK04180 562970000057 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 562970000058 active site 562970000059 multimer interface [polypeptide binding]; other site 562970000060 Glutamine amidotransferase [Amino acid transport and metabolism]; Region: HisH; COG0118 562970000061 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 562970000062 predicted active site [active] 562970000063 catalytic triad [active] 562970000064 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 562970000065 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 562970000066 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 562970000067 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 562970000068 active site 562970000069 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 562970000070 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 562970000071 DNA binding site [nucleotide binding] 562970000072 Int/Topo IB signature motif; other site 562970000073 active site 562970000074 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 562970000075 ba3-like heme-copper oxidase subunit I. The ba3 family of heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and some archaea which catalyze the reduction of O2 and simultaneously pump protons across the...; Region: ba3-like_Oxidase_I; cd01660 562970000076 Low-spin heme binding site [chemical binding]; other site 562970000077 Subunit I/II interface [polypeptide binding]; other site 562970000078 Putative Q-pathway; other site 562970000079 Putative D-pathway homolog; other site 562970000080 Putative alternate electron transfer pathway; other site 562970000081 Putative water exit pathway; other site 562970000082 Binuclear center (active site) [active] 562970000083 Putative K-pathway homolog; other site 562970000084 Putative proton exit pathway; other site 562970000085 Subunit I/IIa interface [polypeptide binding]; other site 562970000086 Electron transfer pathway; other site 562970000087 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 562970000088 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 562970000089 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 562970000090 putative peptidoglycan binding site; other site 562970000091 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 562970000092 putative peptidoglycan binding site; other site 562970000093 Peptidase family M23; Region: Peptidase_M23; pfam01551 562970000094 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 562970000095 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 562970000096 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 562970000097 YmaF family; Region: YmaF; pfam12788 562970000098 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 562970000099 nucleoside/Zn binding site; other site 562970000100 dimer interface [polypeptide binding]; other site 562970000101 catalytic motif [active] 562970000102 sensory histidine kinase AtoS; Provisional; Region: PRK11360 562970000103 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 trans-...; Region: HisKA; cd00082 562970000104 dimer interface [polypeptide binding]; other site 562970000105 phosphorylation site [posttranslational modification] 562970000106 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 562970000107 ATP binding site [chemical binding]; other site 562970000108 G-X-G motif; other site 562970000109 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 562970000110 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...; Region: AAA; cd00009 562970000111 Walker A motif; other site 562970000112 ATP binding site [chemical binding]; other site 562970000113 Walker B motif; other site 562970000114 arginine finger; other site 562970000115 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 562970000116 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 562970000117 recombination protein RecR; Reviewed; Region: recR; PRK00076 562970000118 RecR protein; Region: RecR; pfam02132 562970000119 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 562970000120 putative active site [active] 562970000121 putative metal-binding site [ion binding]; other site 562970000122 tetramer interface [polypeptide binding]; other site 562970000123 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 562970000124 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 562970000125 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 562970000126 active site 562970000127 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 562970000128 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 562970000129 dimer interface [polypeptide binding]; other site 562970000130 active site 562970000131 CoA binding pocket [chemical binding]; other site 562970000132 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 562970000133 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 562970000134 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 562970000135 catalytic residue [active] 562970000136 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 562970000137 thymidylate kinase; Validated; Region: tmk; PRK00698 562970000138 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...; Region: TMPK; cd01672 562970000139 TMP-binding site; other site 562970000140 ATP-binding site [chemical binding]; other site 562970000141 Nitrogen regulatory protein P-II; Region: P-II; cl00412 562970000142 Protein of unknown function (DUF327); Region: DUF327; cl00753 562970000143 DNA polymerase III subunit delta'; Validated; Region: PRK08058 562970000144 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970000145 PSP1 C-terminal conserved region; Region: PSP1; cl00770 562970000146 Protein of unknown function (DUF972); Region: DUF972; cl01853 562970000147 Predicted methyltransferases [General function prediction only]; Region: COG0313 562970000148 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 562970000149 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 562970000150 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 562970000151 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 562970000152 active site 562970000153 HIGH motif; other site 562970000154 KMSKS motif; other site 562970000155 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 562970000156 tRNA binding surface [nucleotide binding]; other site 562970000157 anticodon binding site; other site 562970000158 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 562970000159 dimer interface [polypeptide binding]; other site 562970000160 putative tRNA-binding site [nucleotide binding]; other site 562970000161 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 562970000162 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 562970000163 active site 562970000164 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 562970000165 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 562970000166 active site 562970000167 metal binding site [ion binding]; metal-binding site 562970000168 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; cl12011 562970000169 Protein of unknown function (DUF458); Region: DUF458; cl00861 562970000170 DHH family; Region: DHH; pfam01368 562970000171 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 562970000172 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 562970000173 active site 562970000174 YabG peptidase U57; Region: Peptidase_U57; cl05250 562970000175 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 562970000176 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 562970000177 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 562970000178 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 562970000179 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 562970000180 proposed catalytic triad [active] 562970000181 active site nucleophile [active] 562970000182 cyanophycin synthetase; Provisional; Region: PRK14016 562970000183 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 562970000184 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 562970000185 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 562970000186 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 562970000187 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 562970000188 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 562970000189 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 562970000190 active site 562970000191 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 562970000192 pur operon repressor; Provisional; Region: PRK09213 562970000193 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 562970000194 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 562970000195 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 562970000196 homotrimer interaction site [polypeptide binding]; other site 562970000197 putative active site [active] 562970000198 SpoVG; Region: SpoVG; cl00915 562970000199 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 562970000200 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 562970000201 Substrate binding site [chemical binding]; other site 562970000202 Mg++ binding site [ion binding]; other site 562970000203 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 562970000204 active site 562970000205 substrate binding site [chemical binding]; other site 562970000206 CoA binding site [chemical binding]; other site 562970000207 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 562970000208 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 562970000209 Ribosomal_L25_TL5_CTC: Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain. L25 is a single-domain protein, homologous to the N-terminal domain of TL5 and CTC, which each contain two domains. CTC is a known stress protein, and proteins of this...; Region: Ribosomal_L25_TL5_CTC; cd00495 562970000210 5S rRNA interface [nucleotide binding]; other site 562970000211 CTC domain interface; other site 562970000212 L16 interface [polypeptide binding]; other site 562970000213 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 562970000214 putative active site [active] 562970000215 catalytic residue [active] 562970000216 Protein of unknown function (DUF2757); Region: DUF2757; pfam10955 562970000217 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 562970000218 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 562970000219 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 562970000220 ATP binding site [chemical binding]; other site 562970000221 putative Mg++ binding site [ion binding]; other site 562970000222 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 562970000223 nucleotide binding region [chemical binding]; other site 562970000224 ATP-binding site [chemical binding]; other site 562970000225 TRCF domain; Region: TRCF; pfam03461 562970000226 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 562970000227 PPIC-type PPIASE domain; Region: Rotamase; cl08278 562970000228 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 562970000229 stage V sporulation protein T; Region: spore_V_T; TIGR02851 562970000230 Transposase domain (DUF772); Region: DUF772; cl12084 562970000231 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 562970000232 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 562970000233 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 562970000234 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 562970000235 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 562970000236 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 562970000237 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 higher-...; Region: HU_IHF; cd00591 562970000238 IHF dimer interface [polypeptide binding]; other site 562970000239 IHF - DNA interface [nucleotide binding]; other site 562970000240 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 562970000241 RNA binding surface [nucleotide binding]; other site 562970000242 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 562970000243 O-Antigen ligase; Region: Wzy_C; cl04850 562970000244 YabP family; Region: YabP; cl06766 562970000245 Septum formation initiator; Region: DivIC; cl11433 562970000246 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 562970000247 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 of...; Region: S1_RPS1_repeat_hs4; cd05692 562970000248 RNA binding site [nucleotide binding]; other site 562970000249 Protein of unknown function(DUF2089); Region: DUF2089; pfam09862 562970000250 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 562970000251 catalytic motif [active] 562970000252 Zn binding site [ion binding]; other site 562970000253 stage II sporulation protein E; Region: spore_II_E; TIGR02865 562970000254 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 562970000255 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 562970000256 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 562970000257 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 562970000258 Ligand Binding Site [chemical binding]; other site 562970000259 B3/4 domain; Region: B3_4; cl11458 562970000260 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 562970000261 FtsH Extracellular; Region: FtsH_ext; pfam06480 562970000262 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 562970000263 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...; Region: AAA; cd00009 562970000264 Walker A motif; other site 562970000265 ATP binding site [chemical binding]; other site 562970000266 Walker B motif; other site 562970000267 arginine finger; other site 562970000268 Peptidase family M41; Region: Peptidase_M41; pfam01434 562970000269 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 562970000270 Zn2+ binding site [ion binding]; other site 562970000271 Mg2+ binding site [ion binding]; other site 562970000272 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 562970000273 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 562970000274 domain; Region: Succ_DH_flav_C; pfam02910 562970000275 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 5-...; Region: QPRTase; cd01572 562970000276 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 562970000277 dimerization interface [polypeptide binding]; other site 562970000278 active site 562970000279 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 562970000280 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 562970000281 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 562970000282 dimerization interface [polypeptide binding]; other site 562970000283 domain crossover interface; other site 562970000284 redox-dependent activation switch; other site 562970000285 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 562970000286 dihydropteroate synthase; Region: DHPS; TIGR01496 562970000287 substrate binding pocket [chemical binding]; other site 562970000288 dimer interface [polypeptide binding]; other site 562970000289 inhibitor binding site; inhibition site 562970000290 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...; Region: DHNA_DHNTPE; cd00534 562970000291 homooctamer interface [polypeptide binding]; other site 562970000292 active site 562970000293 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 562970000294 catalytic center binding site [active] 562970000295 ATP binding site [chemical binding]; other site 562970000296 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 562970000297 non-specific DNA binding site [nucleotide binding]; other site 562970000298 salt bridge; other site 562970000299 sequence-specific DNA binding site [nucleotide binding]; other site 562970000300 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 562970000301 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...; Region: DUS_like_FMN; cd02801 562970000302 FMN binding site [chemical binding]; other site 562970000303 active site 562970000304 catalytic residues [active] 562970000305 substrate binding site [chemical binding]; other site 562970000306 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 562970000307 domain; Region: GreA_GreB_N; pfam03449 562970000308 C-term; Region: GreA_GreB; pfam01272 562970000309 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 562970000310 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-...; Region: LysRS_N; cd04322 562970000311 dimer interface [polypeptide binding]; other site 562970000312 putative anticodon binding site; other site 562970000313 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 562970000314 motif 1; other site 562970000315 active site 562970000316 motif 2; other site 562970000317 motif 3; other site 562970000318 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 562970000319 CoenzymeA binding site [chemical binding]; other site 562970000320 subunit interaction site [polypeptide binding]; other site 562970000321 PHB binding site; other site 562970000322 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 562970000323 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...; Region: PBPb; cd00134 562970000324 substrate binding pocket [chemical binding]; other site 562970000325 membrane-bound complex binding site; other site 562970000326 hinge residues; other site 562970000327 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 562970000328 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...; Region: TM_PBP2; cd06261 562970000329 dimer interface [polypeptide binding]; other site 562970000330 conserved gate region; other site 562970000331 putative PBP binding loops; other site 562970000332 ABC-ATPase subunit interface; other site 562970000333 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 562970000334 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 562970000335 Walker A/P-loop; other site 562970000336 ATP binding site [chemical binding]; other site 562970000337 Q-loop/lid; other site 562970000338 ABC transporter signature motif; other site 562970000339 Walker B; other site 562970000340 D-loop; other site 562970000341 H-loop/switch region; other site 562970000342 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 562970000343 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 562970000344 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 562970000345 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 562970000346 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 562970000347 UvrB/uvrC motif; Region: UVR; pfam02151 562970000348 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 562970000349 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 562970000350 ADP binding site [chemical binding]; other site 562970000351 phosphagen binding site; other site 562970000352 substrate specificity loop; other site 562970000353 Clp protease ATP binding subunit; Region: clpC; CHL00095 562970000354 Clp amino terminal domain; Region: Clp_N; pfam02861 562970000355 Clp amino terminal domain; Region: Clp_N; pfam02861 562970000356 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...; Region: AAA; cd00009 562970000357 Walker A motif; other site 562970000358 ATP binding site [chemical binding]; other site 562970000359 Walker B motif; other site 562970000360 arginine finger; other site 562970000361 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...; Region: AAA; cd00009 562970000362 Walker A motif; other site 562970000363 ATP binding site [chemical binding]; other site 562970000364 Walker B motif; other site 562970000365 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 562970000366 DNA repair protein RadA; Provisional; Region: PRK11823 562970000367 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970000368 Walker A motif; other site 562970000369 ATP binding site [chemical binding]; other site 562970000370 Walker B motif; other site 562970000371 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 562970000372 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 562970000373 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 562970000374 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 562970000375 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 562970000376 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 562970000377 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 562970000378 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 562970000379 putative active site [active] 562970000380 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 562970000381 substrate binding site [chemical binding]; other site 562970000382 dimer interface [polypeptide binding]; other site 562970000383 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...; Region: MECDP_synthase; cd00554 562970000384 homotrimer interaction site [polypeptide binding]; other site 562970000385 zinc binding site [ion binding]; other site 562970000386 CDP-binding sites; other site 562970000387 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 562970000388 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 562970000389 active site 562970000390 HIGH motif; other site 562970000391 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 562970000392 active site 562970000393 KMSKS motif; other site 562970000394 serine O-acetyltransferase; Region: cysE; TIGR01172 562970000395 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 562970000396 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 L-...; Region: LbH_SAT; cd03354 562970000397 trimer interface [polypeptide binding]; other site 562970000398 active site 562970000399 substrate binding site [chemical binding]; other site 562970000400 CoA binding site [chemical binding]; other site 562970000401 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 562970000402 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 562970000403 active site 562970000404 HIGH motif; other site 562970000405 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 562970000406 KMSKS motif; other site 562970000407 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 562970000408 tRNA binding surface [nucleotide binding]; other site 562970000409 anticodon binding site; other site 562970000410 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 562970000411 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 562970000412 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 562970000413 YacP-like NYN domain; Region: NYN_YacP; cl01491 562970000414 RNA polymerase factor sigma-70; Validated; Region: PRK08295 562970000415 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 562970000416 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...; Region: Sigma70_r4; cl01055 562970000417 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 562970000418 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 562970000419 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 562970000420 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 562970000421 putative homodimer interface [polypeptide binding]; other site 562970000422 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 562970000423 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 562970000424 23S rRNA interface [nucleotide binding]; other site 562970000425 L7/L12 interface [polypeptide binding]; other site 562970000426 putative thiostrepton binding site; other site 562970000427 L25 interface [polypeptide binding]; other site 562970000428 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...; Region: Ribosomal_L1; cd00403 562970000429 mRNA/rRNA interface [nucleotide binding]; other site 562970000430 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...; Region: Ribosomal_L10; cd05797 562970000431 23S rRNA interface [nucleotide binding]; other site 562970000432 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 562970000433 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 562970000434 core dimer interface [polypeptide binding]; other site 562970000435 peripheral dimer interface [polypeptide binding]; other site 562970000436 L10 interface [polypeptide binding]; other site 562970000437 L11 interface [polypeptide binding]; other site 562970000438 putative EF-Tu interaction site [polypeptide binding]; other site 562970000439 putative EF-G interaction site [polypeptide binding]; other site 562970000440 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 562970000441 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 562970000442 S-adenosylmethionine binding site [chemical binding]; other site 562970000443 DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; Region: RpoB; COG0085 562970000444 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 562970000445 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 562970000446 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 562970000447 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 562970000448 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 562970000449 RPB12 interaction site [polypeptide binding]; other site 562970000450 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 562970000451 RPB10 interaction site [polypeptide binding]; other site 562970000452 RPB1 interaction site [polypeptide binding]; other site 562970000453 RPB11 interaction site [polypeptide binding]; other site 562970000454 RPB3 interaction site [polypeptide binding]; other site 562970000455 RPB12 interaction site [polypeptide binding]; other site 562970000456 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 562970000457 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 562970000458 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 562970000459 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 562970000460 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 562970000461 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 562970000462 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 562970000463 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 562970000464 G-loop; other site 562970000465 DNA binding site [nucleotide binding] 562970000466 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 562970000467 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 562970000468 S17 interaction site [polypeptide binding]; other site 562970000469 S8 interaction site; other site 562970000470 16S rRNA interaction site [nucleotide binding]; other site 562970000471 streptomycin interaction site [chemical binding]; other site 562970000472 23S rRNA interaction site [nucleotide binding]; other site 562970000473 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 562970000474 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 562970000475 elongation factor G; Reviewed; Region: PRK00007 562970000476 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 562970000477 G1 box; other site 562970000478 putative GEF interaction site [polypeptide binding]; other site 562970000479 GTP/Mg2+ binding site [chemical binding]; other site 562970000480 Switch I region; other site 562970000481 G2 box; other site 562970000482 G3 box; other site 562970000483 Switch II region; other site 562970000484 G4 box; other site 562970000485 G5 box; other site 562970000486 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...; Region: EFG_mtEFG_II; cd04088 562970000487 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...; Region: EFG_mtEFG1_IV; cd01434 562970000488 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...; Region: EFG_mtEFG_C; cd03713 562970000489 elongation factor Tu; Reviewed; Region: PRK00049 562970000490 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 562970000491 G1 box; other site 562970000492 GEF interaction site [polypeptide binding]; other site 562970000493 GTP/Mg2+ binding site [chemical binding]; other site 562970000494 Switch I region; other site 562970000495 G2 box; other site 562970000496 G3 box; other site 562970000497 Switch II region; other site 562970000498 G4 box; other site 562970000499 G5 box; other site 562970000500 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 562970000501 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 562970000502 Antibiotic Binding Site [chemical binding]; other site 562970000503 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 562970000504 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 562970000505 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 562970000506 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 562970000507 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 562970000508 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 562970000509 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 562970000510 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 562970000511 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 562970000512 putative translocon binding site; other site 562970000513 protein-rRNA interface [nucleotide binding]; other site 562970000514 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 562970000515 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...; Region: 30S_S3_KH; cd02412 562970000516 G-X-X-G motif; other site 562970000517 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 562970000518 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 562970000519 23S rRNA interface [nucleotide binding]; other site 562970000520 5S rRNA interface [nucleotide binding]; other site 562970000521 putative antibiotic binding site [chemical binding]; other site 562970000522 L25 interface [polypeptide binding]; other site 562970000523 L27 interface [polypeptide binding]; other site 562970000524 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...; Region: Ribosomal_L29_HIP; cd00427 562970000525 23S rRNA interface [nucleotide binding]; other site 562970000526 putative translocon interaction site; other site 562970000527 signal recognition particle (SRP54) interaction site; other site 562970000528 L23 interface [polypeptide binding]; other site 562970000529 trigger factor interaction site; other site 562970000530 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 562970000531 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 562970000532 KOW motif; Region: KOW; cl00354 562970000533 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 562970000534 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 562970000535 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 562970000536 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 562970000537 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 562970000538 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 562970000539 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 562970000540 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 562970000541 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 562970000542 5S rRNA interface [nucleotide binding]; other site 562970000543 L27 interface [polypeptide binding]; other site 562970000544 23S rRNA interface [nucleotide binding]; other site 562970000545 L5 interface [polypeptide binding]; other site 562970000546 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 562970000547 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 562970000548 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 562970000549 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...; Region: Ribosomal_L30; cd01658 562970000550 23S rRNA binding site [nucleotide binding]; other site 562970000551 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 562970000552 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 562970000553 SecY translocase; Region: SecY; pfam00344 562970000554 adenylate kinase; Reviewed; Region: adk; PRK00279 562970000555 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 562970000556 AMP-binding site [chemical binding]; other site 562970000557 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 562970000558 methionine aminopeptidase; Reviewed; Region: PRK07281 562970000559 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 562970000560 active site 562970000561 Ribosomal protein L14E/L6E/L27E [Translation, ribosomal structure and biogenesis]; Region: RPL14A; COG2163 562970000562 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 562970000563 rRNA binding site [nucleotide binding]; other site 562970000564 predicted 30S ribosome binding site; other site 562970000565 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 562970000566 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 562970000567 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 562970000568 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 562970000569 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 562970000570 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 562970000571 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 562970000572 RNA binding surface [nucleotide binding]; other site 562970000573 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 562970000574 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 562970000575 alphaNTD homodimer interface [polypeptide binding]; other site 562970000576 alphaNTD - beta interaction site [polypeptide binding]; other site 562970000577 alphaNTD - beta' interaction site [polypeptide binding]; other site 562970000578 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 562970000579 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 562970000580 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 562970000581 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1)...; Region: PseudoU_synth_EcTruA; cd02570 562970000582 dimerization interface 3.5A [polypeptide binding]; other site 562970000583 active site 562970000584 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 562970000585 23S rRNA interface [nucleotide binding]; other site 562970000586 L3 interface [polypeptide binding]; other site 562970000587 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 562970000588 Domain of unknown function DUF59; Region: DUF59; cl00941 562970000589 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 562970000590 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 562970000591 Walker A motif; other site 562970000592 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 562970000593 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 562970000594 Integral membrane protein DUF95; Region: DUF95; cl00572 562970000595 Arginase family; Region: Arginase; cl00306 562970000596 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 562970000597 Active Sites [active] 562970000598 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 562970000599 ATP sulfurylase (sulfate adenylyltransferase) [Inorganic ion transport and metabolism]; Region: MET3; COG2046 562970000600 ATP-sulfurylase; Region: ATPS; cd00517 562970000601 active site 562970000602 HXXH motif; other site 562970000603 flexible loop; other site 562970000604 TIGR00159 family protein; Region: TIGR00159 562970000605 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 562970000606 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 562970000607 YbbR-like protein; Region: YbbR; pfam07949 562970000608 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 562970000609 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 UDP-N-...; Region: GlmM; cd05802 562970000610 active site 562970000611 substrate binding site [chemical binding]; other site 562970000612 metal binding site [ion binding]; metal-binding site 562970000613 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 562970000614 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...; Region: GFAT; cd00714 562970000615 glutaminase active site [active] 562970000616 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 562970000617 dimer interface [polypeptide binding]; other site 562970000618 active site 562970000619 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 562970000620 dimer interface [polypeptide binding]; other site 562970000621 active site 562970000622 AzlC protein; Region: AzlC; cl00570 562970000623 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 562970000624 non-specific DNA binding site [nucleotide binding]; other site 562970000625 salt bridge; other site 562970000626 sequence-specific DNA binding site [nucleotide binding]; other site 562970000627 Cupin domain; Region: Cupin_2; cl09118 562970000628 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 562970000629 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...; Region: ACD_sHsps-like; cd06464 562970000630 putative dimer interface [polypeptide binding]; other site 562970000631 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 562970000632 Transposase; Region: DEDD_Tnp_IS110; pfam01548 562970000633 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 562970000634 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 562970000635 Bacterial SH3 domain; Region: SH3_3; cl02551 562970000636 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 562970000637 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 562970000638 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 562970000639 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 562970000640 putative substrate binding site [chemical binding]; other site 562970000641 putative ATP binding site [chemical binding]; other site 562970000642 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 562970000643 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 562970000644 Cation efflux family; Region: Cation_efflux; cl00316 562970000645 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 562970000646 PemK-like protein; Region: PemK; cl00995 562970000647 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 562970000648 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970000649 oligomerization interface [polypeptide binding]; other site 562970000650 active site 562970000651 NAD+ binding site [chemical binding]; other site 562970000652 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 562970000653 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 562970000654 catalytic triad [active] 562970000655 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 562970000656 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 562970000657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3809 562970000658 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 562970000659 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 562970000660 EamA-like transporter family; Region: EamA; cl01037 562970000661 EamA-like transporter family; Region: EamA; cl01037 562970000662 thiamine monophosphate kinase; Provisional; Region: PRK05731 562970000663 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 562970000664 ATP binding site [chemical binding]; other site 562970000665 dimerization interface [polypeptide binding]; other site 562970000666 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 562970000667 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 562970000668 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 562970000669 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 562970000670 Coenzyme A binding pocket [chemical binding]; other site 562970000671 UGMP family protein; Validated; Region: PRK09604 562970000672 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 562970000673 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 562970000674 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 562970000675 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...; Region: cpn10; cd00320 562970000676 oligomerisation interface [polypeptide binding]; other site 562970000677 mobile loop; other site 562970000678 roof hairpin; other site 562970000679 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 562970000680 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 562970000681 ring oligomerisation interface [polypeptide binding]; other site 562970000682 ATP/Mg binding site [chemical binding]; other site 562970000683 stacking interactions; other site 562970000684 hinge regions; other site 562970000685 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 562970000686 CoenzymeA binding site [chemical binding]; other site 562970000687 subunit interaction site [polypeptide binding]; other site 562970000688 PHB binding site; other site 562970000689 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 562970000690 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 562970000691 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 connected by an extended linker. The...; Region: HAMP; cd06225 562970000692 dimerization interface [polypeptide binding]; other site 562970000693 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 562970000694 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 562970000695 Cobalt transport protein component CbiN; Region: CbiN; cl00842 562970000696 Cobalt transport protein; Region: CbiQ; cl00463 562970000697 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13647 562970000698 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 562970000699 Walker A/P-loop; other site 562970000700 ATP binding site [chemical binding]; other site 562970000701 Q-loop/lid; other site 562970000702 ABC transporter signature motif; other site 562970000703 Walker B; other site 562970000704 D-loop; other site 562970000705 H-loop/switch region; other site 562970000706 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(; Region: BluB; cd02145 562970000707 putative FMN binding site [chemical binding]; other site 562970000708 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 562970000709 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 562970000710 dimerization interface [polypeptide binding]; other site 562970000711 putative DNA binding site [nucleotide binding]; other site 562970000712 putative Zn2+ binding site [ion binding]; other site 562970000713 Protein of unknown function (DUF1648); Region: DUF1648; cl01712 562970000714 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 562970000715 DNA-binding site [nucleotide binding]; DNA binding site 562970000716 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 562970000717 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 562970000718 Walker A/P-loop; other site 562970000719 ATP binding site [chemical binding]; other site 562970000720 Q-loop/lid; other site 562970000721 ABC transporter signature motif; other site 562970000722 Walker B; other site 562970000723 D-loop; other site 562970000724 H-loop/switch region; other site 562970000725 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 562970000726 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 562970000727 Walker A/P-loop; other site 562970000728 ATP binding site [chemical binding]; other site 562970000729 Q-loop/lid; other site 562970000730 ABC transporter signature motif; other site 562970000731 Walker B; other site 562970000732 D-loop; other site 562970000733 H-loop/switch region; other site 562970000734 branched-chain amino acid aminotransferase; Provisional; Region: PRK12479 562970000735 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and alpha-...; Region: BCAT_beta_family; cd01557 562970000736 homodimer interface [polypeptide binding]; other site 562970000737 substrate-cofactor binding pocket; other site 562970000738 catalytic residue [active] 562970000739 Phosphoesterase family; Region: Phosphoesterase; cl10627 562970000740 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human tyrosyl-; Region: tRNA_bindingDomain; cl00320 562970000741 Cupin domain; Region: Cupin_2; cl09118 562970000742 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 562970000743 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...; Region: Aldo_ket_red; cd06660 562970000744 active site 562970000745 catalytic tetrad [active] 562970000746 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 562970000747 Peptidase family M23; Region: Peptidase_M23; pfam01551 562970000748 MoxR-like ATPases [General function prediction only]; Region: COG0714 562970000749 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...; Region: AAA; cd00009 562970000750 Walker A motif; other site 562970000751 ATP binding site [chemical binding]; other site 562970000752 Walker B motif; other site 562970000753 arginine finger; other site 562970000754 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970000755 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 562970000756 Protein of unknown function DUF58; Region: DUF58; pfam01882 562970000757 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 562970000758 GMP synthase; Reviewed; Region: guaA; PRK00074 562970000759 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 562970000760 AMP/PPi binding site [chemical binding]; other site 562970000761 candidate oxyanion hole; other site 562970000762 catalytic triad [active] 562970000763 potential glutamine specificity residues [chemical binding]; other site 562970000764 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 562970000765 ATP Binding subdomain [chemical binding]; other site 562970000766 Ligand Binding sites [chemical binding]; other site 562970000767 Dimerization subdomain; other site 562970000768 Sulfate transporter family; Region: Sulfate_transp; cl00967 562970000769 Permease family; Region: Xan_ur_permease; pfam00860 562970000770 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 562970000771 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 562970000772 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...; Region: AAA; cd00009 562970000773 Walker A motif; other site 562970000774 ATP binding site [chemical binding]; other site 562970000775 Walker B motif; other site 562970000776 arginine finger; other site 562970000777 Arginase family; Region: Arginase; cl00306 562970000778 Sodium:solute symporter family; Region: SSF; cl00456 562970000779 Predicted amidohydrolase [General function prediction only]; Region: COG0388 562970000780 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 562970000781 active site 562970000782 catalytic triad [active] 562970000783 dimer interface [polypeptide binding]; other site 562970000784 Putative cyclase; Region: Cyclase; cl00814 562970000785 Cytochrome c [Energy production and conversion]; Region: COG3258 562970000786 Cytochrome c; Region: Cytochrom_C; cl11414 562970000787 Cytochrome c [Energy production and conversion]; Region: COG3258 562970000788 Cytochrome c; Region: Cytochrom_C; cl11414 562970000789 Predicted transcriptional regulator [Transcription]; Region: COG2378 562970000790 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970000791 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 562970000792 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 562970000793 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...; Region: Sigma70_r4; cd06171 562970000794 DNA binding residues [nucleotide binding] 562970000795 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 562970000796 DNA binding residues [nucleotide binding] 562970000797 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 562970000798 catalytic residues [active] 562970000799 catalytic nucleophile [active] 562970000800 N-terminal domain; Region: tspaseT_teng_N; TIGR01765 562970000801 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 562970000802 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970000803 Walker A/P-loop; other site 562970000804 ATP binding site [chemical binding]; other site 562970000805 Q-loop/lid; other site 562970000806 ABC transporter signature motif; other site 562970000807 Walker B; other site 562970000808 D-loop; other site 562970000809 H-loop/switch region; other site 562970000810 leucyl-tRNA synthetase, archaeal and cytosolic family; Region: leuS_arch; TIGR00395 562970000811 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 562970000812 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 562970000813 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 562970000814 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 562970000815 PYR/PP interface [polypeptide binding]; other site 562970000816 dimer interface [polypeptide binding]; other site 562970000817 TPP binding site [chemical binding]; other site 562970000818 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 562970000819 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...; Region: TPP_enzymes; cd00568 562970000820 TPP-binding site [chemical binding]; other site 562970000821 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 562970000822 GAF domain; Region: GAF; cl00853 562970000823 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 562970000824 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 562970000825 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 562970000826 putative active site [active] 562970000827 heme pocket [chemical binding]; other site 562970000828 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 trans-...; Region: HisKA; cd00082 562970000829 dimer interface [polypeptide binding]; other site 562970000830 phosphorylation site [posttranslational modification] 562970000831 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 562970000832 ATP binding site [chemical binding]; other site 562970000833 Mg2+ binding site [ion binding]; other site 562970000834 G-X-G motif; other site 562970000835 Cation efflux family; Region: Cation_efflux; cl00316 562970000836 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 562970000837 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 562970000838 active site 562970000839 phosphorylation site [posttranslational modification] 562970000840 intermolecular recognition site; other site 562970000841 dimerization interface [polypeptide binding]; other site 562970000842 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...; Region: trans_reg_C; cd00383 562970000843 DNA binding site [nucleotide binding] 562970000844 sensor protein BasS/PmrB; Provisional; Region: PRK10755 562970000845 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 connected by an extended linker. The...; Region: HAMP; cd06225 562970000846 dimerization interface [polypeptide binding]; other site 562970000847 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 trans-...; Region: HisKA; cd00082 562970000848 dimer interface [polypeptide binding]; other site 562970000849 phosphorylation site [posttranslational modification] 562970000850 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 562970000851 ATP binding site [chemical binding]; other site 562970000852 Mg2+ binding site [ion binding]; other site 562970000853 G-X-G motif; other site 562970000854 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 562970000855 Multicopper oxidase; Region: Cu-oxidase; cl14658 562970000856 Multicopper oxidase; Region: Cu-oxidase; cl14658 562970000857 Multicopper oxidase; Region: Cu-oxidase; cl14658 562970000858 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 562970000859 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 562970000860 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 562970000861 putative active site [active] 562970000862 putative substrate binding site [chemical binding]; other site 562970000863 putative cosubstrate binding site; other site 562970000864 catalytic site [active] 562970000865 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 562970000866 active site 562970000867 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 562970000868 dimer interface [polypeptide binding]; other site 562970000869 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...; Region: Asn_Synthase_B_C; cd01991 562970000870 Ligand Binding Site [chemical binding]; other site 562970000871 Molecular Tunnel; other site 562970000872 CCC1; Region: CCC1; cd02435 562970000873 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 562970000874 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970000875 catalytic residue [active] 562970000876 RNA polymerase factor sigma C; Reviewed; Region: PRK09415 562970000877 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 562970000878 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-...; Region: CBS_pair; cd02205 562970000879 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 562970000880 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 562970000881 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...; Region: AAA; cd00009 562970000882 Walker A motif; other site 562970000883 ATP binding site [chemical binding]; other site 562970000884 Walker B motif; other site 562970000885 arginine finger; other site 562970000886 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 562970000887 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 562970000888 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 562970000889 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 562970000890 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 562970000891 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 562970000892 carboxyltransferase (CT) interaction site; other site 562970000893 biotinylation site [posttranslational modification]; other site 562970000894 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 562970000895 enoyl-CoA hydratase; Provisional; Region: PRK07657 562970000896 substrate binding site [chemical binding]; other site 562970000897 oxyanion hole (OAH) forming residues; other site 562970000898 trimer interface [polypeptide binding]; other site 562970000899 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 connected by an extended linker. The...; Region: HAMP; cl01054 562970000900 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 562970000901 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 562970000902 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 562970000903 Domain of unknown function DUF21; Region: DUF21; pfam01595 562970000904 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 562970000905 Transporter associated domain; Region: CorC_HlyC; pfam03471 562970000906 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; cl09807 562970000907 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide...; Region: NrdH; cd02976 562970000908 catalytic residues [active] 562970000909 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 562970000910 metal binding site [ion binding]; metal-binding site 562970000911 active site 562970000912 I-site; other site 562970000913 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 562970000914 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 562970000915 active site 562970000916 catalytic triad [active] 562970000917 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 562970000918 conserved cys residue [active] 562970000919 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 562970000920 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 562970000921 active site 562970000922 motif I; other site 562970000923 motif II; other site 562970000924 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 562970000925 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 562970000926 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 562970000927 TPP-binding site [chemical binding]; other site 562970000928 heterodimer interface [polypeptide binding]; other site 562970000929 tetramer interface [polypeptide binding]; other site 562970000930 phosphorylation loop region [posttranslational modification] 562970000931 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 562970000932 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 562970000933 alpha subunit interface [polypeptide binding]; other site 562970000934 TPP binding site [chemical binding]; other site 562970000935 heterodimer interface [polypeptide binding]; other site 562970000936 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 562970000937 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 562970000938 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 562970000939 E3 interaction surface; other site 562970000940 lipoyl attachment site [posttranslational modification]; other site 562970000941 e3 binding domain; Region: E3_binding; pfam02817 562970000942 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 562970000943 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 562970000944 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 562970000945 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 562970000946 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 562970000947 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 562970000948 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970000949 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 562970000950 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 562970000951 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...; Region: AAA; cd00009 562970000952 Walker A motif; other site 562970000953 ATP binding site [chemical binding]; other site 562970000954 Walker B motif; other site 562970000955 arginine finger; other site 562970000956 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 562970000957 metabolite-proton symporter; Region: 2A0106; TIGR00883 562970000958 putative substrate translocation pore; other site 562970000959 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 562970000960 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 562970000961 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 562970000962 catalytic residue [active] 562970000963 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 562970000964 active site residue [active] 562970000965 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 562970000966 putative homotetramer interface [polypeptide binding]; other site 562970000967 putative homodimer interface [polypeptide binding]; other site 562970000968 putative metal binding site [ion binding]; other site 562970000969 putative homodimer-homodimer interface [polypeptide binding]; other site 562970000970 putative allosteric switch controlling residues; other site 562970000971 Domain of unknown function DUF302; Region: DUF302; cl01364 562970000972 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 562970000973 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 562970000974 S-adenosylmethionine binding site [chemical binding]; other site 562970000975 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...; Region: TlpA_like_family; cd02966 562970000976 catalytic residues [active] 562970000977 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 562970000978 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 562970000979 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 562970000980 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 562970000981 Citrate transporter; Region: CitMHS; pfam03600 562970000982 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 562970000983 transmembrane helices; other site 562970000984 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 562970000985 Citrate transporter; Region: CitMHS; pfam03600 562970000986 transmembrane helices; other site 562970000987 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 562970000988 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 562970000989 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 562970000990 substrate binding pocket [chemical binding]; other site 562970000991 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 562970000992 B12 binding site [chemical binding]; other site 562970000993 cobalt ligand [ion binding]; other site 562970000994 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 562970000995 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 562970000996 cytochrome c oxidase assembly protein; Provisional; Region: PTZ00127 562970000997 UbiA prenyltransferase family; Region: UbiA; cl00337 562970000998 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 562970000999 Bacterial SH3 domain; Region: SH3_3; cl02551 562970001000 Bacterial SH3 domain; Region: SH3_3; cl02551 562970001001 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...; Region: Aldo_ket_red; cd06660 562970001002 active site 562970001003 catalytic tetrad [active] 562970001004 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 562970001005 active site 562970001006 metal binding site [ion binding]; metal-binding site 562970001007 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 562970001008 domain; Region: Glyco_hydro_2; pfam00703 562970001009 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl14895 562970001010 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 562970001011 L-threonine dehydrogenase; Region: threonine_DH_like; cd08234 562970001012 putative NAD(P) binding site [chemical binding]; other site 562970001013 catalytic Zn binding site [ion binding]; other site 562970001014 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 562970001015 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...; Region: Aldo_ket_red; cd06660 562970001016 active site 562970001017 catalytic tetrad [active] 562970001018 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 562970001019 putative active site [active] 562970001020 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 562970001021 UDP-N-acetylglucosamine: 1L-myo-inositol-1-phosphate 1-alpha-D-N-acetylglucosaminyltransferase; Region: mycothiol_MshA; TIGR03449 562970001022 putative ADP-binding pocket [chemical binding]; other site 562970001023 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 562970001024 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 562970001025 DNA-binding site [nucleotide binding]; DNA binding site 562970001026 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; cl09110 562970001027 nodulation ABC transporter NodI; Provisional; Region: PRK13537 562970001028 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970001029 Walker A/P-loop; other site 562970001030 ATP binding site [chemical binding]; other site 562970001031 Q-loop/lid; other site 562970001032 ABC transporter signature motif; other site 562970001033 Walker B; other site 562970001034 D-loop; other site 562970001035 H-loop/switch region; other site 562970001036 ABC-2 type transporter; Region: ABC2_membrane; cl11417 562970001037 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 562970001038 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 562970001039 motif II; other site 562970001040 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...; Region: metallo-dependent_hydrolases; cd01292 562970001041 active site 562970001042 ThiC family; Region: ThiC; cl08031 562970001043 Transposase domain (DUF772); Region: DUF772; cl12084 562970001044 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 562970001045 CoA-transferase family III; Region: CoA_transf_3; cl00778 562970001046 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 562970001047 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 562970001048 active site 562970001049 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 562970001050 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 562970001051 Copper resistance protein CopC; Region: CopC; cl01012 562970001052 Copper resistance protein D; Region: CopD; cl00563 562970001053 FixH; Region: FixH; cl01254 562970001054 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 562970001055 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970001056 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide...; Region: NrdH; cd02976 562970001057 catalytic residues [active] 562970001058 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 562970001059 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 562970001060 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic...; Region: PRX_Typ2cys; cd03015 562970001061 dimer interface [polypeptide binding]; other site 562970001062 decamer (pentamer of dimers) interface [polypeptide binding]; other site 562970001063 catalytic triad [active] 562970001064 peroxidatic and resolving cysteines [active] 562970001065 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 562970001066 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 562970001067 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 562970001068 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...; Region: AAA; cd00009 562970001069 Walker A motif; other site 562970001070 ATP binding site [chemical binding]; other site 562970001071 Walker B motif; other site 562970001072 arginine finger; other site 562970001073 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 562970001074 carboxyltransferase (CT) interaction site; other site 562970001075 biotinylation site [posttranslational modification]; other site 562970001076 LamB/YcsF family; Region: LamB_YcsF; cl00664 562970001077 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 562970001078 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 562970001079 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 562970001080 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 562970001081 4-aminobutyrate aminotransferase; Reviewed; Region: PRK06918 562970001082 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 562970001083 inhibitor-cofactor binding pocket; inhibition site 562970001084 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970001085 catalytic residue [active] 562970001086 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 562970001087 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 562970001088 tetramerization interface [polypeptide binding]; other site 562970001089 NAD(P) binding site [chemical binding]; other site 562970001090 catalytic residues [active] 562970001091 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 562970001092 active site 2 [active] 562970001093 active site 1 [active] 562970001094 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 562970001095 active site 562970001096 catalytic site [active] 562970001097 Bacitracin resistance protein BacA; Region: BacA; cl00858 562970001098 Uncharacterized conserved protein [Function unknown]; Region: COG1284 562970001099 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 562970001100 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 562970001101 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 562970001102 Predicted transcriptional regulators [Transcription]; Region: COG1725 562970001103 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 562970001104 DNA-binding site [nucleotide binding]; DNA binding site 562970001105 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 562970001106 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 562970001107 Walker A/P-loop; other site 562970001108 ATP binding site [chemical binding]; other site 562970001109 Q-loop/lid; other site 562970001110 ABC transporter signature motif; other site 562970001111 Walker B; other site 562970001112 D-loop; other site 562970001113 H-loop/switch region; other site 562970001114 proteins similar to Escherichia coli yceG; Region: yceG_like; cl00675 562970001115 Sulfate transporter family; Region: Sulfate_transp; cl00967 562970001116 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 562970001117 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 562970001118 active site 562970001119 catalytic site [active] 562970001120 metal binding site [ion binding]; metal-binding site 562970001121 dimer interface [polypeptide binding]; other site 562970001122 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 562970001123 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 562970001124 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 562970001125 active site 562970001126 ATP binding site [chemical binding]; other site 562970001127 glyoxylate reductase; Reviewed; Region: PRK13243 562970001128 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970001129 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 562970001130 putative active site [active] 562970001131 homotetrameric interface [polypeptide binding]; other site 562970001132 Phd_YefM; Region: PhdYeFM; cl09153 562970001133 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 562970001134 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 562970001135 putative transposase OrfB; Reviewed; Region: PHA02517 562970001136 Integrase core domain; Region: rve; cl01316 562970001137 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; cl12011 562970001138 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 562970001139 PglZ domain; Region: PglZ; pfam08665 562970001140 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 562970001141 Major Facilitator Superfamily; Region: MFS_1; pfam07690 562970001142 putative substrate translocation pore; other site 562970001143 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 562970001144 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 562970001145 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein...; Region: SSP411; cd02955 562970001146 catalytic residues [active] 562970001147 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 562970001148 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 562970001149 synthetase active site [active] 562970001150 NTP binding site [chemical binding]; other site 562970001151 metal binding site [ion binding]; metal-binding site 562970001152 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 562970001153 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; cl14056 562970001154 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 562970001155 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 562970001156 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 562970001157 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 562970001158 Precorrin-8X methylmutase; Region: CbiC; pfam02570 562970001159 CbiD; Region: CbiD; cl00828 562970001160 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 562970001161 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 562970001162 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 562970001163 S-adenosylmethionine binding site [chemical binding]; other site 562970001164 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 562970001165 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 562970001166 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 562970001167 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 562970001168 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 562970001169 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 562970001170 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 562970001171 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 562970001172 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 562970001173 catalytic triad [active] 562970001174 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 562970001175 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...; Region: CbiX_SirB_N; cd03416 562970001176 putative active site [active] 562970001177 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a...; Region: CbiX_SirB_C; cd03414 562970001178 putative active site [active] 562970001179 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 562970001180 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 562970001181 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 562970001182 putative dimer interface [polypeptide binding]; other site 562970001183 active site pocket [active] 562970001184 putative cataytic base [active] 562970001185 cobyric acid synthase; Provisional; Region: PRK00784 562970001186 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 562970001187 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 562970001188 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 562970001189 catalytic triad [active] 562970001190 Adenosylcobinamide amidohydrolase; Region: CbiZ; cl00808 562970001191 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970001192 Walker A motif; other site 562970001193 ATP binding site [chemical binding]; other site 562970001194 Walker B motif; other site 562970001195 CobD/Cbib protein; Region: CobD_Cbib; cl00561 562970001196 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 562970001197 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 562970001198 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 562970001199 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970001200 homodimer interface [polypeptide binding]; other site 562970001201 catalytic residue [active] 562970001202 Isochorismatase family; Region: Isochorismatase; pfam00857 562970001203 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 562970001204 catalytic triad [active] 562970001205 conserved cis-peptide bond; other site 562970001206 Cobalt transport protein; Region: CbiQ; cl00463 562970001207 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 562970001208 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 562970001209 Walker A/P-loop; other site 562970001210 ATP binding site [chemical binding]; other site 562970001211 Q-loop/lid; other site 562970001212 ABC transporter signature motif; other site 562970001213 Walker B; other site 562970001214 D-loop; other site 562970001215 H-loop/switch region; other site 562970001216 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 562970001217 Walker A/P-loop; other site 562970001218 ATP binding site [chemical binding]; other site 562970001219 Q-loop/lid; other site 562970001220 ABC transporter signature motif; other site 562970001221 Walker B; other site 562970001222 D-loop; other site 562970001223 H-loop/switch region; other site 562970001224 BioY family; Region: BioY; cl00560 562970001225 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 562970001226 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 562970001227 ba3-like heme-copper oxidase subunit I. The ba3 family of heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and some archaea which catalyze the reduction of O2 and simultaneously pump protons across the...; Region: ba3-like_Oxidase_I; cd01660 562970001228 Putative D-pathway homolog; other site 562970001229 Low-spin heme binding site [chemical binding]; other site 562970001230 Subunit I/II interface [polypeptide binding]; other site 562970001231 Putative Q-pathway; other site 562970001232 Putative alternate electron transfer pathway; other site 562970001233 Putative water exit pathway; other site 562970001234 Binuclear center (active site) [active] 562970001235 Putative K-pathway homolog; other site 562970001236 Putative proton exit pathway; other site 562970001237 Subunit I/IIa interface [polypeptide binding]; other site 562970001238 Electron transfer pathway; other site 562970001239 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 562970001240 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 562970001241 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 562970001242 Ligand binding site [chemical binding]; other site 562970001243 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 562970001244 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 562970001245 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 562970001246 spermidine synthase; Provisional; Region: PRK00811 562970001247 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; cl12011 562970001248 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 562970001249 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 562970001250 Cytochrome c; Region: Cytochrom_C; cl11414 562970001251 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 562970001252 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 562970001253 D-pathway; other site 562970001254 Putative ubiquinol binding site [chemical binding]; other site 562970001255 Low-spin heme (heme b) binding site [chemical binding]; other site 562970001256 Putative water exit pathway; other site 562970001257 Binuclear center (heme o3/CuB) [ion binding]; other site 562970001258 K-pathway; other site 562970001259 Putative proton exit pathway; other site 562970001260 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 562970001261 Subunit I/III interface [polypeptide binding]; other site 562970001262 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 562970001263 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 562970001264 OsmC-like protein; Region: OsmC; cl00767 562970001265 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 562970001266 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...; Region: Aldo_ket_red; cd06660 562970001267 active site 562970001268 catalytic tetrad [active] 562970001269 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 562970001270 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970001271 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 562970001272 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 562970001273 Protein of unknown function (DUF444); Region: DUF444; pfam04285 562970001274 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 562970001275 SpoVR like protein; Region: SpoVR; pfam04293 562970001276 Domain of unknown function DUF59; Region: DUF59; cl00941 562970001277 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 two-...; Region: SirA_YedF_YeeD; cl00436 562970001278 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 two-...; Region: SirA_YedF_YeeD; cl00436 562970001279 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 two-...; Region: SirA_YedF_YeeD; cl00436 562970001280 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 562970001281 ATP cone domain; Region: ATP-cone; pfam03477 562970001282 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 562970001283 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 562970001284 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 562970001285 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a...; Region: Hint; cd00081 562970001286 thioester formation/cholesterol transfer; other site 562970001287 protein-splicing catalytic site; other site 562970001288 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 562970001289 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; cl09966 562970001290 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 562970001291 TSCPD domain; Region: TSCPD; cl14834 562970001292 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 562970001293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 562970001294 active site 562970001295 phosphorylation site [posttranslational modification] 562970001296 intermolecular recognition site; other site 562970001297 dimerization interface [polypeptide binding]; other site 562970001298 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...; Region: LuxR_C_like; cd06170 562970001299 DNA binding residues [nucleotide binding] 562970001300 dimerization interface [polypeptide binding]; other site 562970001301 Acyltransferase family; Region: Acyl_transf_3; pfam01757 562970001302 Predicted O-acyltransferase [General function prediction only]; Region: COG3274; cl00792 562970001303 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 562970001304 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970001305 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 562970001306 Protein of unknown function (DUF444); Region: DUF444; pfam04285 562970001307 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 562970001308 SpoVR like protein; Region: SpoVR; pfam04293 562970001309 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 562970001310 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 562970001311 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; cl12011 562970001312 Uncharacterized conserved protein [Function unknown]; Region: COG3270 562970001313 LytB protein; Region: LYTB; cl00507 562970001314 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 562970001315 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 562970001316 Ligand Binding Site [chemical binding]; other site 562970001317 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 562970001318 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 562970001319 FeS/SAM binding site; other site 562970001320 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 562970001321 active site 562970001322 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 562970001323 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-...; Region: YgdL_like; cd00755 562970001324 putative ATP binding site [chemical binding]; other site 562970001325 putative substrate interface [chemical binding]; other site 562970001326 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 562970001327 catalytic residue [active] 562970001328 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 562970001329 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 562970001330 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 562970001331 D-galactonate transporter; Region: 2A0114; TIGR00893 562970001332 putative substrate translocation pore; other site 562970001333 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 562970001334 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 562970001335 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...; Region: APP_MetAP; cl00279 562970001336 active site 562970001337 Membrane transport protein; Region: Mem_trans; cl09117 562970001338 Transcriptional regulators [Transcription]; Region: FadR; COG2186 562970001339 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 562970001340 DNA-binding site [nucleotide binding]; DNA binding site 562970001341 FCD domain; Region: FCD; cl11656 562970001342 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 562970001343 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970001344 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 562970001345 Walker A; other site 562970001346 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 562970001347 G5 box; other site 562970001348 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of methylmalonyl-; Region: MM_CoA_mutase; cl00817 562970001349 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...; Region: MM_CoA_mut_B12_BD; cd02071 562970001350 B12 binding site [chemical binding]; other site 562970001351 cobalt ligand [ion binding]; other site 562970001352 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 562970001353 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 562970001354 NAD(P) binding site [chemical binding]; other site 562970001355 homotetramer interface [polypeptide binding]; other site 562970001356 homodimer interface [polypeptide binding]; other site 562970001357 active site 562970001358 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970001359 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 562970001360 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 562970001361 Domain of unknown function (DUF1802); Region: DUF1802; cl01755 562970001362 glutamine synthetase, type I; Region: GlnA; TIGR00653 562970001363 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 562970001364 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 562970001365 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 562970001366 putative active site [active] 562970001367 YwhD family; Region: YwhD; pfam08741 562970001368 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 562970001369 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 562970001370 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 562970001371 catalytic residue [active] 562970001372 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 562970001373 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 562970001374 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 562970001375 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 562970001376 Domain of unknown function DUF; Region: DUF204; pfam02659 562970001377 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 562970001378 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 562970001379 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 562970001380 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 562970001381 DXD motif; other site 562970001382 Domain of unknown function (DUF1805); Region: DUF1805; cl01339 562970001383 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 562970001384 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 562970001385 oligomer interface [polypeptide binding]; other site 562970001386 active site 562970001387 metal binding site [ion binding]; metal-binding site 562970001388 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 562970001389 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 562970001390 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 562970001391 catalytic residue [active] 562970001392 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 562970001393 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 562970001394 TPP-binding site [chemical binding]; other site 562970001395 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 562970001396 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 562970001397 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 562970001398 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 562970001399 dimer interface [polypeptide binding]; other site 562970001400 PYR/PP interface [polypeptide binding]; other site 562970001401 TPP binding site [chemical binding]; other site 562970001402 substrate binding site [chemical binding]; other site 562970001403 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 562970001404 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 562970001405 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 562970001406 DNA-binding site [nucleotide binding]; DNA binding site 562970001407 Transposase domain (DUF772); Region: DUF772; cl12084 562970001408 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 562970001409 seryl-tRNA synthetase; Provisional; Region: PRK05431 562970001410 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 562970001411 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 562970001412 dimer interface [polypeptide binding]; other site 562970001413 active site 562970001414 motif 1; other site 562970001415 motif 2; other site 562970001416 motif 3; other site 562970001417 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 562970001418 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 562970001419 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- (beta-...; Region: TMP_TenI; cd00564 562970001420 thiamine phosphate binding site [chemical binding]; other site 562970001421 active site 562970001422 pyrophosphate binding site [ion binding]; other site 562970001423 Protein of unknown function DUF86; Region: DUF86; cl01031 562970001424 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 562970001425 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 562970001426 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 562970001427 Divergent PAP2 family; Region: DUF212; cl00855 562970001428 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 562970001429 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 562970001430 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; cl11391 562970001431 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 562970001432 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 562970001433 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970001434 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 562970001435 active site 562970001436 motif I; other site 562970001437 motif II; other site 562970001438 fumarate hydratase; Reviewed; Region: fumC; PRK00485 562970001439 aspartase (L-aspartate ammonia-lyase) and fumarase class II enzymes; Region: Aspartase_like; cd01596 562970001440 active sites [active] 562970001441 tetramer interface [polypeptide binding]; other site 562970001442 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 562970001443 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 562970001444 Glutamate binding site [chemical binding]; other site 562970001445 homodimer interface [polypeptide binding]; other site 562970001446 NAD binding site [chemical binding]; other site 562970001447 catalytic residues [active] 562970001448 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 562970001449 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 562970001450 FeS/SAM binding site; other site 562970001451 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 562970001452 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 562970001453 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 562970001454 Walker A/P-loop; other site 562970001455 ATP binding site [chemical binding]; other site 562970001456 Q-loop/lid; other site 562970001457 ABC transporter signature motif; other site 562970001458 Walker B; other site 562970001459 D-loop; other site 562970001460 H-loop/switch region; other site 562970001461 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 562970001462 Moco binding site; other site 562970001463 metal coordination site [ion binding]; other site 562970001464 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 562970001465 putative active site pocket [active] 562970001466 dimerization interface [polypeptide binding]; other site 562970001467 putative catalytic residue [active] 562970001468 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 562970001469 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 562970001470 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 562970001471 NosL; Region: NosL; cl01769 562970001472 ABC-2 type transporter; Region: ABC2_membrane; cl11417 562970001473 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 562970001474 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 562970001475 Walker A/P-loop; other site 562970001476 ATP binding site [chemical binding]; other site 562970001477 Q-loop/lid; other site 562970001478 ABC transporter signature motif; other site 562970001479 Walker B; other site 562970001480 D-loop; other site 562970001481 H-loop/switch region; other site 562970001482 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 562970001483 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues...; Region: WD40; cl02567 562970001484 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 562970001485 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 562970001486 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 562970001487 Phosphoesterase family; Region: Phosphoesterase; cl10627 562970001488 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 562970001489 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 562970001490 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 562970001491 dimer interface [polypeptide binding]; other site 562970001492 active site 562970001493 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 562970001494 DNA binding residues [nucleotide binding] 562970001495 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 562970001496 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 562970001497 catalytic residues [active] 562970001498 catalytic nucleophile [active] 562970001499 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 562970001500 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970001501 ATP-dependent helicase HepA; Validated; Region: PRK04914 562970001502 DinB superfamily; Region: DinB_2; cl00986 562970001503 Predicted transcriptional regulator [Transcription]; Region: COG2378 562970001504 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970001505 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 562970001506 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 562970001507 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970001508 HIRAN domain; Region: HIRAN; pfam08797 562970001509 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970001510 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 562970001511 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970001512 NAD(P) binding site [chemical binding]; other site 562970001513 active site 562970001514 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 562970001515 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 562970001516 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970001517 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 562970001518 Major Facilitator Superfamily; Region: MFS_1; pfam07690 562970001519 putative substrate translocation pore; other site 562970001520 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 562970001521 DNA binding residues [nucleotide binding] 562970001522 DinB superfamily; Region: DinB_2; cl00986 562970001523 RNA polymerase sigma factor SigX; Provisional; Region: PRK09639 562970001524 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 562970001525 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...; Region: Sigma70_r4; cd06171 562970001526 DNA binding residues [nucleotide binding] 562970001527 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 562970001528 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 562970001529 Walker A/P-loop; other site 562970001530 ATP binding site [chemical binding]; other site 562970001531 Q-loop/lid; other site 562970001532 ABC transporter signature motif; other site 562970001533 Walker B; other site 562970001534 D-loop; other site 562970001535 H-loop/switch region; other site 562970001536 ABC-2 type transporter; Region: ABC2_membrane; cl11417 562970001537 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 562970001538 enoyl-CoA hydratase; Validated; Region: PRK08139 562970001539 substrate binding site [chemical binding]; other site 562970001540 oxyanion hole (OAH) forming residues; other site 562970001541 trimer interface [polypeptide binding]; other site 562970001542 cyanate hydratase; Validated; Region: PRK02866 562970001543 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 562970001544 oligomer interface [polypeptide binding]; other site 562970001545 active site 562970001546 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 562970001547 active site 562970001548 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 562970001549 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 562970001550 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...; Region: Sigma70_r4; cd06171 562970001551 DNA binding residues [nucleotide binding] 562970001552 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 562970001553 putative substrate translocation pore; other site 562970001554 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 562970001555 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970001556 NosL; Region: NosL; cl01769 562970001557 Iron permease FTR1 family; Region: FTR1; cl00475 562970001558 Protein of unknown function (DUF420); Region: DUF420; cl00989 562970001559 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 562970001560 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 562970001561 active site 562970001562 dimer interface [polypeptide binding]; other site 562970001563 K+-transporting ATPase, A chain [Inorganic ion transport and metabolism]; Region: KdpA; cl00903 562970001564 Potassium-transporting ATPase A subunit; Region: KdpA; pfam03814 562970001565 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 562970001566 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 562970001567 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; cl11391 562970001568 K+-transporting ATPase, c chain; Region: KdpC; cl00944 562970001569 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 562970001570 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 562970001571 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 562970001572 Ligand Binding Site [chemical binding]; other site 562970001573 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 trans-...; Region: HisKA; cd00082 562970001574 dimer interface [polypeptide binding]; other site 562970001575 phosphorylation site [posttranslational modification] 562970001576 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 562970001577 ATP binding site [chemical binding]; other site 562970001578 Mg2+ binding site [ion binding]; other site 562970001579 G-X-G motif; other site 562970001580 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 562970001581 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 562970001582 active site 562970001583 phosphorylation site [posttranslational modification] 562970001584 intermolecular recognition site; other site 562970001585 dimerization interface [polypeptide binding]; other site 562970001586 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...; Region: trans_reg_C; cd00383 562970001587 DNA binding site [nucleotide binding] 562970001588 Domain of unknown function DUF59; Region: DUF59; cl00941 562970001589 FeS assembly ATPase SufC; Region: sufC; TIGR01978 562970001590 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 562970001591 Walker A/P-loop; other site 562970001592 ATP binding site [chemical binding]; other site 562970001593 Q-loop/lid; other site 562970001594 ABC transporter signature motif; other site 562970001595 Walker B; other site 562970001596 D-loop; other site 562970001597 H-loop/switch region; other site 562970001598 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 562970001599 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 562970001600 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 562970001601 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 562970001602 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 562970001603 catalytic residue [active] 562970001604 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 562970001605 trimerization site [polypeptide binding]; other site 562970001606 active site 562970001607 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 562970001608 FeS assembly protein SufB; Region: sufB; TIGR01980 562970001609 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise...; Region: Rieske_RO_ferredoxin; cd03528 562970001610 [2Fe-2S] cluster binding site [ion binding]; other site 562970001611 Rrf2 family protein; Region: rrf2_super; TIGR00738 562970001612 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970001613 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; cl11391 562970001614 enoyl-CoA hydratase; Provisional; Region: PRK06688 562970001615 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 562970001616 substrate binding site [chemical binding]; other site 562970001617 oxyanion hole (OAH) forming residues; other site 562970001618 trimer interface [polypeptide binding]; other site 562970001619 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...; Region: Nudix_Hydrolase; cl00447 562970001620 nudix motif; other site 562970001621 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 562970001622 dimer interface [polypeptide binding]; other site 562970001623 substrate binding site [chemical binding]; other site 562970001624 metal binding sites [ion binding]; metal-binding site 562970001625 Protein of unknown function, DUF485; Region: DUF485; cl01231 562970001626 Sodium:solute symporter family; Region: SSF; cl00456 562970001627 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 562970001628 calcium/proton exchanger (cax); Region: cax; TIGR00378 562970001629 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 562970001630 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 562970001631 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 562970001632 N-acetyl-D-glucosamine binding site [chemical binding]; other site 562970001633 catalytic residue [active] 562970001634 threonine dehydratase; Provisional; Region: PRK08198 562970001635 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 562970001636 tetramer interface [polypeptide binding]; other site 562970001637 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970001638 catalytic residue [active] 562970001639 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 562970001640 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 562970001641 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 562970001642 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970001643 homodimer interface [polypeptide binding]; other site 562970001644 catalytic residue [active] 562970001645 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 562970001646 Chorismate mutase type II; Region: CM_2; cl00693 562970001647 NeuB family; Region: NeuB; cl00496 562970001648 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 562970001649 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 562970001650 FOG: CBS domain [General function prediction only]; Region: COG0517 562970001651 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 562970001652 C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB; Region: ACT_AcuB; cd04883 562970001653 acetyl-CoA synthetase; Provisional; Region: PRK04319 562970001654 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 562970001655 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970001656 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 562970001657 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 562970001658 inhibitor-cofactor binding pocket; inhibition site 562970001659 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970001660 catalytic residue [active] 562970001661 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 562970001662 hydrophobic ligand binding site; other site 562970001663 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970001664 NAD(P) binding pocket [chemical binding]; other site 562970001665 This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa...; Region: ACD_sHsps_p23-like; cd00298 562970001666 Protein of unknown function (DUF1641); Region: DUF1641; cl01025 562970001667 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 562970001668 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 two-...; Region: SirA_YedF_YeeD; cd00291 562970001669 CPxP motif; other site 562970001670 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 562970001671 active site residue [active] 562970001672 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 562970001673 PAS fold; Region: PAS; pfam00989 562970001674 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 562970001675 Histidine kinase; Region: HisKA_3; pfam07730 562970001676 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 562970001677 ATP binding site [chemical binding]; other site 562970001678 Mg2+ binding site [ion binding]; other site 562970001679 G-X-G motif; other site 562970001680 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 562970001681 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 562970001682 active site 562970001683 phosphorylation site [posttranslational modification] 562970001684 intermolecular recognition site; other site 562970001685 dimerization interface [polypeptide binding]; other site 562970001686 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...; Region: LuxR_C_like; cd06170 562970001687 DNA binding residues [nucleotide binding] 562970001688 dimerization interface [polypeptide binding]; other site 562970001689 Major Facilitator Superfamily; Region: MFS_1; pfam07690 562970001690 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 562970001691 putative substrate translocation pore; other site 562970001692 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 562970001693 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 562970001694 active site 562970001695 HIGH motif; other site 562970001696 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 562970001697 active site 562970001698 KMSKS motif; other site 562970001699 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 562970001700 FAD binding domain; Region: FAD_binding_4; pfam01565 562970001701 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 562970001702 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 562970001703 TPP-binding site [chemical binding]; other site 562970001704 tetramer interface [polypeptide binding]; other site 562970001705 heterodimer interface [polypeptide binding]; other site 562970001706 phosphorylation loop region [posttranslational modification] 562970001707 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 562970001708 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 562970001709 alpha subunit interface [polypeptide binding]; other site 562970001710 TPP binding site [chemical binding]; other site 562970001711 heterodimer interface [polypeptide binding]; other site 562970001712 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 562970001713 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 562970001714 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 562970001715 E3 interaction surface; other site 562970001716 lipoyl attachment site [posttranslational modification]; other site 562970001717 e3 binding domain; Region: E3_binding; pfam02817 562970001718 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 562970001719 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 562970001720 catalytic residues [active] 562970001721 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970001722 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 562970001723 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 562970001724 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...; Region: NAPRTase_A; cd01570 562970001725 active site 562970001726 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 562970001727 metal binding triad; other site 562970001728 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 562970001729 hypothetical protein; Provisional; Region: PRK07740 562970001730 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 562970001731 active site 562970001732 substrate binding site [chemical binding]; other site 562970001733 catalytic site [active] 562970001734 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 562970001735 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 562970001736 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 562970001737 putative active site [active] 562970001738 metal binding site [ion binding]; metal-binding site 562970001739 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 562970001740 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...; Region: MTHFR; cd00537 562970001741 FAD binding site [chemical binding]; other site 562970001742 tryptophanyl-tRNA synthetase; Region: trpS; TIGR00233 562970001743 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 562970001744 active site 562970001745 HIGH motif; other site 562970001746 dimer interface [polypeptide binding]; other site 562970001747 KMSKS motif; other site 562970001748 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 562970001749 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 562970001750 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 562970001751 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 562970001752 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 562970001753 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 562970001754 L-aminoadipate-semialdehyde dehydrogenase; Region: alpha_am_amid; TIGR03443 562970001755 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970001756 aspartate kinase; Reviewed; Region: PRK06635 562970001757 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli (...; Region: AAK_AK-DapG-like; cd04246 562970001758 putative catalytic residues [active] 562970001759 putative nucleotide binding site [chemical binding]; other site 562970001760 putative aspartate binding site [chemical binding]; other site 562970001761 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 562970001762 putative allosteric regulatory site; other site 562970001763 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 562970001764 putative allosteric regulatory residue; other site 562970001765 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 562970001766 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 562970001767 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 562970001768 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...; Region: SQR_TypeB_1_TM; cd03497 562970001769 putative Iron-sulfur protein interface [polypeptide binding]; other site 562970001770 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 562970001771 proximal heme binding site [chemical binding]; other site 562970001772 distal heme binding site [chemical binding]; other site 562970001773 putative dimer interface [polypeptide binding]; other site 562970001774 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 562970001775 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 562970001776 domain; Region: Succ_DH_flav_C; pfam02910 562970001777 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 562970001778 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 alpha-; Region: HCP_like; cl14655 562970001779 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...; Region: LuxR_C_like; cd06170 562970001780 DNA binding residues [nucleotide binding] 562970001781 dimerization interface [polypeptide binding]; other site 562970001782 Transcriptional regulators [Transcription]; Region: MarR; COG1846 562970001783 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970001784 Sporulation and spore germination; Region: Germane; pfam10646 562970001785 Sporulation and spore germination; Region: Germane; pfam10646 562970001786 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 Ham1-...; Region: HAM1; cd00515 562970001787 active site 562970001788 dimerization interface [polypeptide binding]; other site 562970001789 trigger factor; Provisional; Region: tig; PRK01490 562970001790 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 562970001791 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 562970001792 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 562970001793 oligomer interface [polypeptide binding]; other site 562970001794 active site residues [active] 562970001795 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 562970001796 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 562970001797 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...; Region: AAA; cd00009 562970001798 Walker A motif; other site 562970001799 ATP binding site [chemical binding]; other site 562970001800 Walker B motif; other site 562970001801 arginine finger; other site 562970001802 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 562970001803 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 562970001804 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...; Region: AAA; cd00009 562970001805 Walker A motif; other site 562970001806 ATP binding site [chemical binding]; other site 562970001807 Walker B motif; other site 562970001808 arginine finger; other site 562970001809 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 562970001810 Transposase domain (DUF772); Region: DUF772; cl12084 562970001811 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 562970001812 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 562970001813 Found in ATP-dependent protease La (LON); Region: LON; cl01056 562970001814 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970001815 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...; Region: AAA; cd00009 562970001816 Walker A motif; other site 562970001817 ATP binding site [chemical binding]; other site 562970001818 Walker B motif; other site 562970001819 arginine finger; other site 562970001820 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 562970001821 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 562970001822 G1 box; other site 562970001823 GTP/Mg2+ binding site [chemical binding]; other site 562970001824 Switch I region; other site 562970001825 G2 box; other site 562970001826 G3 box; other site 562970001827 Switch II region; other site 562970001828 G4 box; other site 562970001829 G5 box; other site 562970001830 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 562970001831 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 562970001832 tRNA; other site 562970001833 putative tRNA binding site [nucleotide binding]; other site 562970001834 putative NADP binding site [chemical binding]; other site 562970001835 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 562970001836 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 562970001837 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 562970001838 precorrin-2 dehydrogenase; Validated; Region: PRK06719 562970001839 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 562970001840 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 562970001841 domain interfaces; other site 562970001842 active site 562970001843 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 562970001844 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...; Region: HemD; cd06578 562970001845 active site 562970001846 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 562970001847 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 562970001848 dimer interface [polypeptide binding]; other site 562970001849 active site 562970001850 Schiff base residues; other site 562970001851 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 562970001852 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970001853 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 562970001854 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 562970001855 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 562970001856 inhibitor-cofactor binding pocket; inhibition site 562970001857 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970001858 catalytic residue [active] 562970001859 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 562970001860 putative peptidoglycan binding site; other site 562970001861 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 562970001862 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 562970001863 HIGH motif; other site 562970001864 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 562970001865 active site 562970001866 KMSKS motif; other site 562970001867 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 562970001868 tRNA binding surface [nucleotide binding]; other site 562970001869 anticodon binding site; other site 562970001870 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 562970001871 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 562970001872 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 562970001873 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 562970001874 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 562970001875 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 562970001876 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 562970001877 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 562970001878 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 562970001879 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970001880 Walker A motif; other site 562970001881 ATP binding site [chemical binding]; other site 562970001882 Walker B motif; other site 562970001883 Domain of unknown function (DUF348); Region: DUF348; pfam03990 562970001884 Domain of unknown function (DUF348); Region: DUF348; pfam03990 562970001885 G5 domain; Region: G5; pfam07501 562970001886 3D domain; Region: 3D; cl01439 562970001887 Sporulation related domain; Region: SPOR; cl10051 562970001888 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 562970001889 active site 562970001890 dimer interface [polypeptide binding]; other site 562970001891 hypothetical protein; Reviewed; Region: PRK00024 562970001892 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 562970001893 MPN+ (JAMM) motif; other site 562970001894 Zinc-binding site [ion binding]; other site 562970001895 rod shape-determining protein MreB; Provisional; Region: PRK13927 562970001896 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 562970001897 ATP binding site [chemical binding]; other site 562970001898 profilin binding site; other site 562970001899 rod shape-determining protein MreC; Region: MreC; pfam04085 562970001900 rod shape-determining protein MreD; Region: MreD; cl01087 562970001901 septum formation inhibitor; Reviewed; Region: minC; PRK00513 562970001902 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 562970001903 septum site-determining protein MinD; Region: minD_bact; TIGR01968 562970001904 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...; Region: MinD; cd02036 562970001905 Switch I; other site 562970001906 Switch II; other site 562970001907 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 562970001908 Peptidase family M23; Region: Peptidase_M23; pfam01551 562970001909 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 562970001910 putative substrate binding region [chemical binding]; other site 562970001911 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 562970001912 Protein of unknown function (DUF464); Region: DUF464; cl01080 562970001913 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 562970001914 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 562970001915 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970001916 GTPase CgtA; Reviewed; Region: obgE; PRK12297 562970001917 GTP1/OBG; Region: GTP1_OBG; pfam01018 562970001918 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 562970001919 G1 box; other site 562970001920 GTP/Mg2+ binding site [chemical binding]; other site 562970001921 Switch I region; other site 562970001922 G2 box; other site 562970001923 G3 box; other site 562970001924 Switch II region; other site 562970001925 G4 box; other site 562970001926 G5 box; other site 562970001927 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 562970001928 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 562970001929 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 562970001930 active site 562970001931 FMN binding site [chemical binding]; other site 562970001932 substrate binding site [chemical binding]; other site 562970001933 homotetramer interface [polypeptide binding]; other site 562970001934 catalytic residue [active] 562970001935 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 562970001936 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 562970001937 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 562970001938 mannose-6-phosphate isomerase; Provisional; Region: PRK15131; cl14659 562970001939 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 562970001940 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 562970001941 active site 562970001942 Substrate binding site [chemical binding]; other site 562970001943 Mg++ binding site [ion binding]; other site 562970001944 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 562970001945 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 562970001946 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 562970001947 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 562970001948 aspartate aminotransferase; Provisional; Region: PRK08361 562970001949 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 562970001950 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970001951 homodimer interface [polypeptide binding]; other site 562970001952 catalytic residue [active] 562970001953 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 562970001954 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970001955 Type II/IV secretion system protein; Region: GSPII_E; pfam00437 562970001956 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970001957 Walker A motif; other site 562970001958 ATP binding site [chemical binding]; other site 562970001959 Walker B motif; other site 562970001960 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 562970001961 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 562970001962 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 562970001963 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 562970001964 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 562970001965 shikimate kinase; Reviewed; Region: aroK; PRK00131 562970001966 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...; Region: SK; cd00464 562970001967 ADP binding site [chemical binding]; other site 562970001968 magnesium binding site [ion binding]; other site 562970001969 putative shikimate binding site; other site 562970001970 exosortase 1 system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 562970001971 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 562970001972 active site 562970001973 dimer interface [polypeptide binding]; other site 562970001974 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...; Region: Asn_Synthase_B_C; cd01991 562970001975 Ligand Binding Site [chemical binding]; other site 562970001976 Molecular Tunnel; other site 562970001977 hypothetical protein; Provisional; Region: PRK04435 562970001978 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 562970001979 threonine synthase; Reviewed; Region: PRK06721 562970001980 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants...; Region: Thr-synth_1; cd01563 562970001981 homodimer interface [polypeptide binding]; other site 562970001982 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970001983 catalytic residue [active] 562970001984 homoserine kinase; Provisional; Region: PRK01212 562970001985 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 562970001986 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...; Region: AAA; cd00009 562970001987 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 562970001988 Walker A motif; other site 562970001989 ATP binding site [chemical binding]; other site 562970001990 Walker B motif; other site 562970001991 arginine finger; other site 562970001992 Bacterial protein YqhG of unknown function; Region: YqhG; pfam11079 562970001993 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 562970001994 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 562970001995 ATP binding site [chemical binding]; other site 562970001996 putative Mg++ binding site [ion binding]; other site 562970001997 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 562970001998 nucleotide binding region [chemical binding]; other site 562970001999 ATP-binding site [chemical binding]; other site 562970002000 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 562970002001 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 562970002002 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 562970002003 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...; Region: GDC-P; cd00613 562970002004 tetramer interface [polypeptide binding]; other site 562970002005 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970002006 catalytic residue [active] 562970002007 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 562970002008 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...; Region: GDC-P; cd00613 562970002009 tetramer interface [polypeptide binding]; other site 562970002010 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970002011 catalytic residue [active] 562970002012 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 562970002013 catalytic core [active] 562970002014 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 562970002015 trimer interface [polypeptide binding]; other site 562970002016 active site 562970002017 dimer interface [polypeptide binding]; other site 562970002018 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 562970002019 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 562970002020 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 562970002021 active site 562970002022 elongation factor P; Validated; Region: PRK00529 562970002023 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 562970002024 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 562970002025 RNA binding site [nucleotide binding]; other site 562970002026 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 562970002027 RNA binding site [nucleotide binding]; other site 562970002028 Protein of unknown function (DUF2619); Region: DUF2619; pfam10942 562970002029 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 562970002030 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970002031 Walker A motif; other site 562970002032 ATP binding site [chemical binding]; other site 562970002033 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; cl08022 562970002034 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 562970002035 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 562970002036 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 562970002037 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 562970002038 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 562970002039 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 562970002040 carboxyltransferase (CT) interaction site; other site 562970002041 biotinylation site [posttranslational modification]; other site 562970002042 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 562970002043 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 562970002044 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 562970002045 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 562970002046 Protein of unknown function (DUF322); Region: DUF322; cl00574 562970002047 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 562970002048 putative RNA binding site [nucleotide binding]; other site 562970002049 Metal-dependent proteases with possible chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: QRI7; COG0533 562970002050 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 562970002051 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 562970002052 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 562970002053 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 562970002054 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 562970002055 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 562970002056 homodimer interface [polypeptide binding]; other site 562970002057 NADP binding site [chemical binding]; other site 562970002058 substrate binding site [chemical binding]; other site 562970002059 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 562970002060 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 single-strand-...; Region: ExoVII_LU_OBF; cd04489 562970002061 generic binding surface II; other site 562970002062 generic binding surface I; other site 562970002063 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 562970002064 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 562970002065 substrate binding pocket [chemical binding]; other site 562970002066 chain length determination region; other site 562970002067 substrate-Mg2+ binding site; other site 562970002068 catalytic residues [active] 562970002069 aspartate-rich region 1; other site 562970002070 active site lid residues [active] 562970002071 aspartate-rich region 2; other site 562970002072 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 562970002073 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 with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 562970002074 TPP-binding site; other site 562970002075 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 562970002076 PYR/PP interface [polypeptide binding]; other site 562970002077 dimer interface [polypeptide binding]; other site 562970002078 TPP binding site [chemical binding]; other site 562970002079 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 562970002080 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 562970002081 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 562970002082 RNA binding surface [nucleotide binding]; other site 562970002083 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; cl12011 562970002084 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 562970002085 ATP-NAD kinase; Region: NAD_kinase; pfam01513 562970002086 arginine repressor; Provisional; Region: PRK04280 562970002087 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 562970002088 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 562970002089 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 562970002090 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 562970002091 Walker A/P-loop; other site 562970002092 ATP binding site [chemical binding]; other site 562970002093 Q-loop/lid; other site 562970002094 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 562970002095 ABC transporter signature motif; other site 562970002096 Walker B; other site 562970002097 D-loop; other site 562970002098 H-loop/switch region; other site 562970002099 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...; Region: PDZ_metalloprotease; cd00989 562970002100 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 562970002101 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 562970002102 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 562970002103 active site 562970002104 phosphorylation site [posttranslational modification] 562970002105 intermolecular recognition site; other site 562970002106 dimerization interface [polypeptide binding]; other site 562970002107 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 562970002108 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; cl14056 562970002109 YfkB-like domain; Region: YfkB; pfam08756 562970002110 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 562970002111 active site 562970002112 catalytic triad [active] 562970002113 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 562970002114 Domain of unknown function (DUF309); Region: DUF309; cl00667 562970002115 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 562970002116 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 562970002117 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 562970002118 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 562970002119 Bacterial SH3 domain; Region: SH3_3; cl02551 562970002120 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 562970002121 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 562970002122 putative NAD(P) binding site [chemical binding]; other site 562970002123 putative active site [active] 562970002124 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08248 562970002125 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 562970002126 homodimer interface [polypeptide binding]; other site 562970002127 substrate-cofactor binding pocket; other site 562970002128 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970002129 catalytic residue [active] 562970002130 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 562970002131 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 562970002132 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 562970002133 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 562970002134 GatB domain; Region: GatB_Yqey; cl11497 562970002135 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 562970002136 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 562970002137 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 562970002138 YabP family; Region: YabP; cl06766 562970002139 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 562970002140 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 562970002141 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 562970002142 PhoH-like protein; Region: PhoH; cl12134 562970002143 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 562970002144 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 562970002145 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 562970002146 Zn2+ binding site [ion binding]; other site 562970002147 Mg2+ binding site [ion binding]; other site 562970002148 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 562970002149 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 562970002150 PAP2_like proteins, diacylglycerol_kinase like sub-family. In some prokaryotes, PAP2_like phosphatase domains appear fused to E. coli DAGK-like trans-membrane diacylglycerol kinase domains. The cellular function of these architectures remains to be...; Region: PAP2_diacylglycerolkinase; cd03383 562970002151 active site 562970002152 GTPase Era; Reviewed; Region: era; PRK00089 562970002153 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 562970002154 G1 box; other site 562970002155 GTP/Mg2+ binding site [chemical binding]; other site 562970002156 Switch I region; other site 562970002157 G2 box; other site 562970002158 Switch II region; other site 562970002159 G3 box; other site 562970002160 G4 box; other site 562970002161 G5 box; other site 562970002162 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains...; Region: KH-I; cl00098 562970002163 Recombination protein O N terminal; Region: RecO_N; pfam11967 562970002164 DNA repair protein RecO; Region: reco; TIGR00613 562970002165 Recombination protein O C terminal; Region: RecO_C; pfam02565 562970002166 glycyl-tRNA synthetase, tetrameric type, alpha subunit; Region: glyQ; TIGR00388 562970002167 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 562970002168 motif 1; other site 562970002169 dimer interface [polypeptide binding]; other site 562970002170 active site 562970002171 motif 2; other site 562970002172 motif 3; other site 562970002173 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 562970002174 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 562970002175 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970002176 FOG: CBS domain [General function prediction only]; Region: COG0517 562970002177 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-...; Region: CBS_pair_4; cd04617 562970002178 Domain of unknown function (DUF299); Region: DUF299; cl00780 562970002179 pyruvate phosphate dikinase; Provisional; Region: PRK09279 562970002180 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 562970002181 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 562970002182 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 562970002183 DNA primase; Validated; Region: dnaG; PRK05667 562970002184 CHC2 zinc finger; Region: zf-CHC2; cl02597 562970002185 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 562970002186 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 562970002187 active site 562970002188 metal binding site [ion binding]; metal-binding site 562970002189 interdomain interaction site; other site 562970002190 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 562970002191 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 562970002192 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 562970002193 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 562970002194 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 562970002195 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...; Region: Sigma70_r4; cd06171 562970002196 DNA binding residues [nucleotide binding] 562970002197 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 562970002198 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 562970002199 FAD binding site [chemical binding]; other site 562970002200 homotetramer interface [polypeptide binding]; other site 562970002201 substrate binding pocket [chemical binding]; other site 562970002202 catalytic base [active] 562970002203 acetyl-CoA synthetase; Provisional; Region: PRK00174 562970002204 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 562970002205 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970002206 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 562970002207 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 562970002208 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 562970002209 Transposase domain (DUF772); Region: DUF772; cl12084 562970002210 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 562970002211 Transposase [DNA replication, recombination, and repair]; Region: COG5421 562970002212 Integrase core domain; Region: rve; cl01316 562970002213 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 562970002214 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 562970002215 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 562970002216 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 562970002217 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 562970002218 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 562970002219 Beta-Casp domain; Region: Beta-Casp; pfam10996 562970002220 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 562970002221 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 562970002222 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; cl14780 562970002223 active site 562970002224 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 562970002225 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 562970002226 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 562970002227 AIR carboxylase; Region: AIRC; cl00310 562970002228 adenylosuccinate lyase; Provisional; Region: PRK07492 562970002229 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 562970002230 tetramer interface [polypeptide binding]; other site 562970002231 active site 562970002232 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 562970002233 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 562970002234 ATP binding site [chemical binding]; other site 562970002235 active site 562970002236 substrate binding site [chemical binding]; other site 562970002237 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 562970002238 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 562970002239 putative active site [active] 562970002240 catalytic triad [active] 562970002241 phosphoribosylformylglycinamidine synthase II; Region: FGAM_synth_II; TIGR01736 562970002242 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 562970002243 dimerization interface [polypeptide binding]; other site 562970002244 ATP binding site [chemical binding]; other site 562970002245 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 562970002246 dimerization interface [polypeptide binding]; other site 562970002247 ATP binding site [chemical binding]; other site 562970002248 amidophosphoribosyltransferase; Provisional; Region: PRK09123 562970002249 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 562970002250 active site 562970002251 tetramer interface [polypeptide binding]; other site 562970002252 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 562970002253 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 562970002254 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...; Region: PurM; cd02196 562970002255 dimerization interface [polypeptide binding]; other site 562970002256 putative ATP binding site [chemical binding]; other site 562970002257 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 562970002258 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 562970002259 active site 562970002260 substrate binding site [chemical binding]; other site 562970002261 cosubstrate binding site; other site 562970002262 catalytic site [active] 562970002263 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 562970002264 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 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 562970002265 purine monophosphate binding site [chemical binding]; other site 562970002266 dimer interface [polypeptide binding]; other site 562970002267 putative catalytic residues [active] 562970002268 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 562970002269 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 562970002270 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 562970002271 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 562970002272 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 562970002273 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 562970002274 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 562970002275 nucleophile elbow; other site 562970002276 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 562970002277 Major Facilitator Superfamily; Region: MFS_1; pfam07690 562970002278 putative substrate translocation pore; other site 562970002279 protein disulfide isomerases, eukaryotic; Region: ER_PDI_fam; TIGR01130 562970002280 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 562970002281 active site 562970002282 tetramer interface [polypeptide binding]; other site 562970002283 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 562970002284 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 562970002285 DNA binding residues [nucleotide binding] 562970002286 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 562970002287 catalytic residues [active] 562970002288 catalytic nucleophile [active] 562970002289 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 562970002290 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970002291 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 562970002292 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 562970002293 Glutamate binding site [chemical binding]; other site 562970002294 homodimer interface [polypeptide binding]; other site 562970002295 NAD binding site [chemical binding]; other site 562970002296 catalytic residues [active] 562970002297 Proline dehydrogenase; Region: Pro_dh; cl03282 562970002298 PAS domain S-box; Region: sensory_box; TIGR00229 562970002299 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 562970002300 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 562970002301 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...; Region: AAA; cd00009 562970002302 Walker A motif; other site 562970002303 ATP binding site [chemical binding]; other site 562970002304 Walker B motif; other site 562970002305 arginine finger; other site 562970002306 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 562970002307 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 562970002308 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 562970002309 ATP binding site [chemical binding]; other site 562970002310 putative Mg++ binding site [ion binding]; other site 562970002311 methyl-accepting protein IV; Provisional; Region: PRK09793 562970002312 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 562970002313 nucleotide binding region [chemical binding]; other site 562970002314 ATP-binding site [chemical binding]; other site 562970002315 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 562970002316 putative active site [active] 562970002317 Uncharacterised protein family (UPF0158); Region: UPF0158; pfam03682 562970002318 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 562970002319 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 562970002320 Protein of unknown function (DUF779); Region: DUF779; cl01432 562970002321 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 562970002322 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 562970002323 NAD(P) binding site [chemical binding]; other site 562970002324 catalytic residues [active] 562970002325 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 562970002326 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 562970002327 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 562970002328 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 562970002329 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 562970002330 catalytic Zn binding site [ion binding]; other site 562970002331 structural Zn binding site [ion binding]; other site 562970002332 NAD(P) binding site [chemical binding]; other site 562970002333 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 562970002334 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 562970002335 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 562970002336 binding surface 562970002337 TPR motif; other site 562970002338 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 562970002339 Protein of unknown function, DUF393; Region: DUF393; cl01136 562970002340 Transcriptional regulators [Transcription]; Region: MarR; COG1846 562970002341 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970002342 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 562970002343 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 562970002344 Transposase; Region: DEDD_Tnp_IS110; pfam01548 562970002345 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 562970002346 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 562970002347 putative active site [active] 562970002348 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 562970002349 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 562970002350 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 562970002351 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 562970002352 NAD binding site [chemical binding]; other site 562970002353 homodimer interface [polypeptide binding]; other site 562970002354 active site 562970002355 substrate binding site [chemical binding]; other site 562970002356 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 562970002357 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 562970002358 dTDP-glucose 4,6-dehydratase; Region: dTDP_gluc_dehyt; TIGR01181 562970002359 NAD binding site [chemical binding]; other site 562970002360 substrate binding site [chemical binding]; other site 562970002361 homodimer interface [polypeptide binding]; other site 562970002362 active site 562970002363 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 562970002364 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 562970002365 NADP binding site [chemical binding]; other site 562970002366 active site 562970002367 putative substrate binding site [chemical binding]; other site 562970002368 Cupin domain; Region: Cupin_2; cl09118 562970002369 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 562970002370 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 562970002371 substrate binding site [chemical binding]; other site 562970002372 tetramer interface [polypeptide binding]; other site 562970002373 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 562970002374 Probable Catalytic site [active] 562970002375 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 562970002376 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 562970002377 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 562970002378 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 562970002379 Probable Catalytic site [active] 562970002380 metal binding site [ion binding]; metal-binding site 562970002381 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 562970002382 Probable Catalytic site [active] 562970002383 metal binding site [ion binding]; metal-binding site 562970002384 ABC-2 type transporter; Region: ABC2_membrane; cl11417 562970002385 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 562970002386 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides...; Region: ABC_KpsT_Wzt; cd03220 562970002387 Walker A/P-loop; other site 562970002388 ATP binding site [chemical binding]; other site 562970002389 Q-loop/lid; other site 562970002390 ABC transporter signature motif; other site 562970002391 Walker B; other site 562970002392 D-loop; other site 562970002393 H-loop/switch region; other site 562970002394 Integrase core domain; Region: rve; cl01316 562970002395 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 562970002396 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970002397 NAD(P) binding site [chemical binding]; other site 562970002398 active site 562970002399 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 562970002400 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 562970002401 NAD(P) binding site [chemical binding]; other site 562970002402 homodimer interface [polypeptide binding]; other site 562970002403 substrate binding site [chemical binding]; other site 562970002404 active site 562970002405 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 562970002406 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 562970002407 putative ADP-binding pocket [chemical binding]; other site 562970002408 Bacterial sugar transferase; Region: Bac_transf; cl00939 562970002409 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 562970002410 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 562970002411 putative trimer interface [polypeptide binding]; other site 562970002412 putative CoA binding site [chemical binding]; other site 562970002413 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 562970002414 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 562970002415 inhibitor-cofactor binding pocket; inhibition site 562970002416 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970002417 catalytic residue [active] 562970002418 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; cl14056 562970002419 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 562970002420 Phd_YefM; Region: PhdYeFM; cl09153 562970002421 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 562970002422 putative active site [active] 562970002423 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 562970002424 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 562970002425 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 562970002426 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 562970002427 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 562970002428 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 562970002429 active site/substrate binding site [active] 562970002430 tetramer interface [polypeptide binding]; other site 562970002431 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 562970002432 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 562970002433 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...; Region: AAA; cd00009 562970002434 Walker A motif; other site 562970002435 ATP binding site [chemical binding]; other site 562970002436 Walker B motif; other site 562970002437 arginine finger; other site 562970002438 benzoate transport; Region: 2A0115; TIGR00895 562970002439 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 562970002440 putative substrate translocation pore; other site 562970002441 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 562970002442 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 562970002443 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 562970002444 Protein of unknown function (DUF3832); Region: DUF3832; pfam12909 562970002445 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 562970002446 active site 562970002447 NTP binding site [chemical binding]; other site 562970002448 metal binding triad [ion binding]; metal-binding site 562970002449 antibiotic binding site [chemical binding]; other site 562970002450 YcfA-like protein; Region: YcfA; cl00752 562970002451 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 562970002452 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 562970002453 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 562970002454 metal binding site [ion binding]; metal-binding site 562970002455 dimer interface [polypeptide binding]; other site 562970002456 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 562970002457 active site 562970002458 NTP binding site [chemical binding]; other site 562970002459 metal binding triad [ion binding]; metal-binding site 562970002460 Transposase; Region: DEDD_Tnp_IS110; pfam01548 562970002461 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 562970002462 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 562970002463 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 562970002464 PemK-like protein; Region: PemK; cl00995 562970002465 Protein of unknown function (DUF521); Region: DUF521; pfam04412 562970002466 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 562970002467 substrate binding site [chemical binding]; other site 562970002468 ligand binding site [chemical binding]; other site 562970002469 Putative Aconitase X swivel domain. It is predicted by comparative genomic analysis. The proteins are mainly found in archaea and proteobacteria. They are distantly related to Aconitase family of proteins by sequence similarity and seconary structure...; Region: AcnX_swivel; cd01356 562970002470 substrate binding site [chemical binding]; other site 562970002471 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 562970002472 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose...; Region: SIS_RpiR; cd05013 562970002473 putative active site [active] 562970002474 allantoate amidohydrolase; Reviewed; Region: PRK12890 562970002475 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 562970002476 active site 562970002477 metal binding site [ion binding]; metal-binding site 562970002478 dimer interface [polypeptide binding]; other site 562970002479 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 562970002480 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 562970002481 active site 562970002482 putative substrate binding pocket [chemical binding]; other site 562970002483 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 562970002484 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 562970002485 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 562970002486 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...; Region: TM_PBP2; cl00427 562970002487 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 562970002488 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars...; Region: ABC_NrtD_SsuB_transporters; cd03293 562970002489 Walker A/P-loop; other site 562970002490 ATP binding site [chemical binding]; other site 562970002491 Q-loop/lid; other site 562970002492 ABC transporter signature motif; other site 562970002493 Walker B; other site 562970002494 D-loop; other site 562970002495 H-loop/switch region; other site 562970002496 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 562970002497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970002498 urocanate hydratase; Provisional; Region: PRK05414 562970002499 urocanate hydratase; Region: hutU; TIGR01228 562970002500 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 562970002501 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria...; Region: Imidazolone-5PH; cd01296 562970002502 active site 562970002503 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 562970002504 putative active site [active] 562970002505 Nitronate monooxygenase; Region: NMO; pfam03060 562970002506 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...; Region: NPD_like; cd04730 562970002507 FMN binding site [chemical binding]; other site 562970002508 substrate binding site [chemical binding]; other site 562970002509 putative catalytic residue [active] 562970002510 Immunoglobulin-like domain of bacterial spore germination; Region: Gmad2; pfam10648 562970002511 Uncharacterized conserved protein [Function unknown]; Region: COG4715 562970002512 SWIM zinc finger; Region: SWIM; cl11618 562970002513 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 562970002514 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 562970002515 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 562970002516 ATP binding site [chemical binding]; other site 562970002517 putative Mg++ binding site [ion binding]; other site 562970002518 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 562970002519 nucleotide binding region [chemical binding]; other site 562970002520 ATP-binding site [chemical binding]; other site 562970002521 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 562970002522 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 562970002523 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 562970002524 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 562970002525 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 562970002526 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 562970002527 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970002528 homoserine dehydrogenase; Provisional; Region: PRK06349 562970002529 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970002530 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 562970002531 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 562970002532 gamma-glutamyl kinase; Provisional; Region: PRK05429 562970002533 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 562970002534 nucleotide binding site [chemical binding]; other site 562970002535 homotetrameric interface [polypeptide binding]; other site 562970002536 putative phosphate binding site [ion binding]; other site 562970002537 putative allosteric binding site; other site 562970002538 PUA domain; Region: PUA; cl00607 562970002539 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 562970002540 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 562970002541 putative catalytic cysteine [active] 562970002542 prephenate dehydratase; Provisional; Region: PRK11898 562970002543 Prephenate dehydratase; Region: PDT; pfam00800 562970002544 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 562970002545 putative L-Phe binding site [chemical binding]; other site 562970002546 branched-chain amino acid aminotransferase; Provisional; Region: PRK12479 562970002547 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 D-...; Region: D-AAT_like; cd01558 562970002548 homodimer interface [polypeptide binding]; other site 562970002549 substrate-cofactor binding pocket; other site 562970002550 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970002551 catalytic residue [active] 562970002552 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06725 562970002553 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 562970002554 PYR/PP interface [polypeptide binding]; other site 562970002555 dimer interface [polypeptide binding]; other site 562970002556 TPP binding site [chemical binding]; other site 562970002557 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 562970002558 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 562970002559 TPP-binding site [chemical binding]; other site 562970002560 dimer interface [polypeptide binding]; other site 562970002561 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 562970002562 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 562970002563 putative valine binding site [chemical binding]; other site 562970002564 dimer interface [polypeptide binding]; other site 562970002565 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 562970002566 ketol-acid reductoisomerase; Provisional; Region: PRK05479 562970002567 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970002568 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 562970002569 2-isopropylmalate synthase; Validated; Region: PRK00915 562970002570 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 562970002571 active site 562970002572 catalytic residues [active] 562970002573 metal binding site [ion binding]; metal-binding site 562970002574 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 562970002575 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 562970002576 isocitrate dehydrogenase; Validated; Region: PRK06451 562970002577 UbiA prenyltransferase family; Region: UbiA; cl00337 562970002578 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 562970002579 nucleotide binding site/active site [active] 562970002580 HIT family signature motif; other site 562970002581 catalytic residue [active] 562970002582 CoA-transferase family III; Region: CoA_transf_3; cl00778 562970002583 Polyphosphate kinase; Region: PP_kinase; pfam02503 562970002584 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 562970002585 putative domain interface [polypeptide binding]; other site 562970002586 putative active site [active] 562970002587 catalytic site [active] 562970002588 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 562970002589 putative domain interface [polypeptide binding]; other site 562970002590 putative active site [active] 562970002591 catalytic site [active] 562970002592 exopolyphosphatase; Region: exo_poly_only; TIGR03706 562970002593 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 562970002594 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 562970002595 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970002596 Transcriptional regulator [Transcription]; Region: IclR; COG1414 562970002597 Bacterial transcriptional regulator; Region: IclR; pfam01614 562970002598 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 562970002599 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 562970002600 active site 562970002601 metal binding site [ion binding]; metal-binding site 562970002602 C-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_C; cd07243 562970002603 tetramer interface [polypeptide binding]; other site 562970002604 active site 562970002605 Fe binding site [ion binding]; other site 562970002606 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 562970002607 catalytic loop [active] 562970002608 iron binding site [ion binding]; other site 562970002609 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 562970002610 dinuclear metal binding motif [ion binding]; other site 562970002611 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 562970002612 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 562970002613 dinuclear metal binding motif [ion binding]; other site 562970002614 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 562970002615 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 562970002616 Activator of aromatic catabolism; Region: XylR_N; pfam06505 562970002617 V4R domain; Region: V4R; cl08369 562970002618 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 562970002619 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 562970002620 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 562970002621 catalytic loop [active] 562970002622 iron binding site [ion binding]; other site 562970002623 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron...; Region: FNR_like; cl06868 562970002624 FAD binding pocket [chemical binding]; other site 562970002625 conserved FAD binding motif [chemical binding]; other site 562970002626 phosphate binding motif [ion binding]; other site 562970002627 beta-alpha-beta structure motif; other site 562970002628 NAD binding pocket [chemical binding]; other site 562970002629 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 562970002630 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 562970002631 NAD binding site [chemical binding]; other site 562970002632 catalytic residues [active] 562970002633 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 562970002634 acetaldehyde dehydrogenase; Validated; Region: PRK08300 562970002635 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970002636 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 562970002637 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 562970002638 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 562970002639 active site 562970002640 catalytic residues [active] 562970002641 metal binding site [ion binding]; metal-binding site 562970002642 DmpG-like communication domain; Region: DmpG_comm; pfam07836 562970002643 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 562970002644 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 562970002645 active site 1 [active] 562970002646 dimer interface [polypeptide binding]; other site 562970002647 hexamer interface [polypeptide binding]; other site 562970002648 active site 2 [active] 562970002649 Domain of unknown function (DUF336); Region: DUF336; cl01249 562970002650 Flavin Reductases; Region: FlaRed; cl00801 562970002651 Predicted amidohydrolase [General function prediction only]; Region: COG0388 562970002652 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_8; cd07586 562970002653 putative active site [active] 562970002654 catalytic triad [active] 562970002655 putative dimer interface [polypeptide binding]; other site 562970002656 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...; Region: NAD_synthase; cd00553 562970002657 homodimer interface [polypeptide binding]; other site 562970002658 NAD synthase; Region: NAD_synthase; pfam02540 562970002659 NAD binding pocket [chemical binding]; other site 562970002660 ATP binding pocket [chemical binding]; other site 562970002661 Mg binding site [ion binding]; other site 562970002662 active-site loop [active] 562970002663 Domain of unknown function DUF28; Region: DUF28; cl00361 562970002664 BofC C-terminal domain; Region: BofC_C; pfam08955 562970002665 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 562970002666 active site 562970002667 putative DNA-binding cleft [nucleotide binding]; other site 562970002668 dimer interface [polypeptide binding]; other site 562970002669 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 562970002670 RuvA N terminal domain; Region: RuvA_N; pfam01330 562970002671 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 562970002672 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 562970002673 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...; Region: AAA; cd00009 562970002674 Walker A motif; other site 562970002675 ATP binding site [chemical binding]; other site 562970002676 Walker B motif; other site 562970002677 arginine finger; other site 562970002678 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 562970002679 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 562970002680 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 562970002681 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 562970002682 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 562970002683 Transferrin; Region: Transferrin; cl02460 562970002684 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 562970002685 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 562970002686 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 562970002687 Preprotein translocase subunit; Region: YajC; cl00806 562970002688 Protein of unknown function (DUF3792); Region: DUF3792; cl14821 562970002689 Protein of unknown function (DUF421); Region: DUF421; cl00990 562970002690 stage V sporulation protein B; Region: spore_V_B; TIGR02900 562970002691 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 562970002692 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 562970002693 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 562970002694 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 562970002695 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 562970002696 synthetase active site [active] 562970002697 NTP binding site [chemical binding]; other site 562970002698 metal binding site [ion binding]; metal-binding site 562970002699 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...; Region: TGS_RelA_SpoT; cd01668 562970002700 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 562970002701 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...; Region: Dtyr_deacylase; cd00563 562970002702 putative active site [active] 562970002703 dimerization interface [polypeptide binding]; other site 562970002704 putative tRNAtyr binding site [nucleotide binding]; other site 562970002705 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 562970002706 Dienelactone hydrolase family; Region: DLH; pfam01738 562970002707 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 562970002708 putative ADP-ribose binding site [chemical binding]; other site 562970002709 putative active site [active] 562970002710 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 562970002711 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 562970002712 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970002713 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 562970002714 putative dimerization interface [polypeptide binding]; other site 562970002715 isocitrate lyase; Provisional; Region: PRK06498 562970002716 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 562970002717 tetramer interface [polypeptide binding]; other site 562970002718 active site 562970002719 Mg2+/Mn2+ binding site [ion binding]; other site 562970002720 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 562970002721 malate synthase A; Region: malate_syn_A; TIGR01344 562970002722 active site 562970002723 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 562970002724 malate synthase A; Region: malate_syn_A; TIGR01344 562970002725 active site 562970002726 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...; Region: PSAT_like; cd00611 562970002727 homodimer interface [polypeptide binding]; other site 562970002728 substrate-cofactor binding pocket; other site 562970002729 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970002730 catalytic residue [active] 562970002731 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 562970002732 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 562970002733 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970002734 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 562970002735 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 562970002736 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 562970002737 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...; Region: DnaE_OBF; cd04485 562970002738 generic binding surface I; other site 562970002739 generic binding surface II; other site 562970002740 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 562970002741 Y-family of DNA polymerases; Region: PolY; cl12025 562970002742 active site 562970002743 DNA binding site [nucleotide binding] 562970002744 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 562970002745 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 562970002746 Beta-lactamase; Region: Beta-lactamase; cl01009 562970002747 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 562970002748 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 562970002749 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 562970002750 catalytic residue [active] 562970002751 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 562970002752 classical (c) SDRs; Region: SDR_c; cd05233 562970002753 NAD(P) binding site [chemical binding]; other site 562970002754 active site 562970002755 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 562970002756 tetratricopeptide repeat protein; Provisional; Region: PRK11788 562970002757 tetratricopeptide repeat protein; Provisional; Region: PRK11788 562970002758 Dehydratase family; Region: ILVD_EDD; cl00340 562970002759 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 562970002760 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 562970002761 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...; Region: Sigma70_r4; cl01055 562970002762 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 562970002763 putative peptidoglycan binding site; other site 562970002764 3D domain; Region: 3D; cl01439 562970002765 Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818 562970002766 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...; Region: 4HBT; cd00586 562970002767 active site 562970002768 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 562970002769 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 562970002770 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase_D_4; cd05828 562970002771 active site 562970002772 catalytic site [active] 562970002773 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 562970002774 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 562970002775 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 562970002776 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 562970002777 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 562970002778 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 562970002779 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 562970002780 S-layer homology domain; Region: SLH; pfam00395 562970002781 S-layer homology domain; Region: SLH; pfam00395 562970002782 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 562970002783 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT), serine-...; Region: AGAT_like; cd06451 562970002784 homodimer interface [polypeptide binding]; other site 562970002785 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970002786 catalytic residue [active] 562970002787 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...; Region: Nudix_Hydrolase; cl00447 562970002788 nudix motif; other site 562970002789 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 562970002790 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 562970002791 NAD binding site [chemical binding]; other site 562970002792 homotetramer interface [polypeptide binding]; other site 562970002793 homodimer interface [polypeptide binding]; other site 562970002794 substrate binding site [chemical binding]; other site 562970002795 active site 562970002796 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 562970002797 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970002798 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 562970002799 short chain dehydrogenase; Provisional; Region: PRK07677 562970002800 NAD(P) binding site [chemical binding]; other site 562970002801 substrate binding site [chemical binding]; other site 562970002802 homotetramer interface [polypeptide binding]; other site 562970002803 active site 562970002804 homodimer interface [polypeptide binding]; other site 562970002805 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 562970002806 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 562970002807 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...; Region: MM_CoA_mut_B12_BD; cd02071 562970002808 B12 binding site [chemical binding]; other site 562970002809 cobalt ligand [ion binding]; other site 562970002810 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 562970002811 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 562970002812 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of methylmalonyl-; Region: MM_CoA_mutase; cl00817 562970002813 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 562970002814 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 562970002815 dimer interface [polypeptide binding]; other site 562970002816 active site 562970002817 AMP-binding domain protein; Validated; Region: PRK08315 562970002818 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970002819 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 562970002820 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970002821 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 562970002822 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 562970002823 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 562970002824 substrate binding site [chemical binding]; other site 562970002825 oxyanion hole (OAH) forming residues; other site 562970002826 trimer interface [polypeptide binding]; other site 562970002827 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 562970002828 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 562970002829 dimer interface [polypeptide binding]; other site 562970002830 active site 562970002831 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 562970002832 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 562970002833 active site 562970002834 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...; Region: LuxR_C_like; cd06170 562970002835 DNA binding residues [nucleotide binding] 562970002836 dimerization interface [polypeptide binding]; other site 562970002837 SCP-2 sterol transfer family; Region: SCP2; cl01225 562970002838 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 2; Region: FDH_like_2; cd08284 562970002839 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 562970002840 catalytic Zn binding site [ion binding]; other site 562970002841 NAD(P) binding site [chemical binding]; other site 562970002842 structural Zn binding site [ion binding]; other site 562970002843 Ribonucleotide Reductase R2-like protein, Mn/Fe-binding domain; Region: RNRR2_Rv0233_like; cd07911 562970002844 active site 562970002845 diiron metal binding site [ion binding]; other site 562970002846 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 562970002847 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 562970002848 NAD(P) binding site [chemical binding]; other site 562970002849 catalytic residues [active] 562970002850 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 562970002851 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 562970002852 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 562970002853 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 562970002854 Coenzyme A binding pocket [chemical binding]; other site 562970002855 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...; Region: TM_PBP2; cd06261 562970002856 dimer interface [polypeptide binding]; other site 562970002857 conserved gate region; other site 562970002858 ABC-ATPase subunit interface; other site 562970002859 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 562970002860 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970002861 Walker A/P-loop; other site 562970002862 ATP binding site [chemical binding]; other site 562970002863 Q-loop/lid; other site 562970002864 ABC transporter signature motif; other site 562970002865 Walker B; other site 562970002866 D-loop; other site 562970002867 H-loop/switch region; other site 562970002868 TOBE domain; Region: TOBE_2; cl01440 562970002869 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 562970002870 active site 562970002871 metal binding site [ion binding]; metal-binding site 562970002872 Sporulation related domain; Region: SPOR; cl10051 562970002873 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 562970002874 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 562970002875 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 562970002876 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 562970002877 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 562970002878 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 562970002879 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 562970002880 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 562970002881 NifU-like domain; Region: NifU; cl00484 562970002882 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 562970002883 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 562970002884 inhibitor-cofactor binding pocket; inhibition site 562970002885 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970002886 catalytic residue [active] 562970002887 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 562970002888 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 562970002889 active site 562970002890 phosphorylation site [posttranslational modification] 562970002891 intermolecular recognition site; other site 562970002892 dimerization interface [polypeptide binding]; other site 562970002893 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...; Region: trans_reg_C; cd00383 562970002894 DNA binding site [nucleotide binding] 562970002895 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 562970002896 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 562970002897 active site 562970002898 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 562970002899 homodimer interface [polypeptide binding]; other site 562970002900 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 562970002901 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars...; Region: ABC_NrtD_SsuB_transporters; cd03293 562970002902 Walker A/P-loop; other site 562970002903 ATP binding site [chemical binding]; other site 562970002904 Q-loop/lid; other site 562970002905 ABC transporter signature motif; other site 562970002906 Walker B; other site 562970002907 D-loop; other site 562970002908 H-loop/switch region; other site 562970002909 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 562970002910 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...; Region: TM_PBP2; cd06261 562970002911 dimer interface [polypeptide binding]; other site 562970002912 conserved gate region; other site 562970002913 putative PBP binding loops; other site 562970002914 ABC-ATPase subunit interface; other site 562970002915 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 562970002916 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 562970002917 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 562970002918 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 562970002919 dimer interface [polypeptide binding]; other site 562970002920 motif 1; other site 562970002921 active site 562970002922 motif 2; other site 562970002923 motif 3; other site 562970002924 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 562970002925 anticodon binding site; other site 562970002926 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 562970002927 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 562970002928 dimer interface [polypeptide binding]; other site 562970002929 anticodon binding site; other site 562970002930 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 562970002931 homodimer interface [polypeptide binding]; other site 562970002932 motif 1; other site 562970002933 active site 562970002934 motif 2; other site 562970002935 GAD domain; Region: GAD; pfam02938 562970002936 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 562970002937 motif 3; other site 562970002938 recombination factor protein RarA; Reviewed; Region: PRK13342 562970002939 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...; Region: AAA; cd00009 562970002940 Walker A motif; other site 562970002941 ATP binding site [chemical binding]; other site 562970002942 Walker B motif; other site 562970002943 arginine finger; other site 562970002944 MgsA AAA+ ATPase C terminal; Region: MgsA_C; cl13440 562970002945 Predicted transcriptional regulator [Transcription]; Region: COG1959 562970002946 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970002947 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 562970002948 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 562970002949 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 562970002950 catalytic residue [active] 562970002951 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 562970002952 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 562970002953 Ligand Binding Site [chemical binding]; other site 562970002954 SPW repeat; Region: SPW; pfam03779 562970002955 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 562970002956 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 562970002957 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 562970002958 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 562970002959 catalytic loop [active] 562970002960 iron binding site [ion binding]; other site 562970002961 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 562970002962 4Fe-4S binding domain; Region: Fer4; cl02805 562970002963 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)...; Region: MopB_Formate-Dh-H; cd02753 562970002964 [4Fe-4S] binding site [ion binding]; other site 562970002965 molybdopterin cofactor binding site; other site 562970002966 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 562970002967 molybdopterin cofactor binding site; other site 562970002968 Protein of unknown function (DUF1641); Region: DUF1641; cl01025 562970002969 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 562970002970 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 562970002971 dimer interface [polypeptide binding]; other site 562970002972 putative functional site; other site 562970002973 putative MPT binding site; other site 562970002974 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 562970002975 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 562970002976 GTP binding site [chemical binding]; other site 562970002977 UbiA prenyltransferase family; Region: UbiA; cl00337 562970002978 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 562970002979 Domain of unknown function DUF20; Region: UPF0118; cl00465 562970002980 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 562970002981 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: AlaRS_core; cd00673 562970002982 motif 1; other site 562970002983 active site 562970002984 motif 2; other site 562970002985 motif 3; other site 562970002986 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 562970002987 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 562970002988 DNA binding residues [nucleotide binding] 562970002989 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 562970002990 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 562970002991 catalytic residues [active] 562970002992 catalytic nucleophile [active] 562970002993 Probable transposase; Region: OrfB_IS605; pfam01385 562970002994 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 562970002995 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 562970002996 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 562970002997 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 562970002998 active site 562970002999 NTP binding site [chemical binding]; other site 562970003000 metal binding triad [ion binding]; metal-binding site 562970003001 HEPN domain; Region: HEPN; cl00824 562970003002 aminodeoxychorismate synthase; Provisional; Region: PRK07508 562970003003 chorismate binding enzyme; Region: Chorismate_bind; cl10555 562970003004 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 562970003005 homodimer interface [polypeptide binding]; other site 562970003006 substrate-cofactor binding pocket; other site 562970003007 Aminotransferase class IV; Region: Aminotran_4; pfam01063 562970003008 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970003009 catalytic residue [active] 562970003010 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 562970003011 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...; Region: AAA; cd00009 562970003012 Walker A motif; other site 562970003013 ATP binding site [chemical binding]; other site 562970003014 Walker B motif; other site 562970003015 arginine finger; other site 562970003016 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 562970003017 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 562970003018 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 562970003019 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 562970003020 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 562970003021 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; cl01902 562970003022 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 562970003023 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 562970003024 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970003025 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 562970003026 GAF domain; Region: GAF; cl00853 562970003027 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...; Region: AAA; cd00009 562970003028 Walker A motif; other site 562970003029 ATP binding site [chemical binding]; other site 562970003030 Walker B motif; other site 562970003031 arginine finger; other site 562970003032 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 562970003033 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 562970003034 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 562970003035 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 562970003036 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 562970003037 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; cl01902 562970003038 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 562970003039 putative peptidoglycan binding site; other site 562970003040 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 562970003041 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 562970003042 putative peptidoglycan binding site; other site 562970003043 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 562970003044 putative peptidoglycan binding site; other site 562970003045 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 562970003046 heme-binding site [chemical binding]; other site 562970003047 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 562970003048 diguanylate cyclase; Provisional; Region: PRK09894 562970003049 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 562970003050 DNA binding residues [nucleotide binding] 562970003051 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 562970003052 active site 562970003053 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970003054 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 562970003055 sulfite reductase subunit beta; Provisional; Region: PRK13504 562970003056 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 562970003057 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 562970003058 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 562970003059 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 562970003060 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970003061 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 562970003062 Acylphosphatase; Region: Acylphosphatase; cl00551 562970003063 Protein of unknown function (DUF421); Region: DUF421; cl00990 562970003064 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 562970003065 active site 562970003066 dimerization interface [polypeptide binding]; other site 562970003067 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 562970003068 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 562970003069 nucleophile elbow; other site 562970003070 YceG-like family; Region: YceG; pfam02618 562970003071 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 562970003072 dimerization interface [polypeptide binding]; other site 562970003073 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 562970003074 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage...; Region: UMPK; cd02023 562970003075 ATP-binding site [chemical binding]; other site 562970003076 Sugar specificity; other site 562970003077 Pyrimidine base specificity; other site 562970003078 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 562970003079 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 562970003080 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 562970003081 Multicopper oxidase; Region: Cu-oxidase; cl14658 562970003082 Multicopper oxidase; Region: Cu-oxidase; cl14658 562970003083 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 562970003084 active site 562970003085 NTP binding site [chemical binding]; other site 562970003086 metal binding triad [ion binding]; metal-binding site 562970003087 antibiotic binding site [chemical binding]; other site 562970003088 HEPN domain; Region: HEPN; cl00824 562970003089 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 562970003090 Telomeric repeat-binding factor 2; Region: TRF2; pfam11611 562970003091 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is...; Region: Trunc_globin; cd00454 562970003092 apolar tunnel; other site 562970003093 heme binding site [chemical binding]; other site 562970003094 dimerization interface [polypeptide binding]; other site 562970003095 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 562970003096 [2Fe-2S] cluster binding site [ion binding]; other site 562970003097 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 562970003098 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 562970003099 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 562970003100 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 562970003101 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 oxidation via a membrane-anchored...; Region: MopB_Nitrate-R-NapA-like; cd02754 562970003102 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 562970003103 [4Fe-4S] binding site [ion binding]; other site 562970003104 molybdopterin cofactor binding site; other site 562970003105 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...; Region: MopB_CT_Fdh-Nap-like; cd00508 562970003106 molybdopterin cofactor binding site; other site 562970003107 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 562970003108 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 562970003109 putative substrate translocation pore; other site 562970003110 ANTAR domain; Region: ANTAR; pfam03861 562970003111 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 562970003112 Anthranilate phosphoribosyltransferase [Amino acid transport and metabolism]; Region: TrpD; COG0547 562970003113 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 562970003114 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 562970003115 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 562970003116 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 562970003117 sporulation sigma factor SigK; Reviewed; Region: PRK05803 562970003118 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 562970003119 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...; Region: Sigma70_r4; cd06171 562970003120 DNA binding residues [nucleotide binding] 562970003121 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 562970003122 CoenzymeA binding site [chemical binding]; other site 562970003123 subunit interaction site [polypeptide binding]; other site 562970003124 PHB binding site; other site 562970003125 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 562970003126 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 562970003127 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 562970003128 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 562970003129 active site 562970003130 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 562970003131 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: ACAD10_11_like; cd05154 562970003132 putative active site [active] 562970003133 putative substrate binding site [chemical binding]; other site 562970003134 ATP binding site [chemical binding]; other site 562970003135 Histidine kinase; Region: HisKA_3; pfam07730 562970003136 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 562970003137 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 562970003138 active site 562970003139 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 562970003140 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 562970003141 putative metal binding site [ion binding]; other site 562970003142 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 562970003143 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 562970003144 putative metal binding site [ion binding]; other site 562970003145 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 562970003146 binding surface 562970003147 TPR motif; other site 562970003148 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 562970003149 putative metal binding site [ion binding]; other site 562970003150 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 562970003151 binding surface 562970003152 TPR motif; other site 562970003153 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...; Region: GltS_FMN; cd02808 562970003154 active site 562970003155 FMN binding site [chemical binding]; other site 562970003156 substrate binding site [chemical binding]; other site 562970003157 3Fe-4S cluster binding site [ion binding]; other site 562970003158 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 562970003159 dinuclear metal binding motif [ion binding]; other site 562970003160 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 562970003161 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 562970003162 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 562970003163 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 562970003164 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 562970003165 active site 562970003166 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 562970003167 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970003168 NAD(P) binding site [chemical binding]; other site 562970003169 active site 562970003170 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 562970003171 Substrate binding site [chemical binding]; other site 562970003172 metal binding site [ion binding]; metal-binding site 562970003173 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 562970003174 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 562970003175 NAD binding site [chemical binding]; other site 562970003176 substrate binding site [chemical binding]; other site 562970003177 active site 562970003178 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 562970003179 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970003180 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 562970003181 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 562970003182 active site 562970003183 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 562970003184 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 562970003185 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 562970003186 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 562970003187 active site 562970003188 motif I; other site 562970003189 motif II; other site 562970003190 ribosome biogenesis GTPase YqeH; Region: GTPase_YqeH; TIGR03597 562970003191 YqeH. YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically...; Region: YqeH; cd01855 562970003192 GTP/Mg2+ binding site [chemical binding]; other site 562970003193 G4 box; other site 562970003194 G5 box; other site 562970003195 G1 box; other site 562970003196 Switch I region; other site 562970003197 G2 box; other site 562970003198 G3 box; other site 562970003199 Switch II region; other site 562970003200 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 562970003201 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 562970003202 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 562970003203 shikimate binding site; other site 562970003204 NAD(P) binding site [chemical binding]; other site 562970003205 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 562970003206 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 562970003207 active site 562970003208 (T/H)XGH motif; other site 562970003209 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 562970003210 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 562970003211 Domain of unknown function DUF143; Region: DUF143; cl00519 562970003212 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 562970003213 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 562970003214 HIGH motif; other site 562970003215 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 562970003216 active site 562970003217 KMSKS motif; other site 562970003218 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 562970003219 tRNA binding surface [nucleotide binding]; other site 562970003220 manganese transport transcriptional regulator; Provisional; Region: PRK03902 562970003221 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970003222 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 562970003223 SLBB domain; Region: SLBB; pfam10531 562970003224 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 562970003225 Competence protein; Region: Competence; cl00471 562970003226 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 562970003227 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 562970003228 putative DNA binding site [nucleotide binding]; other site 562970003229 putative homodimer interface [polypeptide binding]; other site 562970003230 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 562970003231 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 562970003232 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 562970003233 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 562970003234 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 562970003235 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 562970003236 Germination protease; Region: Peptidase_A25; cl04057 562970003237 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 562970003238 stage II sporulation protein P; Region: spore_II_P; TIGR02867 562970003239 GTP-binding protein LepA; Provisional; Region: PRK05433 562970003240 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 562970003241 G1 box; other site 562970003242 putative GEF interaction site [polypeptide binding]; other site 562970003243 GTP/Mg2+ binding site [chemical binding]; other site 562970003244 Switch I region; other site 562970003245 G2 box; other site 562970003246 G3 box; other site 562970003247 Switch II region; other site 562970003248 G4 box; other site 562970003249 G5 box; other site 562970003250 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-...; Region: lepA_II; cd03699 562970003251 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 562970003252 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 562970003253 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 562970003254 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 562970003255 FeS/SAM binding site; other site 562970003256 HemN C-terminal region; Region: HemN_C; pfam06969 562970003257 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 562970003258 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970003259 HrcA protein C terminal domain; Region: HrcA; pfam01628 562970003260 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 562970003261 dimer interface [polypeptide binding]; other site 562970003262 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 562970003263 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 562970003264 chaperone protein DnaJ; Provisional; Region: PRK10767 562970003265 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...; Region: DnaJ; cd06257 562970003266 HSP70 interaction site [polypeptide binding]; other site 562970003267 DnaJ central domain; Region: DnaJ_CXXCXGXG; cl14908 562970003268 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 562970003269 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 562970003270 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 562970003271 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; cl12011 562970003272 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 562970003273 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 562970003274 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 562970003275 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 562970003276 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 562970003277 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 562970003278 Phenylacetic acid degradation B; Region: PaaB; cl01371 562970003279 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 562970003280 Domain of unknown function DUF59; Region: DUF59; cl00941 562970003281 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 562970003282 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 562970003283 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 562970003284 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 562970003285 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970003286 EthD protein; Region: EthD; cl06234 562970003287 enoyl-CoA hydratase; Provisional; Region: PRK08140 562970003288 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 562970003289 substrate binding site [chemical binding]; other site 562970003290 oxyanion hole (OAH) forming residues; other site 562970003291 trimer interface [polypeptide binding]; other site 562970003292 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 562970003293 CoenzymeA binding site [chemical binding]; other site 562970003294 subunit interaction site [polypeptide binding]; other site 562970003295 PHB binding site; other site 562970003296 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 562970003297 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 562970003298 NAD(P) binding site [chemical binding]; other site 562970003299 catalytic residues [active] 562970003300 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 562970003301 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 562970003302 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 562970003303 dimer interface [polypeptide binding]; other site 562970003304 active site 562970003305 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK09260 562970003306 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970003307 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 562970003308 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 562970003309 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 562970003310 active site 562970003311 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970003312 Transcriptional regulator [Transcription]; Region: IclR; COG1414 562970003313 Bacterial transcriptional regulator; Region: IclR; pfam01614 562970003314 ST7 protein; Region: ST7; pfam04184 562970003315 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 562970003316 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 562970003317 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 562970003318 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 562970003319 FeS/SAM binding site; other site 562970003320 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 562970003321 active site 562970003322 Ap6A binding site [chemical binding]; other site 562970003323 nudix motif; other site 562970003324 metal binding site [ion binding]; metal-binding site 562970003325 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 562970003326 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 562970003327 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 562970003328 PUA domain; Region: PUA; cl00607 562970003329 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 562970003330 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 562970003331 S-adenosylmethionine binding site [chemical binding]; other site 562970003332 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 562970003333 MOSC domain; Region: MOSC; pfam03473 562970003334 3-alpha domain; Region: 3-alpha; pfam03475 562970003335 Transcriptional regulators [Transcription]; Region: GntR; COG1802 562970003336 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 562970003337 DNA-binding site [nucleotide binding]; DNA binding site 562970003338 FCD domain; Region: FCD; cl11656 562970003339 Domain of unknown function (DUF427); Region: DUF427; cl00998 562970003340 TIGR03440 family protein; Region: unchr_TIGR03440 562970003341 DinB superfamily; Region: DinB_2; cl00986 562970003342 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 562970003343 probable methyltransferase; Region: TIGR03438 562970003344 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 562970003345 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 562970003346 putative active site [active] 562970003347 putative catalytic site [active] 562970003348 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 562970003349 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 562970003350 NAD(P) binding site [chemical binding]; other site 562970003351 homotetramer interface [polypeptide binding]; other site 562970003352 homodimer interface [polypeptide binding]; other site 562970003353 active site 562970003354 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 562970003355 DUF35 OB-fold domain; Region: DUF35; pfam01796 562970003356 thiolase; Provisional; Region: PRK06158 562970003357 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal 3-ketacyl-; Region: SCP-x_thiolase; cd00829 562970003358 active site 562970003359 CoA-transferase family III; Region: CoA_transf_3; cl00778 562970003360 MoaC_like Similar to the MaoC (monoamine oxidase C) dehydratase regulatory protein but without the N-terminal PutA domain. This protein family has a hot-dog fold similar to that of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-...; Region: MaoC_like; cd03446 562970003361 homodimer interaction site [polypeptide binding]; other site 562970003362 putative active site [active] 562970003363 putative catalytic site [active] 562970003364 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 562970003365 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 562970003366 enoyl-CoA hydratase; Provisional; Region: PRK07657 562970003367 substrate binding site [chemical binding]; other site 562970003368 oxyanion hole (OAH) forming residues; other site 562970003369 trimer interface [polypeptide binding]; other site 562970003370 CoA-transferase family III; Region: CoA_transf_3; cl00778 562970003371 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 562970003372 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 562970003373 active site 562970003374 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 562970003375 active site 562970003376 catalytic residues [active] 562970003377 metal binding site [ion binding]; metal-binding site 562970003378 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 562970003379 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970003380 NAD(P) binding site [chemical binding]; other site 562970003381 active site 562970003382 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 562970003383 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 562970003384 active site 562970003385 FMN binding site [chemical binding]; other site 562970003386 2,4-decadienoyl-CoA binding site; other site 562970003387 catalytic residue [active] 562970003388 4Fe-4S cluster binding site [ion binding]; other site 562970003389 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 562970003390 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 562970003391 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 562970003392 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970003393 cyclohexanecarboxyl-CoA dehydrogenase; Region: cyc_hxne_CoA_dh; TIGR03207 562970003394 Transposase; Region: DEDD_Tnp_IS110; pfam01548 562970003395 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 562970003396 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 562970003397 dihydroxynaphthoic acid synthetase; Validated; Region: PRK07396 562970003398 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 562970003399 substrate binding site [chemical binding]; other site 562970003400 oxyanion hole (OAH) forming residues; other site 562970003401 trimer interface [polypeptide binding]; other site 562970003402 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 562970003403 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970003404 NAD(P) binding site [chemical binding]; other site 562970003405 active site 562970003406 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 562970003407 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 562970003408 active site 562970003409 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 562970003410 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 562970003411 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 562970003412 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 562970003413 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 562970003414 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 562970003415 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970003416 GAF domain; Region: GAF; cl00853 562970003417 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 562970003418 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...; Region: AAA; cd00009 562970003419 Walker A motif; other site 562970003420 ATP binding site [chemical binding]; other site 562970003421 Walker B motif; other site 562970003422 arginine finger; other site 562970003423 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 562970003424 Hypothetical enzyme TM0436 resembles the zinc-dependent alcohol dehydrogenases (ADH); Region: MDR_TM0436_like; cd08231 562970003425 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 562970003426 catalytic Zn binding site [ion binding]; other site 562970003427 structural Zn binding site [ion binding]; other site 562970003428 tetramer interface [polypeptide binding]; other site 562970003429 Flavin Reductases; Region: FlaRed; cl00801 562970003430 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 562970003431 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 562970003432 active site 562970003433 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 562970003434 enoyl-CoA hydratase; Provisional; Region: PRK06688 562970003435 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 562970003436 substrate binding site [chemical binding]; other site 562970003437 oxyanion hole (OAH) forming residues; other site 562970003438 trimer interface [polypeptide binding]; other site 562970003439 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 562970003440 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 562970003441 NAD(P) binding site [chemical binding]; other site 562970003442 catalytic residues [active] 562970003443 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970003444 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 562970003445 NAD(P) binding site [chemical binding]; other site 562970003446 active site 562970003447 Chlorite dismutase; Region: Chlor_dismutase; cl01280 562970003448 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 562970003449 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic...; Region: PRX_Typ2cys; cd03015 562970003450 dimer interface [polypeptide binding]; other site 562970003451 decamer (pentamer of dimers) interface [polypeptide binding]; other site 562970003452 catalytic triad [active] 562970003453 peroxidatic and resolving cysteines [active] 562970003454 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 562970003455 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 562970003456 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 562970003457 Probable transposase; Region: OrfB_IS605; pfam01385 562970003458 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970003459 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 562970003460 DNA binding residues [nucleotide binding] 562970003461 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; cl02788 562970003462 cysteine synthases; Region: cysKM; TIGR01136 562970003463 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 562970003464 dimer interface [polypeptide binding]; other site 562970003465 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970003466 catalytic residue [active] 562970003467 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 562970003468 Major Facilitator Superfamily; Region: MFS_1; pfam07690 562970003469 putative substrate translocation pore; other site 562970003470 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 562970003471 putative acyl-acceptor binding pocket; other site 562970003472 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 562970003473 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of...; Region: ThiF_MoeB_HesA_family; cd00757 562970003474 ATP binding site [chemical binding]; other site 562970003475 substrate interface [chemical binding]; other site 562970003476 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...; Region: MoaC_PE; cd01420 562970003477 trimer interface [polypeptide binding]; other site 562970003478 dimer interface [polypeptide binding]; other site 562970003479 putative active site [active] 562970003480 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 562970003481 MPT binding site; other site 562970003482 trimer interface [polypeptide binding]; other site 562970003483 Protein of unknown function (DUF2627); Region: DUF2627; pfam11118 562970003484 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 562970003485 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 562970003486 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 562970003487 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...; Region: AAA; cd00009 562970003488 Walker A motif; other site 562970003489 ATP binding site [chemical binding]; other site 562970003490 Walker B motif; other site 562970003491 arginine finger; other site 562970003492 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 562970003493 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 562970003494 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 562970003495 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 562970003496 NAD binding site [chemical binding]; other site 562970003497 Phe binding site; other site 562970003498 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 562970003499 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 562970003500 tetramer interface [polypeptide binding]; other site 562970003501 TPP-binding site [chemical binding]; other site 562970003502 heterodimer interface [polypeptide binding]; other site 562970003503 phosphorylation loop region [posttranslational modification] 562970003504 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 562970003505 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 562970003506 alpha subunit interface [polypeptide binding]; other site 562970003507 TPP binding site [chemical binding]; other site 562970003508 heterodimer interface [polypeptide binding]; other site 562970003509 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 562970003510 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 562970003511 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 562970003512 E3 interaction surface; other site 562970003513 lipoyl attachment site [posttranslational modification]; other site 562970003514 e3 binding domain; Region: E3_binding; pfam02817 562970003515 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 562970003516 lipoyl synthase; Provisional; Region: PRK05481 562970003517 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 562970003518 FeS/SAM binding site; other site 562970003519 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 562970003520 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...; Region: MM_CoA_mut_B12_BD; cd02071 562970003521 B12 binding site [chemical binding]; other site 562970003522 cobalt ligand [ion binding]; other site 562970003523 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 562970003524 dimer interface [polypeptide binding]; other site 562970003525 substrate binding site [chemical binding]; other site 562970003526 metal binding site [ion binding]; metal-binding site 562970003527 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 562970003528 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 562970003529 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 562970003530 M28, and M42; Region: Zinc_peptidase_like; cl14876 562970003531 peptidase T-like protein; Region: PepT-like; TIGR01883 562970003532 metal binding site [ion binding]; metal-binding site 562970003533 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...; Region: ADPRase_NUDT5; cd03424 562970003534 dimer interface [polypeptide binding]; other site 562970003535 ADP-ribose binding site [chemical binding]; other site 562970003536 active site 562970003537 nudix motif; other site 562970003538 metal binding site [ion binding]; metal-binding site 562970003539 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 562970003540 Integral membrane protein DUF95; Region: DUF95; cl00572 562970003541 RNHCP domain; Region: RNHCP; pfam12647 562970003542 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 562970003543 metal binding site 2 [ion binding]; metal-binding site 562970003544 putative DNA binding helix; other site 562970003545 metal binding site 1 [ion binding]; metal-binding site 562970003546 dimer interface [polypeptide binding]; other site 562970003547 structural Zn2+ binding site [ion binding]; other site 562970003548 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 562970003549 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 562970003550 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970003551 NAD(P) binding pocket [chemical binding]; other site 562970003552 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 of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 562970003553 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 562970003554 Int/Topo IB signature motif; other site 562970003555 active site 562970003556 Sulfatase; Region: Sulfatase; cl10460 562970003557 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 562970003558 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 562970003559 Beta-lactamase; Region: Beta-lactamase; cl01009 562970003560 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 562970003561 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 562970003562 drug efflux system protein MdtG; Provisional; Region: PRK09874 562970003563 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 562970003564 putative substrate translocation pore; other site 562970003565 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 562970003566 lipoprotein signal peptidase; Provisional; Region: PRK14787 562970003567 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 562970003568 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 562970003569 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 562970003570 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 562970003571 active site 562970003572 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 562970003573 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 562970003574 aspartate carbamoyltransferase; Region: PLN02527 562970003575 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 562970003576 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 562970003577 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 562970003578 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 562970003579 catalytic site [active] 562970003580 subunit interface [polypeptide binding]; other site 562970003581 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 562970003582 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 562970003583 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 562970003584 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 562970003585 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 562970003586 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 562970003587 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 562970003588 IMP binding site; other site 562970003589 dimer interface [polypeptide binding]; other site 562970003590 interdomain contacts; other site 562970003591 partial ornithine binding site; other site 562970003592 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 562970003593 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 562970003594 FAD binding pocket [chemical binding]; other site 562970003595 FAD binding motif [chemical binding]; other site 562970003596 phosphate binding motif [ion binding]; other site 562970003597 beta-alpha-beta structure motif; other site 562970003598 NAD binding pocket [chemical binding]; other site 562970003599 Iron coordination center [ion binding]; other site 562970003600 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 562970003601 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 562970003602 heterodimer interface [polypeptide binding]; other site 562970003603 active site 562970003604 FMN binding site [chemical binding]; other site 562970003605 homodimer interface [polypeptide binding]; other site 562970003606 substrate binding site [chemical binding]; other site 562970003607 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 562970003608 active site 562970003609 dimer interface [polypeptide binding]; other site 562970003610 allantoate amidohydrolase; Reviewed; Region: PRK09290 562970003611 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 562970003612 active site 562970003613 metal binding site [ion binding]; metal-binding site 562970003614 dimer interface [polypeptide binding]; other site 562970003615 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 562970003616 FAD binding pocket [chemical binding]; other site 562970003617 FAD binding motif [chemical binding]; other site 562970003618 phosphate binding motif [ion binding]; other site 562970003619 beta-alpha-beta structure motif; other site 562970003620 NAD binding pocket [chemical binding]; other site 562970003621 Iron coordination center [ion binding]; other site 562970003622 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 562970003623 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 562970003624 heterodimer interface [polypeptide binding]; other site 562970003625 active site 562970003626 FMN binding site [chemical binding]; other site 562970003627 homodimer interface [polypeptide binding]; other site 562970003628 substrate binding site [chemical binding]; other site 562970003629 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 562970003630 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 562970003631 benzoate transport; Region: 2A0115; TIGR00895 562970003632 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 562970003633 putative substrate translocation pore; other site 562970003634 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 562970003635 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...; Region: metallo-dependent_hydrolases; cl00281 562970003636 active site 562970003637 Transposase IS200 like; Region: Y1_Tnp; cl00848 562970003638 MutS domain III; Region: MutS_III; pfam05192 562970003639 putative transposase; Provisional; Region: PHA02942 562970003640 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 562970003641 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970003642 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 562970003643 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 562970003644 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 deoxyribose-1-...; Region: PGM2; cd05799 562970003645 active site 562970003646 substrate binding site [chemical binding]; other site 562970003647 metal binding site [ion binding]; metal-binding site 562970003648 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 562970003649 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970003650 NAD(P) binding site [chemical binding]; other site 562970003651 active site 562970003652 Transposase domain (DUF772); Region: DUF772; cl12084 562970003653 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 562970003654 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 562970003655 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 562970003656 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09679 562970003657 CRISPR-associated protein Cas10/Cmr2, subtype III-B; Region: cas_TM1794_Cmr2; TIGR02577 562970003658 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cl12075 562970003659 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 562970003660 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 562970003661 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cd09749 562970003662 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 562970003663 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09732 562970003664 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl14784 562970003665 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 562970003666 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 562970003667 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 562970003668 Probable transposase; Region: OrfB_IS605; pfam01385 562970003669 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970003670 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 562970003671 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 562970003672 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 562970003673 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 562970003674 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 562970003675 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...; Region: AAA; cd00009 562970003676 Walker A motif; other site 562970003677 ATP binding site [chemical binding]; other site 562970003678 Walker B motif; other site 562970003679 arginine finger; other site 562970003680 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 562970003681 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 562970003682 dimerization interface [polypeptide binding]; other site 562970003683 ligand binding site [chemical binding]; other site 562970003684 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 562970003685 TM-ABC transporter signature motif; other site 562970003686 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 562970003687 TM-ABC transporter signature motif; other site 562970003688 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 562970003689 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 562970003690 Walker A/P-loop; other site 562970003691 ATP binding site [chemical binding]; other site 562970003692 Q-loop/lid; other site 562970003693 ABC transporter signature motif; other site 562970003694 Walker B; other site 562970003695 D-loop; other site 562970003696 H-loop/switch region; other site 562970003697 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 562970003698 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 562970003699 Walker A/P-loop; other site 562970003700 ATP binding site [chemical binding]; other site 562970003701 Q-loop/lid; other site 562970003702 ABC transporter signature motif; other site 562970003703 Walker B; other site 562970003704 D-loop; other site 562970003705 H-loop/switch region; other site 562970003706 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 562970003707 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 562970003708 E3 interaction surface; other site 562970003709 lipoyl attachment site [posttranslational modification]; other site 562970003710 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 562970003711 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 562970003712 TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of 2-oxoglutarate to succinyl-CoA and carbon dioxide, a key reaction of...; Region: TPP_E1_OGDC_like; cd02016 562970003713 TPP-binding site [chemical binding]; other site 562970003714 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 562970003715 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 562970003716 Transposase; Region: DEDD_Tnp_IS110; pfam01548 562970003717 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 562970003718 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_cladeD; cd03379 562970003719 active site clefts [active] 562970003720 zinc binding site [ion binding]; other site 562970003721 dimer interface [polypeptide binding]; other site 562970003722 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 562970003723 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 562970003724 active site 562970003725 phosphorylation site [posttranslational modification] 562970003726 intermolecular recognition site; other site 562970003727 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...; Region: LuxR_C_like; cd06170 562970003728 DNA binding residues [nucleotide binding] 562970003729 dimerization interface [polypeptide binding]; other site 562970003730 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 562970003731 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 connected by an extended linker. The...; Region: HAMP; cl01054 562970003732 Histidine kinase; Region: HisKA_3; pfam07730 562970003733 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 562970003734 ATP binding site [chemical binding]; other site 562970003735 Mg2+ binding site [ion binding]; other site 562970003736 G-X-G motif; other site 562970003737 Predicted membrane protein (DUF2154); Region: DUF2154; cl12089 562970003738 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 562970003739 phage shock protein PspA; Provisional; Region: PRK10698 562970003740 PspC domain; Region: PspC; cl00864 562970003741 phage shock protein C; Region: phageshock_pspC; TIGR02978 562970003742 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 562970003743 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970003744 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 562970003745 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 562970003746 DNA binding residues [nucleotide binding] 562970003747 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 562970003748 catalytic residues [active] 562970003749 catalytic nucleophile [active] 562970003750 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 562970003751 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 562970003752 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 562970003753 S-adenosylmethionine binding site [chemical binding]; other site 562970003754 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...; Region: Sigma70_r4; cl01055 562970003755 Transposase; Region: DEDD_Tnp_IS110; pfam01548 562970003756 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 562970003757 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 562970003758 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme; Region: NifX_NifB; cl00252 562970003759 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 562970003760 active site 562970003761 catalytic motif [active] 562970003762 Zn binding site [ion binding]; other site 562970003763 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 562970003764 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 562970003765 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 562970003766 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 562970003767 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 562970003768 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the...; Region: HIT_like; cl00228 562970003769 nucleotide binding site/active site [active] 562970003770 HIT family signature motif; other site 562970003771 catalytic residue [active] 562970003772 Protein of unknown function (DUF990); Region: DUF990; cl01496 562970003773 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 562970003774 Protein of unknown function (DUF990); Region: DUF990; cl01496 562970003775 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 562970003776 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970003777 Walker A/P-loop; other site 562970003778 ATP binding site [chemical binding]; other site 562970003779 Q-loop/lid; other site 562970003780 ABC transporter signature motif; other site 562970003781 Walker B; other site 562970003782 D-loop; other site 562970003783 H-loop/switch region; other site 562970003784 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 562970003785 Domain of unknown function (DUF814); Region: DUF814; pfam05670 562970003786 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 562970003787 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 562970003788 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 562970003789 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 562970003790 motif II; other site 562970003791 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 562970003792 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 562970003793 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 562970003794 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 562970003795 hypothetical protein; Provisional; Region: PRK11820 562970003796 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 562970003797 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 562970003798 Domain of unknown function (DUF370); Region: DUF370; cl00898 562970003799 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...; Region: GMPK; cd00071 562970003800 catalytic site [active] 562970003801 G-X2-G-X-G-K; other site 562970003802 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 562970003803 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 562970003804 Flavoprotein; Region: Flavoprotein; cl08021 562970003805 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 562970003806 primosome assembly protein PriA; Validated; Region: PRK05580 562970003807 primosome assembly protein PriA; Validated; Region: PRK05580 562970003808 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 562970003809 ATP binding site [chemical binding]; other site 562970003810 putative Mg++ binding site [ion binding]; other site 562970003811 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; cl14882 562970003812 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(...; Region: Pep_deformylase; cd00487 562970003813 active site 562970003814 catalytic residues [active] 562970003815 metal binding site [ion binding]; metal-binding site 562970003816 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 562970003817 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 562970003818 putative active site [active] 562970003819 substrate binding site [chemical binding]; other site 562970003820 putative cosubstrate binding site; other site 562970003821 catalytic site [active] 562970003822 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 562970003823 substrate binding site [chemical binding]; other site 562970003824 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-...; Region: NusB_Sun; cl00223 562970003825 putative RNA binding site [nucleotide binding]; other site 562970003826 16S rRNA methyltransferase B; Provisional; Region: PRK14902 562970003827 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 562970003828 S-adenosylmethionine binding site [chemical binding]; other site 562970003829 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 562970003830 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 562970003831 FeS/SAM binding site; other site 562970003832 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 562970003833 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 562970003834 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 562970003835 Active site [active] 562970003836 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 562970003837 active site 562970003838 ATP binding site [chemical binding]; other site 562970003839 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 562970003840 substrate binding site [chemical binding]; other site 562970003841 activation loop (A-loop); other site 562970003842 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 562970003843 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 562970003844 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 562970003845 GTPase RsgA; Reviewed; Region: PRK00098 562970003846 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 562970003847 GTPase/OB domain interface [polypeptide binding]; other site 562970003848 GTPase/Zn-binding domain interface [polypeptide binding]; other site 562970003849 GTP/Mg2+ binding site [chemical binding]; other site 562970003850 G4 box; other site 562970003851 G5 box; other site 562970003852 G1 box; other site 562970003853 Switch I region; other site 562970003854 G2 box; other site 562970003855 G3 box; other site 562970003856 Switch II region; other site 562970003857 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 562970003858 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...; Region: RPE; cd00429 562970003859 substrate binding site [chemical binding]; other site 562970003860 hexamer interface [polypeptide binding]; other site 562970003861 metal binding site [ion binding]; metal-binding site 562970003862 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 562970003863 Protein of unknown function (DUF322); Region: DUF322; cl00574 562970003864 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 562970003865 DAK2 domain; Region: Dak2; cl03685 562970003866 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 562970003867 Y-family of DNA polymerases; Region: PolY; cl12025 562970003868 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 562970003869 ATP binding site [chemical binding]; other site 562970003870 putative Mg++ binding site [ion binding]; other site 562970003871 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 562970003872 nucleotide binding region [chemical binding]; other site 562970003873 ATP-binding site [chemical binding]; other site 562970003874 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; cl12011 562970003875 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 562970003876 active site 562970003877 (T/H)XGH motif; other site 562970003878 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 562970003879 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 562970003880 active site 562970003881 nucleophile elbow; other site 562970003882 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 562970003883 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 562970003884 protein binding site [polypeptide binding]; other site 562970003885 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 562970003886 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 562970003887 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 562970003888 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 562970003889 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 562970003890 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 562970003891 Acyl transferase domain; Region: Acyl_transf_1; cl08282 562970003892 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 562970003893 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 562970003894 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 562970003895 NAD(P) binding site [chemical binding]; other site 562970003896 homotetramer interface [polypeptide binding]; other site 562970003897 homodimer interface [polypeptide binding]; other site 562970003898 active site 562970003899 Phosphopantetheine attachment site; Region: PP-binding; cl09936 562970003900 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 562970003901 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 562970003902 dimer interface [polypeptide binding]; other site 562970003903 active site 562970003904 ribonuclease III; Reviewed; Region: rnc; PRK00102 562970003905 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 post-...; Region: RIBOc; cd00593 562970003906 dimerization interface [polypeptide binding]; other site 562970003907 active site 562970003908 metal binding site [ion binding]; metal-binding site 562970003909 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...; Region: DSRM; cd00048 562970003910 dsRNA binding site [nucleotide binding]; other site 562970003911 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 562970003912 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 562970003913 Walker A/P-loop; other site 562970003914 ATP binding site [chemical binding]; other site 562970003915 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 562970003916 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 562970003917 ABC transporter signature motif; other site 562970003918 Walker B; other site 562970003919 D-loop; other site 562970003920 H-loop/switch region; other site 562970003921 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 562970003922 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 562970003923 P loop; other site 562970003924 GTP binding site [chemical binding]; other site 562970003925 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...; Region: Sigma70_r4; cl01055 562970003926 signal recognition particle protein; Provisional; Region: PRK10867 562970003927 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 562970003928 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 562970003929 P loop; other site 562970003930 GTP binding site [chemical binding]; other site 562970003931 Signal peptide binding domain; Region: SRP_SPB; pfam02978 562970003932 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 562970003933 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 562970003934 RimM N-terminal domain; Region: RimM; pfam01782 562970003935 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 562970003936 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 562970003937 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 562970003938 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 562970003939 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 562970003940 Catalytic site [active] 562970003941 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 562970003942 YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases...; Region: YlqF; cd01856 562970003943 GTP/Mg2+ binding site [chemical binding]; other site 562970003944 G4 box; other site 562970003945 G5 box; other site 562970003946 G1 box; other site 562970003947 Switch I region; other site 562970003948 G2 box; other site 562970003949 G3 box; other site 562970003950 Switch II region; other site 562970003951 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 562970003952 RNA/DNA hybrid binding site [nucleotide binding]; other site 562970003953 active site 562970003954 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 562970003955 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 562970003956 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 562970003957 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 562970003958 Uncharacterised protein family (UPF0154); Region: UPF0154; cl01536 562970003959 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 562970003960 Ligand binding site [chemical binding]; other site 562970003961 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 562970003962 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 562970003963 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 562970003964 putative oxidoreductase FixC; Provisional; Region: PRK10157 562970003965 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 562970003966 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 562970003967 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 562970003968 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...; Region: AAA; cd00009 562970003969 Walker A motif; other site 562970003970 ATP binding site [chemical binding]; other site 562970003971 Walker B motif; other site 562970003972 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 562970003973 Ligand binding site [chemical binding]; other site 562970003974 Putative Catalytic site [active] 562970003975 DXD motif; other site 562970003976 GtrA-like protein; Region: GtrA; cl00971 562970003977 Mannosyltransferase (PIG-V)); Region: Mannosyl_trans2; cl02342 562970003978 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 562970003979 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970003980 3H domain; Region: 3H; pfam02829 562970003981 Quinolinate synthetase A protein; Region: NadA; cl00420 562970003982 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 562970003983 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 562970003984 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 562970003985 catalytic residue [active] 562970003986 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 connected by an extended linker. The...; Region: HAMP; cl01054 562970003987 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 562970003988 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 562970003989 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 562970003990 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 562970003991 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...; Region: AAA; cd00009 562970003992 Walker A motif; other site 562970003993 ATP binding site [chemical binding]; other site 562970003994 Walker B motif; other site 562970003995 arginine finger; other site 562970003996 Peptidase family M41; Region: Peptidase_M41; pfam01434 562970003997 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 562970003998 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 562970003999 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 562970004000 FeS/SAM binding site; other site 562970004001 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 562970004002 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 562970004003 tetramer interface [polypeptide binding]; other site 562970004004 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970004005 catalytic residue [active] 562970004006 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 562970004007 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 562970004008 CoA-ligase; Region: Ligase_CoA; pfam00549 562970004009 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 562970004010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970004011 CoA-ligase; Region: Ligase_CoA; pfam00549 562970004012 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 562970004013 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 562970004014 DNA topoisomerase I; Validated; Region: PRK05582 562970004015 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...; Region: TOPRIM_TopoIA_TopoI; cd03363 562970004016 active site 562970004017 interdomain interaction site; other site 562970004018 putative metal-binding site [ion binding]; other site 562970004019 nucleotide binding site [chemical binding]; other site 562970004020 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...; Region: TOP1Ac; cd00186 562970004021 domain I; other site 562970004022 DNA binding groove [nucleotide binding] 562970004023 phosphate binding site [ion binding]; other site 562970004024 domain II; other site 562970004025 domain III; other site 562970004026 nucleotide binding site [chemical binding]; other site 562970004027 catalytic site [active] 562970004028 domain IV; other site 562970004029 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 562970004030 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 562970004031 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 562970004032 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 562970004033 Glucose inhibited division protein A; Region: GIDA; pfam01134 562970004034 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 562970004035 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 of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 562970004036 Int/Topo IB signature motif; other site 562970004037 active site 562970004038 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 562970004039 active site 562970004040 HslU subunit interaction site [polypeptide binding]; other site 562970004041 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 562970004042 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970004043 Walker A motif; other site 562970004044 ATP binding site [chemical binding]; other site 562970004045 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970004046 transcriptional repressor CodY; Validated; Region: PRK04158 562970004047 CodY GAF-like domain; Region: CodY; pfam06018 562970004048 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 562970004049 flagellar basal-body rod protein FlgB; Region: FlgB; TIGR01396 562970004050 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 562970004051 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 562970004052 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 562970004053 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 562970004054 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 562970004055 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 562970004056 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 562970004057 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 562970004058 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 562970004059 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 562970004060 FliG C-terminal domain; Region: FliG_C; pfam01706 562970004061 flagellar assembly protein H; Validated; Region: fliH; PRK06669 562970004062 Flagellar assembly protein FliH; Region: FliH; pfam02108 562970004063 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 562970004064 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 562970004065 Walker A motif/ATP binding site; other site 562970004066 Walker B motif; other site 562970004067 MgtE intracellular N domain; Region: MgtE_N; cl15244 562970004068 Flagellar hook-length control protein FliK; Region: Flg_hook; cl14669 562970004069 Flagellar hook capping protein; Region: FlgD; cl04347 562970004070 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 562970004071 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 562970004072 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 562970004073 Flagellar protein (FlbD); Region: FlbD; cl00683 562970004074 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 562970004075 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 562970004076 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 562970004077 flagellar motor switch protein; Validated; Region: PRK08119 562970004078 CheC-like family; Region: CheC; pfam04509 562970004079 CheC-like family; Region: CheC; pfam04509 562970004080 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 562970004081 Response regulator receiver domain; Region: Response_reg; pfam00072 562970004082 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 562970004083 active site 562970004084 phosphorylation site [posttranslational modification] 562970004085 intermolecular recognition site; other site 562970004086 dimerization interface [polypeptide binding]; other site 562970004087 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 562970004088 FliP family; Region: FliP; cl00593 562970004089 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 562970004090 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 562970004091 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 562970004092 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 562970004093 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 562970004094 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 562970004095 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 562970004096 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 562970004097 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 562970004098 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 562970004099 P-loop; other site 562970004100 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 562970004101 P-loop; other site 562970004102 CheB methylesterase; Region: CheB_methylest; pfam01339 562970004103 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 562970004104 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 562970004105 putative binding surface; other site 562970004106 active site 562970004107 P2 response regulator binding domain; Region: P2; pfam07194 562970004108 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 562970004109 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 562970004110 ATP binding site [chemical binding]; other site 562970004111 Mg2+ binding site [ion binding]; other site 562970004112 G-X-G motif; other site 562970004113 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 562970004114 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 562970004115 putative CheA interaction surface; other site 562970004116 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 562970004117 CheC-like family; Region: CheC; pfam04509 562970004118 CheC-like family; Region: CheC; pfam04509 562970004119 CheD chemotactic sensory transduction; Region: CheD; cl00810 562970004120 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 562970004121 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 562970004122 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...; Region: Sigma70_r4; cd06171 562970004123 DNA binding residues [nucleotide binding] 562970004124 Protein of unknown function (DUF342); Region: DUF342; pfam03961 562970004125 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 562970004126 rRNA interaction site [nucleotide binding]; other site 562970004127 S8 interaction site; other site 562970004128 putative laminin-1 binding site; other site 562970004129 elongation factor Ts; Reviewed; Region: tsf; PRK12332 562970004130 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 562970004131 Elongation factor TS; Region: EF_TS; pfam00889 562970004132 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...; Region: AAK_UMPK-PyrH-Ec; cd04254 562970004133 putative nucleotide binding site [chemical binding]; other site 562970004134 uridine monophosphate binding site [chemical binding]; other site 562970004135 homohexameric interface [polypeptide binding]; other site 562970004136 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 562970004137 hinge region; other site 562970004138 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 562970004139 catalytic residue [active] 562970004140 putative FPP diphosphate binding site; other site 562970004141 putative FPP binding hydrophobic cleft; other site 562970004142 dimer interface [polypeptide binding]; other site 562970004143 putative IPP diphosphate binding site; other site 562970004144 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 562970004145 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 562970004146 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 562970004147 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 562970004148 RIP metalloprotease RseP; Region: TIGR00054 562970004149 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 562970004150 active site 562970004151 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 562970004152 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...; Region: PDZ_metalloprotease; cd00989 562970004153 protein binding site [polypeptide binding]; other site 562970004154 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 562970004155 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 562970004156 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 562970004157 prolyl-tRNA synthetase; Provisional; Region: PRK09194 562970004158 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: ProRS_core_prok; cd00779 562970004159 dimer interface [polypeptide binding]; other site 562970004160 motif 1; other site 562970004161 active site 562970004162 motif 2; other site 562970004163 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 single-...; Region: ProRS-INS; cd04334 562970004164 putative deacylase active site [active] 562970004165 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 562970004166 active site 562970004167 motif 3; other site 562970004168 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-...; Region: ProRS_anticodon_short; cd00861 562970004169 anticodon binding site; other site 562970004170 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 562970004171 Ligand binding site [chemical binding]; other site 562970004172 Putative Catalytic site [active] 562970004173 DXD motif; other site 562970004174 DNA polymerase III PolC; Validated; Region: polC; PRK00448 562970004175 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 562970004176 generic binding surface II; other site 562970004177 generic binding surface I; other site 562970004178 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 562970004179 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 562970004180 active site 562970004181 substrate binding site [chemical binding]; other site 562970004182 catalytic site [active] 562970004183 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 562970004184 ribosome maturation protein RimP; Reviewed; Region: PRK00092 562970004185 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 562970004186 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 562970004187 Sm1 motif; other site 562970004188 predicted subunit interaction site [polypeptide binding]; other site 562970004189 RNA binding pocket [nucleotide binding]; other site 562970004190 Sm2 motif; other site 562970004191 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 562970004192 NusA N-terminal domain; Region: NusA_N; pfam08529 562970004193 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...; Region: S1_NusA; cd04455 562970004194 RNA binding site [nucleotide binding]; other site 562970004195 homodimer interface [polypeptide binding]; other site 562970004196 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 562970004197 G-X-X-G motif; other site 562970004198 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 562970004199 putative RNA binding cleft [nucleotide binding]; other site 562970004200 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 562970004201 translation initiation factor IF-2; Validated; Region: infB; PRK05306 562970004202 translation initiation factor IF-2; Region: IF-2; TIGR00487 562970004203 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 562970004204 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 562970004205 G1 box; other site 562970004206 putative GEF interaction site [polypeptide binding]; other site 562970004207 GTP/Mg2+ binding site [chemical binding]; other site 562970004208 Switch I region; other site 562970004209 G2 box; other site 562970004210 G3 box; other site 562970004211 Switch II region; other site 562970004212 G4 box; other site 562970004213 G5 box; other site 562970004214 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...; Region: IF2_mtIF2_II; cd03702 562970004215 Translation-initiation factor 2; Region: IF-2; pfam11987 562970004216 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...; Region: mtIF2_IVc; cd03692 562970004217 Ribosome-binding factor A; Region: RBFA; cl00542 562970004218 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 562970004219 DHH family; Region: DHH; pfam01368 562970004220 DHHA1 domain; Region: DHHA1; pfam02272 562970004221 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 562970004222 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 562970004223 RNA binding site [nucleotide binding]; other site 562970004224 active site 562970004225 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 562970004226 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 562970004227 active site 562970004228 Riboflavin kinase; Region: Flavokinase; pfam01687 562970004229 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...; Region: Ribosomal_S15p_S13e; cd00353 562970004230 16S/18S rRNA binding site [nucleotide binding]; other site 562970004231 S13e-L30e interaction site [polypeptide binding]; other site 562970004232 25S rRNA binding site [nucleotide binding]; other site 562970004233 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 562970004234 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 562970004235 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 562970004236 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 562970004237 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 562970004238 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 562970004239 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 562970004240 putative nucleic acid binding region [nucleotide binding]; other site 562970004241 G-X-X-G motif; other site 562970004242 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 562970004243 RNA binding site [nucleotide binding]; other site 562970004244 domain interface; other site 562970004245 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 562970004246 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 562970004247 putative NAD(P) binding site [chemical binding]; other site 562970004248 catalytic Zn binding site [ion binding]; other site 562970004249 structural Zn binding site [ion binding]; other site 562970004250 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 562970004251 dinuclear metal binding motif [ion binding]; other site 562970004252 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 562970004253 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 562970004254 catalytic loop [active] 562970004255 iron binding site [ion binding]; other site 562970004256 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron...; Region: FNR_like; cl06868 562970004257 FAD binding pocket [chemical binding]; other site 562970004258 conserved FAD binding motif [chemical binding]; other site 562970004259 phosphate binding motif [ion binding]; other site 562970004260 beta-alpha-beta structure motif; other site 562970004261 NAD binding pocket [chemical binding]; other site 562970004262 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 562970004263 dinuclear metal binding motif [ion binding]; other site 562970004264 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 562970004265 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 562970004266 Transposase; Region: DEDD_Tnp_IS110; pfam01548 562970004267 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 562970004268 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 562970004269 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970004270 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 562970004271 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 562970004272 NAD(P) binding site [chemical binding]; other site 562970004273 catalytic residues [active] 562970004274 Protein of unknown function (DUF779); Region: DUF779; cl01432 562970004275 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 562970004276 GAF domain; Region: GAF; cl00853 562970004277 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...; Region: AAA; cd00009 562970004278 Walker A motif; other site 562970004279 ATP binding site [chemical binding]; other site 562970004280 Walker B motif; other site 562970004281 arginine finger; other site 562970004282 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 562970004283 probable sporulation protein, polysaccharide deacetylase family; Region: spore_ylxY; TIGR02873 562970004284 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 562970004285 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 562970004286 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 562970004287 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 562970004288 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 562970004289 trimer interface [polypeptide binding]; other site 562970004290 active site 562970004291 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 562970004292 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 562970004293 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970004294 Flavoprotein; Region: Flavoprotein; cl08021 562970004295 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 562970004296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970004297 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 562970004298 aspartate kinase I; Reviewed; Region: PRK08210 562970004299 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 562970004300 nucleotide binding site [chemical binding]; other site 562970004301 substrate binding site [chemical binding]; other site 562970004302 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 562970004303 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 562970004304 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 562970004305 dihydrodipicolinate synthase; Region: dapA; TIGR00674 562970004306 dimer interface [polypeptide binding]; other site 562970004307 active site 562970004308 catalytic residue [active] 562970004309 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 562970004310 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 562970004311 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 562970004312 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-1; TIGR02309 562970004313 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 562970004314 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 562970004315 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 562970004316 tetramer interface [polypeptide binding]; other site 562970004317 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 562970004318 active site 562970004319 metal binding site [ion binding]; metal-binding site 562970004320 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 562970004321 DNA-binding site [nucleotide binding]; DNA binding site 562970004322 FCD domain; Region: FCD; cl11656 562970004323 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 562970004324 dihydrodipicolinate synthase; Region: dapA; TIGR00674 562970004325 dimer interface [polypeptide binding]; other site 562970004326 active site 562970004327 catalytic residue [active] 562970004328 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 562970004329 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 562970004330 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 562970004331 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 562970004332 NAD binding site [chemical binding]; other site 562970004333 catalytic residues [active] 562970004334 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 562970004335 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 562970004336 putative ligand binding site [chemical binding]; other site 562970004337 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 562970004338 TM-ABC transporter signature motif; other site 562970004339 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 562970004340 TM-ABC transporter signature motif; other site 562970004341 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 562970004342 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 562970004343 Walker A/P-loop; other site 562970004344 ATP binding site [chemical binding]; other site 562970004345 Q-loop/lid; other site 562970004346 ABC transporter signature motif; other site 562970004347 Walker B; other site 562970004348 D-loop; other site 562970004349 H-loop/switch region; other site 562970004350 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 562970004351 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 562970004352 Walker A/P-loop; other site 562970004353 ATP binding site [chemical binding]; other site 562970004354 Q-loop/lid; other site 562970004355 ABC transporter signature motif; other site 562970004356 Walker B; other site 562970004357 D-loop; other site 562970004358 H-loop/switch region; other site 562970004359 pyruvate dehydrogenase E1 component alpha subunit; Reviewed; Region: odpA; CHL00149 562970004360 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 562970004361 TPP-binding site [chemical binding]; other site 562970004362 tetramer interface [polypeptide binding]; other site 562970004363 heterodimer interface [polypeptide binding]; other site 562970004364 phosphorylation loop region [posttranslational modification] 562970004365 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 562970004366 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 562970004367 alpha subunit interface [polypeptide binding]; other site 562970004368 TPP binding site [chemical binding]; other site 562970004369 heterodimer interface [polypeptide binding]; other site 562970004370 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 562970004371 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 562970004372 YheO-like PAS domain; Region: PAS_6; pfam08348 562970004373 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 562970004374 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 562970004375 NAD(P) binding site [chemical binding]; other site 562970004376 homotetramer interface [polypeptide binding]; other site 562970004377 homodimer interface [polypeptide binding]; other site 562970004378 active site 562970004379 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970004380 polyhydroxyalkanoic acid synthase, PhaR subunit; Region: phaR_Bmeg; TIGR02132 562970004381 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 562970004382 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 562970004383 NAD(P) binding site [chemical binding]; other site 562970004384 homotetramer interface [polypeptide binding]; other site 562970004385 homodimer interface [polypeptide binding]; other site 562970004386 active site 562970004387 PhaC subunit; Region: PHA_synth_III_C; TIGR01836 562970004388 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 562970004389 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 562970004390 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; cl14780 562970004391 active site 562970004392 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970004393 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 562970004394 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 562970004395 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 562970004396 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 562970004397 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 562970004398 sporulation lipoprotein, YhcN/YlaJ family; Region: spore_YhcN_YlaJ; TIGR02898 562970004399 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 562970004400 Protein of unknown function (DUF520); Region: DUF520; cl00723 562970004401 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 562970004402 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 562970004403 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 562970004404 FeS/SAM binding site; other site 562970004405 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 562970004406 competence damage-inducible protein A; Provisional; Region: PRK00549 562970004407 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 562970004408 putative MPT binding site; other site 562970004409 Competence-damaged protein; Region: CinA; cl00666 562970004410 helicase 45; Provisional; Region: PTZ00424 562970004411 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 562970004412 ATP binding site [chemical binding]; other site 562970004413 Mg++ binding site [ion binding]; other site 562970004414 motif III; other site 562970004415 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 562970004416 nucleotide binding region [chemical binding]; other site 562970004417 ATP-binding site [chemical binding]; other site 562970004418 DbpA RNA binding domain; Region: DbpA; pfam03880 562970004419 recombinase A; Provisional; Region: recA; PRK09354 562970004420 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 562970004421 hexamer interface [polypeptide binding]; other site 562970004422 Walker A motif; other site 562970004423 ATP binding site [chemical binding]; other site 562970004424 Walker B motif; other site 562970004425 RecX family; Region: RecX; cl00936 562970004426 phosphodiesterase; Provisional; Region: PRK12704 562970004427 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 562970004428 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 562970004429 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 562970004430 putative active site [active] 562970004431 metal binding site [ion binding]; metal-binding site 562970004432 homodimer binding site [polypeptide binding]; other site 562970004433 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 562970004434 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 562970004435 active site 562970004436 dimer interface [polypeptide binding]; other site 562970004437 Outer spore coat protein E (CotE); Region: CotE; pfam10628 562970004438 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 562970004439 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 562970004440 putative active site [active] 562970004441 catalytic site [active] 562970004442 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 562970004443 putative active site [active] 562970004444 catalytic site [active] 562970004445 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 562970004446 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 562970004447 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 562970004448 FeS/SAM binding site; other site 562970004449 TRAM domain; Region: TRAM; cl01282 562970004450 Protein of unknown function (DUF964); Region: DUF964; cl01483 562970004451 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 562970004452 MutS domain I; Region: MutS_I; pfam01624 562970004453 MutS family domain IV; Region: MutS_IV; pfam05190 562970004454 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 562970004455 Walker A/P-loop; other site 562970004456 ATP binding site [chemical binding]; other site 562970004457 Q-loop/lid; other site 562970004458 ABC transporter signature motif; other site 562970004459 Walker B; other site 562970004460 D-loop; other site 562970004461 H-loop/switch region; other site 562970004462 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 562970004463 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 562970004464 ATP binding site [chemical binding]; other site 562970004465 Mg2+ binding site [ion binding]; other site 562970004466 G-X-G motif; other site 562970004467 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 562970004468 ATP binding site [chemical binding]; other site 562970004469 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 562970004470 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; cl12011 562970004471 IPP transferase; Region: IPPT; cl00403 562970004472 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 562970004473 Sm1 motif; other site 562970004474 intra - hexamer interaction site; other site 562970004475 inter - hexamer interaction site [polypeptide binding]; other site 562970004476 nucleotide binding pocket [chemical binding]; other site 562970004477 Sm2 motif; other site 562970004478 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 562970004479 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 562970004480 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 562970004481 TM-ABC transporter signature motif; other site 562970004482 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 562970004483 TM-ABC transporter signature motif; other site 562970004484 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 562970004485 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 562970004486 Walker A/P-loop; other site 562970004487 ATP binding site [chemical binding]; other site 562970004488 Q-loop/lid; other site 562970004489 ABC transporter signature motif; other site 562970004490 Walker B; other site 562970004491 D-loop; other site 562970004492 H-loop/switch region; other site 562970004493 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 562970004494 Walker A/P-loop; other site 562970004495 ATP binding site [chemical binding]; other site 562970004496 Q-loop/lid; other site 562970004497 ABC transporter signature motif; other site 562970004498 Walker B; other site 562970004499 D-loop; other site 562970004500 H-loop/switch region; other site 562970004501 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 562970004502 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 562970004503 Flavin Reductases; Region: FlaRed; cl00801 562970004504 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 562970004505 homogentisate 1,2-dioxygenase; Region: HgmA; cl10473 562970004506 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 562970004507 stage V sporulation protein K; Region: spore_V_K; TIGR02881 562970004508 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...; Region: AAA; cd00009 562970004509 Walker A motif; other site 562970004510 ATP binding site [chemical binding]; other site 562970004511 Walker B motif; other site 562970004512 arginine finger; other site 562970004513 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 562970004514 Switch I region; other site 562970004515 G2 box; other site 562970004516 Switch II region; other site 562970004517 G3 box; other site 562970004518 G4 box; other site 562970004519 G5 box; other site 562970004520 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 562970004521 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 562970004522 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 562970004523 DNA binding residues [nucleotide binding] 562970004524 glutamine synthetase, type I; Region: GlnA; TIGR00653 562970004525 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 562970004526 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 562970004527 Cytochrome c; Region: Cytochrom_C; cl11414 562970004528 LexA repressor; Validated; Region: PRK00215 562970004529 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970004530 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 (...; Region: S24_LexA-like; cd06529 562970004531 Catalytic site [active] 562970004532 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 562970004533 putative peptidoglycan binding site; other site 562970004534 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 562970004535 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 562970004536 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970004537 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 562970004538 DNA binding residues [nucleotide binding] 562970004539 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 562970004540 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 562970004541 catalytic residues [active] 562970004542 catalytic nucleophile [active] 562970004543 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 562970004544 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 562970004545 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 562970004546 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 562970004547 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 562970004548 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 562970004549 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 562970004550 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate...; Region: MopB_Nitrate-R-NarG-like; cd02750 562970004551 [4Fe-4S] binding site [ion binding]; other site 562970004552 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 562970004553 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 562970004554 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 562970004555 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 562970004556 molybdopterin cofactor binding site; other site 562970004557 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 562970004558 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 562970004559 putative substrate translocation pore; other site 562970004560 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 562970004561 putative transposase OrfB; Reviewed; Region: PHA02517 562970004562 Integrase core domain; Region: rve; cl01316 562970004563 NifZ domain; Region: NifZ; pfam04319 562970004564 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 562970004565 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cd00321 562970004566 Moco binding site; other site 562970004567 metal coordination site [ion binding]; other site 562970004568 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 562970004569 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 562970004570 Prephenate dehydratase; Region: PDT; pfam00800 562970004571 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 562970004572 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 562970004573 DNA-binding site [nucleotide binding]; DNA binding site 562970004574 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 562970004575 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970004576 homodimer interface [polypeptide binding]; other site 562970004577 catalytic residue [active] 562970004578 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 562970004579 putative transposase OrfB; Reviewed; Region: PHA02517 562970004580 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 562970004581 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 562970004582 DNA binding site [nucleotide binding] 562970004583 Int/Topo IB signature motif; other site 562970004584 active site 562970004585 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 562970004586 Putative transposase; Region: Y2_Tnp; pfam04986 562970004587 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 562970004588 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970004589 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 562970004590 Walker A/P-loop; other site 562970004591 ATP binding site [chemical binding]; other site 562970004592 Q-loop/lid; other site 562970004593 ABC transporter signature motif; other site 562970004594 Walker B; other site 562970004595 D-loop; other site 562970004596 H-loop/switch region; other site 562970004597 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...; Region: TM_PBP2; cd06261 562970004598 dimer interface [polypeptide binding]; other site 562970004599 conserved gate region; other site 562970004600 putative PBP binding loops; other site 562970004601 ABC-ATPase subunit interface; other site 562970004602 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 562970004603 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 562970004604 non-specific DNA binding site [nucleotide binding]; other site 562970004605 salt bridge; other site 562970004606 sequence-specific DNA binding site [nucleotide binding]; other site 562970004607 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 562970004608 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 562970004609 4Fe-4S binding domain; Region: Fer4; cl02805 562970004610 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 562970004611 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 562970004612 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 562970004613 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...; Region: AAA; cd00009 562970004614 Walker A motif; other site 562970004615 ATP binding site [chemical binding]; other site 562970004616 Walker B motif; other site 562970004617 arginine finger; other site 562970004618 Peptidase family M41; Region: Peptidase_M41; pfam01434 562970004619 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 562970004620 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 562970004621 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 562970004622 active site 562970004623 putative substrate binding pocket [chemical binding]; other site 562970004624 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 562970004625 Glycosyl hydrolase family 43 containing a domain of unknown function; Region: GH43_DUF377; cd08993 562970004626 active site 562970004627 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 562970004628 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 562970004629 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970004630 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 562970004631 binding surface 562970004632 TPR motif; other site 562970004633 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 562970004634 binding surface 562970004635 TPR motif; other site 562970004636 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 562970004637 binding surface 562970004638 TPR motif; other site 562970004639 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 562970004640 tetramerization interface [polypeptide binding]; other site 562970004641 active site 562970004642 pantoate--beta-alanine ligase; Region: panC; TIGR00018 562970004643 Pantoate-beta-alanine ligase; Region: PanC; cd00560 562970004644 active site 562970004645 ATP-binding site [chemical binding]; other site 562970004646 pantoate-binding site; other site 562970004647 HXXH motif; other site 562970004648 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 562970004649 active site 562970004650 oligomerization interface [polypeptide binding]; other site 562970004651 metal binding site [ion binding]; metal-binding site 562970004652 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970004653 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 562970004654 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 562970004655 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 562970004656 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 562970004657 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 562970004658 active site 562970004659 NTP binding site [chemical binding]; other site 562970004660 metal binding triad [ion binding]; metal-binding site 562970004661 dihydrodipicolinate reductase; Provisional; Region: PRK00048 562970004662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970004663 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 562970004664 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 562970004665 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 562970004666 Bacitracin resistance protein BacA; Region: BacA; cl00858 562970004667 Uncharacterized membrane protein [Function unknown]; Region: COG3949 562970004668 Uncharacterized conserved protein [Function unknown]; Region: COG1284 562970004669 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 562970004670 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 562970004671 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 562970004672 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 562970004673 Cytochrome c; Region: Cytochrom_C; cl11414 562970004674 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria...; Region: Cytochrome_b_N; cd00284 562970004675 Qi binding site; other site 562970004676 intrachain domain interface; other site 562970004677 interchain domain interface [polypeptide binding]; other site 562970004678 heme bH binding site [chemical binding]; other site 562970004679 heme bL binding site [chemical binding]; other site 562970004680 Qo binding site; other site 562970004681 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 562970004682 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)...; Region: Rieske; cd03467 562970004683 iron-sulfur cluster [ion binding]; other site 562970004684 [2Fe-2S] cluster binding site [ion binding]; other site 562970004685 hypothetical protein; Provisional; Region: PRK03636 562970004686 UPF0302 domain; Region: UPF0302; pfam08864 562970004687 DNA repair helicase rad25; Region: rad25; TIGR00603 562970004688 DNA repair helicase rad25; Region: rad25; TIGR00603 562970004689 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; cl14882 562970004690 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; cl14882 562970004691 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 562970004692 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 562970004693 putative ligand binding site [chemical binding]; other site 562970004694 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 562970004695 TM-ABC transporter signature motif; other site 562970004696 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 562970004697 TM-ABC transporter signature motif; other site 562970004698 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 562970004699 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 562970004700 Walker A/P-loop; other site 562970004701 ATP binding site [chemical binding]; other site 562970004702 Q-loop/lid; other site 562970004703 ABC transporter signature motif; other site 562970004704 Walker B; other site 562970004705 D-loop; other site 562970004706 H-loop/switch region; other site 562970004707 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 562970004708 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 562970004709 Walker A/P-loop; other site 562970004710 ATP binding site [chemical binding]; other site 562970004711 Q-loop/lid; other site 562970004712 ABC transporter signature motif; other site 562970004713 Walker B; other site 562970004714 D-loop; other site 562970004715 H-loop/switch region; other site 562970004716 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 562970004717 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 5-enolpyruvylshkimate-3-...; Region: EPSP_synthase; cd01556 562970004718 hinge; other site 562970004719 active site 562970004720 prephenate dehydrogenase; Validated; Region: PRK06545 562970004721 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970004722 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 562970004723 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...; Region: Tryptophan_synthase_alpha; cd04724 562970004724 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 562970004725 substrate binding site [chemical binding]; other site 562970004726 active site 562970004727 catalytic residues [active] 562970004728 heterodimer interface [polypeptide binding]; other site 562970004729 tryptophan synthase, beta chain; Region: PLN02618 562970004730 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 562970004731 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970004732 catalytic residue [active] 562970004733 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric...; Region: PRAI; cd00405 562970004734 active site 562970004735 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 562970004736 active site 562970004737 ribulose/triose binding site [chemical binding]; other site 562970004738 phosphate binding site [ion binding]; other site 562970004739 substrate (anthranilate) binding pocket [chemical binding]; other site 562970004740 product (indole) binding pocket [chemical binding]; other site 562970004741 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 562970004742 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 562970004743 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 562970004744 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 562970004745 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 562970004746 active site 562970004747 dimer interface [polypeptide binding]; other site 562970004748 metal binding site [ion binding]; metal-binding site 562970004749 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 562970004750 Tetramer interface [polypeptide binding]; other site 562970004751 Active site [active] 562970004752 FMN-binding site [chemical binding]; other site 562970004753 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 562970004754 active site 562970004755 Protein of unknown function (DUF2847); Region: DUF2847; cl12579 562970004756 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 562970004757 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 562970004758 catalytic residues [active] 562970004759 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 562970004760 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 562970004761 active site 562970004762 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 562970004763 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 562970004764 active site 562970004765 acyl-CoA synthetase; Validated; Region: PRK08316 562970004766 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970004767 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 562970004768 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 562970004769 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 562970004770 MoaC_like Similar to the MaoC (monoamine oxidase C) dehydratase regulatory protein but without the N-terminal PutA domain. This protein family has a hot-dog fold similar to that of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-...; Region: MaoC_like; cd03446 562970004771 homodimer interaction site [polypeptide binding]; other site 562970004772 putative active site [active] 562970004773 putative catalytic site [active] 562970004774 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 562970004775 CoenzymeA binding site [chemical binding]; other site 562970004776 subunit interaction site [polypeptide binding]; other site 562970004777 PHB binding site; other site 562970004778 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970004779 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 562970004780 enoyl-CoA hydratase; Provisional; Region: PRK05995 562970004781 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 562970004782 substrate binding site [chemical binding]; other site 562970004783 oxyanion hole (OAH) forming residues; other site 562970004784 trimer interface [polypeptide binding]; other site 562970004785 Staphylococcal nuclease homologues; Region: SNc; smart00318 562970004786 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 562970004787 Catalytic site; other site 562970004788 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 562970004789 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 562970004790 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970004791 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 562970004792 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 562970004793 putative transposase OrfB; Reviewed; Region: PHA02517 562970004794 Integrase core domain; Region: rve; cl01316 562970004795 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 562970004796 Restriction endonuclease; Region: Mrr_cat; cl00747 562970004797 Protein of unknown function DUF45; Region: DUF45; cl00636 562970004798 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 562970004799 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 562970004800 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; cl14882 562970004801 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 562970004802 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 562970004803 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 562970004804 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 562970004805 HsdM N-terminal domain; Region: HsdM_N; pfam12161 562970004806 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; cl12011 562970004807 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 562970004808 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 562970004809 putative active site [active] 562970004810 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 562970004811 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 562970004812 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; cl12011 562970004813 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 562970004814 nucleophile elbow; other site 562970004815 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 562970004816 active site 562970004817 multimer interface [polypeptide binding]; other site 562970004818 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 562970004819 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 562970004820 substrate binding pocket [chemical binding]; other site 562970004821 chain length determination region; other site 562970004822 substrate-Mg2+ binding site; other site 562970004823 catalytic residues [active] 562970004824 aspartate-rich region 1; other site 562970004825 active site lid residues [active] 562970004826 aspartate-rich region 2; other site 562970004827 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 562970004828 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; cl14056 562970004829 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 562970004830 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 562970004831 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 562970004832 aromatic acid decarboxylase; Validated; Region: PRK05920 562970004833 Flavoprotein; Region: Flavoprotein; cl08021 562970004834 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 562970004835 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 562970004836 S-adenosylmethionine binding site [chemical binding]; other site 562970004837 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 562970004838 Tryptophan RNA-binding attenuator protein; Region: TrpBP; cl03437 562970004839 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 562970004840 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970004841 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970004842 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; cl09772 562970004843 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 562970004844 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 562970004845 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 L-...; Region: GCS_H; cd06848 562970004846 lipoyl attachment site [posttranslational modification]; other site 562970004847 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 562970004848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970004849 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 562970004850 Domain of unknown function (DUF205); Region: DUF205; cl00410 562970004851 GTP-binding protein Der; Reviewed; Region: PRK00093 562970004852 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 562970004853 G1 box; other site 562970004854 GTP/Mg2+ binding site [chemical binding]; other site 562970004855 Switch I region; other site 562970004856 G2 box; other site 562970004857 Switch II region; other site 562970004858 G3 box; other site 562970004859 G4 box; other site 562970004860 G5 box; other site 562970004861 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 562970004862 G1 box; other site 562970004863 GTP/Mg2+ binding site [chemical binding]; other site 562970004864 Switch I region; other site 562970004865 G2 box; other site 562970004866 G3 box; other site 562970004867 Switch II region; other site 562970004868 G4 box; other site 562970004869 G5 box; other site 562970004870 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 562970004871 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 562970004872 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 562970004873 RNA binding site [nucleotide binding]; other site 562970004874 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 562970004875 RNA binding site [nucleotide binding]; other site 562970004876 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 562970004877 RNA binding site [nucleotide binding]; other site 562970004878 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 of...; Region: S1_RPS1_repeat_hs4; cd05692 562970004879 RNA binding site [nucleotide binding]; other site 562970004880 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 562970004881 putative acyl-acceptor binding pocket; other site 562970004882 cytidylate kinase; Provisional; Region: cmk; PRK00023 562970004883 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 562970004884 CMP-binding site; other site 562970004885 The sites determining sugar specificity; other site 562970004886 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 562970004887 active site 562970004888 metal binding site [ion binding]; metal-binding site 562970004889 germination protein YpeB; Region: spore_YpeB; TIGR02889 562970004890 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 562970004891 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 562970004892 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 562970004893 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 562970004894 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 562970004895 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 562970004896 NAD(P) binding site [chemical binding]; other site 562970004897 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 562970004898 Major Facilitator Superfamily; Region: MFS_1; pfam07690 562970004899 putative substrate translocation pore; other site 562970004900 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; cl00782 562970004901 Protein of unknown function (DUF441); Region: DUF441; cl01041 562970004902 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 562970004903 UvrD/REP helicase; Region: UvrD-helicase; cl14126 562970004904 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 562970004905 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 562970004906 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 562970004907 Deinococcus radiodurans DR1119 and related proteins, metallophosphatase domain; Region: MPP_DR1119; cd07393 562970004908 putative active site [active] 562970004909 putative metal binding site [ion binding]; other site 562970004910 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 562970004911 homodecamer interface [polypeptide binding]; other site 562970004912 GTP cyclohydrolase I; Provisional; Region: PLN03044 562970004913 active site 562970004914 putative catalytic site residues [active] 562970004915 zinc binding site [ion binding]; other site 562970004916 GTP-CH-I/GFRP interaction surface; other site 562970004917 Transglycosylase; Region: Transgly; cl07896 562970004918 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 562970004919 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 562970004920 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 562970004921 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 562970004922 DNA-binding site [nucleotide binding]; DNA binding site 562970004923 RNA-binding motif; other site 562970004924 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 N-...; Region: GltS; cd00713 562970004925 active site 562970004926 dimer interface [polypeptide binding]; other site 562970004927 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 562970004928 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 562970004929 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...; Region: GltS_FMN; cd02808 562970004930 active site 562970004931 FMN binding site [chemical binding]; other site 562970004932 substrate binding site [chemical binding]; other site 562970004933 3Fe-4S cluster binding site [ion binding]; other site 562970004934 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 562970004935 domain_subunit interface; other site 562970004936 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 562970004937 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 562970004938 putative transposase; Provisional; Region: PHA02942 562970004939 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 562970004940 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970004941 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...; Region: CbiX_SirB_N; cd03416 562970004942 putative active site [active] 562970004943 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein...; Region: Peptidase_M17; cd00433 562970004944 interface (dimer of trimers) [polypeptide binding]; other site 562970004945 Substrate-binding/catalytic site; other site 562970004946 Zn-binding sites [ion binding]; other site 562970004947 SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+...; Region: SIR2-fam; cd01407 562970004948 NAD+ binding site [chemical binding]; other site 562970004949 substrate binding site [chemical binding]; other site 562970004950 Zn binding site [ion binding]; other site 562970004951 Protein of unknown function (DUF466); Region: DUF466; cl01082 562970004952 Carbon starvation protein CstA; Region: CstA; cl00856 562970004953 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 562970004954 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970004955 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 562970004956 putative L-serine binding site [chemical binding]; other site 562970004957 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 562970004958 ThiS interaction site; other site 562970004959 putative active site [active] 562970004960 tetramer interface [polypeptide binding]; other site 562970004961 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 562970004962 thiS-thiF/thiG interaction site; other site 562970004963 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- (beta-...; Region: TMP_TenI; cd00564 562970004964 thiamine phosphate binding site [chemical binding]; other site 562970004965 active site 562970004966 pyrophosphate binding site [ion binding]; other site 562970004967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970004968 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 562970004969 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 connected by an extended linker. The...; Region: HAMP; cl01054 562970004970 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 562970004971 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 trans-...; Region: HisKA; cd00082 562970004972 dimer interface [polypeptide binding]; other site 562970004973 phosphorylation site [posttranslational modification] 562970004974 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 562970004975 ATP binding site [chemical binding]; other site 562970004976 Mg2+ binding site [ion binding]; other site 562970004977 G-X-G motif; other site 562970004978 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 562970004979 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 562970004980 active site 562970004981 phosphorylation site [posttranslational modification] 562970004982 intermolecular recognition site; other site 562970004983 dimerization interface [polypeptide binding]; other site 562970004984 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...; Region: trans_reg_C; cd00383 562970004985 DNA binding site [nucleotide binding] 562970004986 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 562970004987 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 562970004988 active site 562970004989 Nucleoside recognition; Region: Gate; cl00486 562970004990 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 562970004991 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 562970004992 Beta-lactamase; Region: Beta-lactamase; cl01009 562970004993 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 562970004994 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 562970004995 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 562970004996 ScpA/B protein; Region: ScpA_ScpB; cl00598 562970004997 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 562970004998 active site 562970004999 putative substrate binding region [chemical binding]; other site 562970005000 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 562970005001 homopentamer interface [polypeptide binding]; other site 562970005002 active site 562970005003 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 562970005004 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 562970005005 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 562970005006 dimerization interface [polypeptide binding]; other site 562970005007 active site 562970005008 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 562970005009 Lumazine binding domain; Region: Lum_binding; pfam00677 562970005010 Lumazine binding domain; Region: Lum_binding; pfam00677 562970005011 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 562970005012 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 562970005013 catalytic motif [active] 562970005014 Zn binding site [ion binding]; other site 562970005015 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cl00161 562970005016 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 562970005017 Beta-lactamase; Region: Beta-lactamase; cl01009 562970005018 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 562970005019 diaminopimelate decarboxylase; Region: lysA; TIGR01048 562970005020 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 562970005021 active site 562970005022 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 562970005023 substrate binding site [chemical binding]; other site 562970005024 catalytic residues [active] 562970005025 dimer interface [polypeptide binding]; other site 562970005026 SpoVA protein; Region: SpoVA; cl04298 562970005027 stage V sporulation protein AD; Validated; Region: PRK08304 562970005028 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 562970005029 SpoVA protein; Region: SpoVA; cl04298 562970005030 Stage V sporulation protein AA; Region: SporV_AA; pfam12164 562970005031 sporulation sigma factor SigF; Validated; Region: PRK05572 562970005032 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 562970005033 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 562970005034 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...; Region: Sigma70_r4; cd06171 562970005035 DNA binding residues [nucleotide binding] 562970005036 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 562970005037 ATP binding site [chemical binding]; other site 562970005038 Mg2+ binding site [ion binding]; other site 562970005039 G-X-G motif; other site 562970005040 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 562970005041 anti sigma factor interaction site; other site 562970005042 regulatory phosphorylation site [posttranslational modification]; other site 562970005043 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 562970005044 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars...; Region: ABC_NrtD_SsuB_transporters; cd03293 562970005045 Walker A/P-loop; other site 562970005046 ATP binding site [chemical binding]; other site 562970005047 Q-loop/lid; other site 562970005048 ABC transporter signature motif; other site 562970005049 Walker B; other site 562970005050 D-loop; other site 562970005051 H-loop/switch region; other site 562970005052 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl01965 562970005053 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 562970005054 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...; Region: TM_PBP2; cl00427 562970005055 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...; Region: TM_PBP2; cl00427 562970005056 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 562970005057 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 562970005058 HIGH motif; other site 562970005059 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 562970005060 active site 562970005061 KMSKS motif; other site 562970005062 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 562970005063 tRNA binding surface [nucleotide binding]; other site 562970005064 anticodon binding site; other site 562970005065 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 562970005066 DivIVA protein; Region: DivIVA; pfam05103 562970005067 DivIVA domain; Region: DivI1A_domain; TIGR03544 562970005068 YGGT family; Region: YGGT; cl00508 562970005069 Protein of unknown function (DUF552); Region: DUF552; cl00775 562970005070 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 562970005071 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 562970005072 catalytic residue [active] 562970005073 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 562970005074 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 562970005075 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 562970005076 sporulation sigma factor SigG; Reviewed; Region: PRK08215 562970005077 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 562970005078 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 562970005079 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...; Region: Sigma70_r4; cd06171 562970005080 DNA binding residues [nucleotide binding] 562970005081 sporulation sigma factor SigE; Reviewed; Region: PRK08301 562970005082 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 562970005083 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...; Region: Sigma70_r4; cd06171 562970005084 DNA binding residues [nucleotide binding] 562970005085 Sporulation factor SpoIIGA; Region: Peptidase_U4; cl04058 562970005086 cell division protein FtsZ; Validated; Region: PRK09330 562970005087 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...; Region: FtsZ_type1; cd02201 562970005088 nucleotide binding site [chemical binding]; other site 562970005089 SulA interaction site; other site 562970005090 cell division protein FtsA; Region: ftsA; TIGR01174 562970005091 Cell division protein FtsA; Region: FtsA; cl11496 562970005092 Cell division protein FtsA; Region: FtsA; cl11496 562970005093 Protein of unknown function (DUF1290); Region: DUF1290; cl01587 562970005094 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 562970005095 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 562970005096 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 562970005097 Cell division protein FtsQ; Region: FtsQ; pfam03799 562970005098 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated; Region: PRK09369 562970005099 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 562970005100 hinge; other site 562970005101 active site 562970005102 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 562970005103 FAD binding domain; Region: FAD_binding_4; pfam01565 562970005104 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 562970005105 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 562970005106 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...; Region: GT1_MurG; cd03785 562970005107 active site 562970005108 homodimer interface [polypeptide binding]; other site 562970005109 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 562970005110 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970005111 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 562970005112 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 562970005113 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 562970005114 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 562970005115 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 undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 562970005116 Mg++ binding site [ion binding]; other site 562970005117 putative catalytic motif [active] 562970005118 putative substrate binding site [chemical binding]; other site 562970005119 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 562970005120 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 562970005121 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 562970005122 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 562970005123 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 562970005124 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 562970005125 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 562970005126 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 562970005127 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 562970005128 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 562970005129 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 562970005130 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 562970005131 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 562970005132 Septum formation initiator; Region: DivIC; cl11433 562970005133 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 562970005134 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; cl12011 562970005135 cell division protein MraZ; Reviewed; Region: PRK00326 562970005136 MraZ protein; Region: MraZ; pfam02381 562970005137 MraZ protein; Region: MraZ; pfam02381 562970005138 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 562970005139 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 562970005140 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 562970005141 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 562970005142 active site 562970005143 catalytic residues [active] 562970005144 metal binding site [ion binding]; metal-binding site 562970005145 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 562970005146 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970005147 NAD(P) binding site [chemical binding]; other site 562970005148 active site 562970005149 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 562970005150 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 562970005151 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 562970005152 G1 box; other site 562970005153 putative GEF interaction site [polypeptide binding]; other site 562970005154 GTP/Mg2+ binding site [chemical binding]; other site 562970005155 Switch I region; other site 562970005156 G2 box; other site 562970005157 G3 box; other site 562970005158 Switch II region; other site 562970005159 G4 box; other site 562970005160 G5 box; other site 562970005161 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 562970005162 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...; Region: BipA_TypA_C; cd03710 562970005163 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 562970005164 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; cl11391 562970005165 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 562970005166 motif II; other site 562970005167 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970005168 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 562970005169 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 562970005170 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 562970005171 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 562970005172 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 562970005173 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 562970005174 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 562970005175 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 562970005176 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 562970005177 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 562970005178 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 562970005179 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 562970005180 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 562970005181 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 562970005182 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 562970005183 S-layer homology domain; Region: SLH; pfam00395 562970005184 S-layer homology domain; Region: SLH; pfam00395 562970005185 S-layer homology domain; Region: SLH; pfam00395 562970005186 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 562970005187 active site 562970005188 phosphorylation site [posttranslational modification] 562970005189 intermolecular recognition site; other site 562970005190 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 562970005191 dimerization interface [polypeptide binding]; other site 562970005192 pyruvate carboxylase; Reviewed; Region: PRK12999 562970005193 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 562970005194 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 562970005195 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 562970005196 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 562970005197 active site 562970005198 catalytic residues [active] 562970005199 metal binding site [ion binding]; metal-binding site 562970005200 homodimer binding site [polypeptide binding]; other site 562970005201 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 562970005202 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 562970005203 carboxyltransferase (CT) interaction site; other site 562970005204 biotinylation site [posttranslational modification]; other site 562970005205 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 562970005206 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 562970005207 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 562970005208 THUMP domain; Region: THUMP; cl12076 562970005209 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 562970005210 Ligand Binding Site [chemical binding]; other site 562970005211 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 562970005212 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 562970005213 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 562970005214 catalytic residue [active] 562970005215 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 562970005216 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970005217 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 562970005218 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970005219 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 562970005220 Uncharacterized conserved protein [Function unknown]; Region: COG1565 562970005221 Uncharacterized ACR, COG1565; Region: DUF185; pfam02636 562970005222 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 562970005223 oligomer interface [polypeptide binding]; other site 562970005224 active site residues [active] 562970005225 Isochorismatase family; Region: Isochorismatase; pfam00857 562970005226 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 562970005227 catalytic triad [active] 562970005228 conserved cis-peptide bond; other site 562970005229 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 562970005230 Found in ATP-dependent protease La (LON); Region: LON; cl01056 562970005231 IDEAL domain; Region: IDEAL; pfam08858 562970005232 Protein of unknown function (DUF964); Region: DUF964; cl01483 562970005233 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 562970005234 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 562970005235 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 562970005236 active site 562970005237 dimer interface [polypeptide binding]; other site 562970005238 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 562970005239 dimer interface [polypeptide binding]; other site 562970005240 active site 562970005241 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970005242 TIGR01777 family protein; Region: yfcH 562970005243 NAD(P) binding site [chemical binding]; other site 562970005244 active site 562970005245 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 562970005246 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 562970005247 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 562970005248 catalytic triad [active] 562970005249 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 562970005250 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 562970005251 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 562970005252 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 562970005253 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 562970005254 chorismate binding enzyme; Region: Chorismate_bind; cl10555 562970005255 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 562970005256 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 562970005257 glutamine binding [chemical binding]; other site 562970005258 catalytic triad [active] 562970005259 Ferritin-like domain; Region: Ferritin; pfam00210 562970005260 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 562970005261 dimerization interface [polypeptide binding]; other site 562970005262 DPS ferroxidase diiron center [ion binding]; other site 562970005263 ion pore; other site 562970005264 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 562970005265 metal binding site 2 [ion binding]; metal-binding site 562970005266 putative DNA binding helix; other site 562970005267 metal binding site 1 [ion binding]; metal-binding site 562970005268 dimer interface [polypeptide binding]; other site 562970005269 structural Zn2+ binding site [ion binding]; other site 562970005270 3D domain; Region: 3D; cl01439 562970005271 stage V sporulation protein AD; Provisional; Region: PRK12404 562970005272 SpoVA protein; Region: SpoVA; cl04298 562970005273 Protein of unknown function (DUF421); Region: DUF421; cl00990 562970005274 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 connected by an extended linker. The...; Region: HAMP; cd06225 562970005275 dimerization interface [polypeptide binding]; other site 562970005276 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 trans-...; Region: HisKA; cd00082 562970005277 dimer interface [polypeptide binding]; other site 562970005278 phosphorylation site [posttranslational modification] 562970005279 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 562970005280 ATP binding site [chemical binding]; other site 562970005281 Mg2+ binding site [ion binding]; other site 562970005282 G-X-G motif; other site 562970005283 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 562970005284 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 562970005285 active site 562970005286 phosphorylation site [posttranslational modification] 562970005287 intermolecular recognition site; other site 562970005288 dimerization interface [polypeptide binding]; other site 562970005289 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...; Region: trans_reg_C; cd00383 562970005290 DNA binding site [nucleotide binding] 562970005291 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 562970005292 CotJB protein; Region: CotJB; pfam12652 562970005293 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 562970005294 Uncharacterized conserved protein [Function unknown]; Region: COG1633 562970005295 dimanganese center [ion binding]; other site 562970005296 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 562970005297 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 562970005298 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 562970005299 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 562970005300 active site 562970005301 catalytic triad [active] 562970005302 oxyanion hole [active] 562970005303 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 562970005304 endonuclease IV; Provisional; Region: PRK01060 562970005305 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 D-arabino-6-...; Region: AP2Ec; cd00019 562970005306 AP (apurinic/apyrimidinic) site pocket; other site 562970005307 DNA interaction; other site 562970005308 Metal-binding active site; metal-binding site 562970005309 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 562970005310 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 562970005311 active site 562970005312 metal binding site [ion binding]; metal-binding site 562970005313 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 562970005314 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 562970005315 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 562970005316 inhibitor-cofactor binding pocket; inhibition site 562970005317 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970005318 catalytic residue [active] 562970005319 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 562970005320 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 562970005321 polymerase nucleotide-binding site; other site 562970005322 DNA-binding residues [nucleotide binding]; DNA binding site 562970005323 nucleotide binding site [chemical binding]; other site 562970005324 primase nucleotide-binding site [nucleotide binding]; other site 562970005325 Primase C terminal 1 (PriCT-1); Region: PriCT_1; pfam08708 562970005326 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...; Region: Sigma70_r4; cd06171 562970005327 DNA binding residues [nucleotide binding] 562970005328 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 562970005329 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 562970005330 DNA binding site [nucleotide binding] 562970005331 Int/Topo IB signature motif; other site 562970005332 active site 562970005333 Septum formation initiator; Region: DivIC; cl11433 562970005334 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 562970005335 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 562970005336 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970005337 Walker A/P-loop; other site 562970005338 ATP binding site [chemical binding]; other site 562970005339 Q-loop/lid; other site 562970005340 ABC transporter signature motif; other site 562970005341 Walker B; other site 562970005342 D-loop; other site 562970005343 H-loop/switch region; other site 562970005344 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 562970005345 TM-ABC transporter signature motif; other site 562970005346 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG2984 562970005347 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 562970005348 zinc binding site [ion binding]; other site 562970005349 putative ligand binding site [chemical binding]; other site 562970005350 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 562970005351 DNA-binding site [nucleotide binding]; DNA binding site 562970005352 RNA-binding motif; other site 562970005353 domain; Region: GreA_GreB_N; pfam03449 562970005354 C-term; Region: GreA_GreB; pfam01272 562970005355 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 562970005356 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 562970005357 PAS domain S-box; Region: sensory_box; TIGR00229 562970005358 Histidine kinase; Region: HisKA_3; pfam07730 562970005359 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 562970005360 ATP binding site [chemical binding]; other site 562970005361 Mg2+ binding site [ion binding]; other site 562970005362 G-X-G motif; other site 562970005363 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 562970005364 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 562970005365 active site 562970005366 phosphorylation site [posttranslational modification] 562970005367 intermolecular recognition site; other site 562970005368 dimerization interface [polypeptide binding]; other site 562970005369 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...; Region: LuxR_C_like; cd06170 562970005370 DNA binding residues [nucleotide binding] 562970005371 dimerization interface [polypeptide binding]; other site 562970005372 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 562970005373 Zn2+ binding site [ion binding]; other site 562970005374 Mg2+ binding site [ion binding]; other site 562970005375 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 562970005376 Zn2+ binding site [ion binding]; other site 562970005377 Mg2+ binding site [ion binding]; other site 562970005378 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 562970005379 Ligand Binding Site [chemical binding]; other site 562970005380 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 562970005381 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein; Region: ABC_MetN_methionine_transporter; cd03258 562970005382 Walker A/P-loop; other site 562970005383 ATP binding site [chemical binding]; other site 562970005384 Q-loop/lid; other site 562970005385 ABC transporter signature motif; other site 562970005386 Walker B; other site 562970005387 D-loop; other site 562970005388 H-loop/switch region; other site 562970005389 NIL domain; Region: NIL; pfam09383 562970005390 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...; Region: TM_PBP2; cl00427 562970005391 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 562970005392 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 562970005393 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 562970005394 metal-binding site [ion binding] 562970005395 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 562970005396 putative homotetramer interface [polypeptide binding]; other site 562970005397 putative homodimer interface [polypeptide binding]; other site 562970005398 putative allosteric switch controlling residues; other site 562970005399 putative metal binding site [ion binding]; other site 562970005400 putative homodimer-homodimer interface [polypeptide binding]; other site 562970005401 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 562970005402 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the...; Region: HIT_like; cl00228 562970005403 nucleotide binding site/active site [active] 562970005404 HIT family signature motif; other site 562970005405 catalytic residue [active] 562970005406 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 562970005407 classical (c) SDRs; Region: SDR_c; cd05233 562970005408 NAD(P) binding site [chemical binding]; other site 562970005409 active site 562970005410 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 562970005411 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 562970005412 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 562970005413 active site 562970005414 Zn binding site [ion binding]; other site 562970005415 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 562970005416 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 562970005417 Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All...; Region: TRX_GRX_like; cd02973 562970005418 catalytic residues [active] 562970005419 Protein of unknown function (DUF423); Region: DUF423; cl01008 562970005420 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...; Region: GltS_FMN; cd02808 562970005421 active site 562970005422 FMN binding site [chemical binding]; other site 562970005423 substrate binding site [chemical binding]; other site 562970005424 3Fe-4S cluster binding site [ion binding]; other site 562970005425 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 562970005426 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 562970005427 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970005428 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 562970005429 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 562970005430 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 562970005431 NAD(P) binding site [chemical binding]; other site 562970005432 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 562970005433 dimerization interface [polypeptide binding]; other site 562970005434 putative DNA binding site [nucleotide binding]; other site 562970005435 putative Zn2+ binding site [ion binding]; other site 562970005436 Membrane transport protein; Region: Mem_trans; cl09117 562970005437 Low molecular weight phosphatase family; Region: LMWPc; cd00115 562970005438 Active site [active] 562970005439 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 562970005440 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 562970005441 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 562970005442 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 562970005443 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal 3-ketacyl-; Region: SCP-x_thiolase; cd00829 562970005444 active site 562970005445 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 562970005446 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 alpha-; Region: HCP_like; cl14655 562970005447 Cysteine-rich domain; Region: CCG; pfam02754 562970005448 Cysteine-rich domain; Region: CCG; pfam02754 562970005449 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 562970005450 Ligand Binding Site [chemical binding]; other site 562970005451 FAD binding domain; Region: FAD_binding_4; pfam01565 562970005452 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 562970005453 Transcriptional regulators [Transcription]; Region: FadR; COG2186 562970005454 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 562970005455 DNA-binding site [nucleotide binding]; DNA binding site 562970005456 FCD domain; Region: FCD; cl11656 562970005457 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; COG1575 562970005458 UbiA prenyltransferase family; Region: UbiA; cl00337 562970005459 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 562970005460 active site 562970005461 substrate binding site [chemical binding]; other site 562970005462 catalytic site [active] 562970005463 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 562970005464 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...; Region: metallo-dependent_hydrolases; cl00281 562970005465 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...; Region: metallo-dependent_hydrolases; cl00281 562970005466 active site 562970005467 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...; Region: metallo-dependent_hydrolases; cl00281 562970005468 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 562970005469 Isochorismatase family; Region: Isochorismatase; pfam00857 562970005470 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 562970005471 catalytic triad [active] 562970005472 conserved cis-peptide bond; other site 562970005473 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 562970005474 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 562970005475 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...; Region: TM_PBP2; cd06261 562970005476 dimer interface [polypeptide binding]; other site 562970005477 conserved gate region; other site 562970005478 putative PBP binding loops; other site 562970005479 ABC-ATPase subunit interface; other site 562970005480 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 562970005481 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars...; Region: ABC_NrtD_SsuB_transporters; cd03293 562970005482 Walker A/P-loop; other site 562970005483 ATP binding site [chemical binding]; other site 562970005484 Q-loop/lid; other site 562970005485 ABC transporter signature motif; other site 562970005486 Walker B; other site 562970005487 D-loop; other site 562970005488 H-loop/switch region; other site 562970005489 Creatinine amidohydrolase; Region: Creatininase; cl00618 562970005490 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 562970005491 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 562970005492 active site 562970005493 putative substrate binding pocket [chemical binding]; other site 562970005494 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...; Region: metallo-dependent_hydrolases; cl00281 562970005495 active site 562970005496 xanthine dehydrogenase E subunit; Region: pucE; TIGR03198 562970005497 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 562970005498 xanthine dehydrogenase D subunit; Region: pucD; TIGR03196 562970005499 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 562970005500 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 562970005501 xanthine dehydrogenase C subunit; Region: pucC; TIGR03199 562970005502 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 562970005503 TM-ABC transporter signature motif; other site 562970005504 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 562970005505 TM-ABC transporter signature motif; other site 562970005506 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 562970005507 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 562970005508 Walker A/P-loop; other site 562970005509 ATP binding site [chemical binding]; other site 562970005510 Q-loop/lid; other site 562970005511 ABC transporter signature motif; other site 562970005512 Walker B; other site 562970005513 D-loop; other site 562970005514 H-loop/switch region; other site 562970005515 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (; Region: ABC_Carb_Monos_II; cd03215 562970005516 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 562970005517 putative ligand binding site [chemical binding]; other site 562970005518 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 562970005519 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 562970005520 active site 562970005521 putative substrate binding pocket [chemical binding]; other site 562970005522 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU)...; Region: TLP_HIUase; cd05822 562970005523 active site 562970005524 homotetramer interface [polypeptide binding]; other site 562970005525 Uricase (urate oxidase) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3648 562970005526 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 562970005527 active site 562970005528 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 562970005529 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 562970005530 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 562970005531 allantoate amidohydrolase; Reviewed; Region: PRK09290 562970005532 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 562970005533 active site 562970005534 metal binding site [ion binding]; metal-binding site 562970005535 dimer interface [polypeptide binding]; other site 562970005536 M28, and M42; Region: Zinc_peptidase_like; cl14876 562970005537 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 562970005538 metal binding site [ion binding]; metal-binding site 562970005539 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 562970005540 allantoinase; Provisional; Region: PRK06189 562970005541 active site 562970005542 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 562970005543 Nitrogen regulatory protein P-II; Region: P-II; cl00412 562970005544 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 562970005545 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 562970005546 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 562970005547 Probable transposase; Region: OrfB_IS605; pfam01385 562970005548 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970005549 Arginase family; Region: Arginase; cl00306 562970005550 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 562970005551 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 562970005552 putative NAD(P) binding site [chemical binding]; other site 562970005553 dimer interface [polypeptide binding]; other site 562970005554 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 562970005555 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 562970005556 putative NAD(P) binding site [chemical binding]; other site 562970005557 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...; Region: metallo-dependent_hydrolases; cl00281 562970005558 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 562970005559 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 562970005560 dinuclear metal binding motif [ion binding]; other site 562970005561 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 562970005562 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 562970005563 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 562970005564 NAD binding site [chemical binding]; other site 562970005565 substrate binding site [chemical binding]; other site 562970005566 catalytic Zn binding site [ion binding]; other site 562970005567 tetramer interface [polypeptide binding]; other site 562970005568 structural Zn binding site [ion binding]; other site 562970005569 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 562970005570 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 562970005571 putative active site [active] 562970005572 metal binding site [ion binding]; metal-binding site 562970005573 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 562970005574 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 trans-...; Region: HisKA; cd00082 562970005575 dimer interface [polypeptide binding]; other site 562970005576 phosphorylation site [posttranslational modification] 562970005577 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 562970005578 ATP binding site [chemical binding]; other site 562970005579 Mg2+ binding site [ion binding]; other site 562970005580 G-X-G motif; other site 562970005581 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 562970005582 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 562970005583 active site 562970005584 phosphorylation site [posttranslational modification] 562970005585 intermolecular recognition site; other site 562970005586 dimerization interface [polypeptide binding]; other site 562970005587 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...; Region: AAA; cd00009 562970005588 Walker A motif; other site 562970005589 ATP binding site [chemical binding]; other site 562970005590 Walker B motif; other site 562970005591 arginine finger; other site 562970005592 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 562970005593 PAS fold; Region: PAS; pfam00989 562970005594 putative active site [active] 562970005595 heme pocket [chemical binding]; other site 562970005596 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 562970005597 Zn2+ binding site [ion binding]; other site 562970005598 Mg2+ binding site [ion binding]; other site 562970005599 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 562970005600 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 562970005601 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 562970005602 Hydrogenase expression/synthesis hypA family; Region: HypA; cl00418 562970005603 Protein of unknown function (DUF1641); Region: DUF1641; cl01025 562970005604 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 562970005605 heme-binding site [chemical binding]; other site 562970005606 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 562970005607 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 562970005608 S-layer homology domain; Region: SLH; pfam00395 562970005609 S-layer homology domain; Region: SLH; pfam00395 562970005610 Probable transposase; Region: OrfB_IS605; pfam01385 562970005611 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970005612 Transposase IS200 like; Region: Y1_Tnp; cl00848 562970005613 Fic family protein [Function unknown]; Region: COG3177 562970005614 Fic/DOC family; Region: Fic; cl00960 562970005615 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 562970005616 Transcriptional regulators [Transcription]; Region: GntR; COG1802 562970005617 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 562970005618 DNA-binding site [nucleotide binding]; DNA binding site 562970005619 FCD domain; Region: FCD; cl11656 562970005620 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 562970005621 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 562970005622 Formaldehyde dehydrogenases; Region: FDH_like; cd05278 562970005623 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 562970005624 catalytic Zn binding site [ion binding]; other site 562970005625 NAD(P) binding site [chemical binding]; other site 562970005626 structural Zn binding site [ion binding]; other site 562970005627 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 562970005628 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 562970005629 catalytic loop [active] 562970005630 iron binding site [ion binding]; other site 562970005631 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron...; Region: FNR_like; cl06868 562970005632 FAD binding pocket [chemical binding]; other site 562970005633 conserved FAD binding motif [chemical binding]; other site 562970005634 phosphate binding motif [ion binding]; other site 562970005635 beta-alpha-beta structure motif; other site 562970005636 NAD binding pocket [chemical binding]; other site 562970005637 Aromatic and Alkene Monooxygenase Hydroxylase, subunit B, ferritin-like diiron-binding domain; Region: AAMH_B; cd01058 562970005638 dimerization interface [polypeptide binding]; other site 562970005639 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 562970005640 Toluene-4-monooxygenase effector protein complex (T4mo), Rieske ferredoxin subunit; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. T4mo is a four-protein complex that catalyzes the NADH- and O2-dependent...; Region: Rieske_T4moC; cd03474 562970005641 [2Fe-2S] cluster binding site [ion binding]; other site 562970005642 Toluene-4-monooxygenase system protein B (TmoB); Region: TmoB; pfam06234 562970005643 Aromatic and Alkene Monooxygenase Hydroxylase, subunit A, ferritin-like diiron-binding domain; Region: AAMH_A; cd01057 562970005644 dimerization interface [polypeptide binding]; other site 562970005645 putative path to active site cavity [active] 562970005646 diiron center [ion binding]; other site 562970005647 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 562970005648 N-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_N; cd07265 562970005649 tetramer interface [polypeptide binding]; other site 562970005650 C-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_C; cd07243 562970005651 tetramer interface [polypeptide binding]; other site 562970005652 active site 562970005653 Fe binding site [ion binding]; other site 562970005654 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 562970005655 catalytic loop [active] 562970005656 iron binding site [ion binding]; other site 562970005657 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 562970005658 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 562970005659 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 562970005660 active site 1 [active] 562970005661 dimer interface [polypeptide binding]; other site 562970005662 hexamer interface [polypeptide binding]; other site 562970005663 active site 2 [active] 562970005664 Flavin Reductases; Region: FlaRed; cl00801 562970005665 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 562970005666 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 562970005667 Coenzyme A binding pocket [chemical binding]; other site 562970005668 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 562970005669 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 562970005670 acetyl-CoA synthetase; Provisional; Region: PRK04319 562970005671 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 562970005672 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970005673 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 562970005674 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 562970005675 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 562970005676 homodimer interface [polypeptide binding]; other site 562970005677 substrate-cofactor binding pocket; other site 562970005678 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970005679 catalytic residue [active] 562970005680 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 562970005681 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 562970005682 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 562970005683 ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the...; Region: ABC_drug_resistance_like; cd03264 562970005684 Walker A/P-loop; other site 562970005685 ATP binding site [chemical binding]; other site 562970005686 Q-loop/lid; other site 562970005687 ABC transporter signature motif; other site 562970005688 Walker B; other site 562970005689 D-loop; other site 562970005690 H-loop/switch region; other site 562970005691 Protein of unknown function (DUF964); Region: DUF964; cl01483 562970005692 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 562970005693 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; cl00207 562970005694 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 562970005695 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; cl11391 562970005696 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 562970005697 dimerization interface [polypeptide binding]; other site 562970005698 putative DNA binding site [nucleotide binding]; other site 562970005699 putative Zn2+ binding site [ion binding]; other site 562970005700 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 562970005701 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 562970005702 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 562970005703 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 D-arabino-6-...; Region: AP2Ec; cl12060 562970005704 AP (apurinic/apyrimidinic) site pocket; other site 562970005705 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 562970005706 DNA interaction; other site 562970005707 Metal-binding active site; metal-binding site 562970005708 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...; Region: TM_PBP2; cd06261 562970005709 dimer interface [polypeptide binding]; other site 562970005710 conserved gate region; other site 562970005711 putative PBP binding loops; other site 562970005712 ABC-ATPase subunit interface; other site 562970005713 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...; Region: TM_PBP2; cd06261 562970005714 dimer interface [polypeptide binding]; other site 562970005715 conserved gate region; other site 562970005716 putative PBP binding loops; other site 562970005717 ABC-ATPase subunit interface; other site 562970005718 FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 562970005719 putative active site [active] 562970005720 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 562970005721 TIGR02679 family protein; Region: TIGR02679 562970005722 Protein of unknown function N-terminus (DUF3323); Region: DUF3323; pfam11796 562970005723 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 562970005724 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 562970005725 HEPN domain; Region: HEPN; cl00824 562970005726 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 562970005727 Ferritin-like domain; Region: Ferritin; pfam00210 562970005728 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 562970005729 dimerization interface [polypeptide binding]; other site 562970005730 DPS ferroxidase diiron center [ion binding]; other site 562970005731 ion pore; other site 562970005732 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 562970005733 Rhodopirellula transposase; Region: DDE_Tnp_ISAZ013; pfam07592 562970005734 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 562970005735 Telomeric repeat-binding factor 2; Region: TRF2; pfam11611 562970005736 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 562970005737 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 562970005738 Probable transposase; Region: OrfB_IS605; pfam01385 562970005739 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970005740 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 562970005741 catalytic residues [active] 562970005742 catalytic nucleophile [active] 562970005743 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 562970005744 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...; Region: Heme_Cu_Oxidase_I; cl00275 562970005745 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 562970005746 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 562970005747 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 562970005748 putative transposase OrfB; Reviewed; Region: PHA02517 562970005749 Integrase core domain; Region: rve; cl01316 562970005750 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 562970005751 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 562970005752 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 562970005753 DXD motif; other site 562970005754 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 562970005755 Major Facilitator Superfamily; Region: MFS_1; pfam07690 562970005756 putative substrate translocation pore; other site 562970005757 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970005758 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 562970005759 intersubunit interface [polypeptide binding]; other site 562970005760 active site 562970005761 Zn2+ binding site [ion binding]; other site 562970005762 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 562970005763 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 562970005764 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 562970005765 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 562970005766 DNA binding site [nucleotide binding] 562970005767 Int/Topo IB signature motif; other site 562970005768 active site 562970005769 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 562970005770 Putative transposase; Region: Y2_Tnp; pfam04986 562970005771 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 562970005772 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 562970005773 DNA binding residues [nucleotide binding] 562970005774 putative dimer interface [polypeptide binding]; other site 562970005775 enoyl-CoA hydratase; Provisional; Region: PRK08259 562970005776 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 562970005777 substrate binding site [chemical binding]; other site 562970005778 oxyanion hole (OAH) forming residues; other site 562970005779 trimer interface [polypeptide binding]; other site 562970005780 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 562970005781 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970005782 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 562970005783 SmpB-tmRNA interface; other site 562970005784 ribonuclease R; Region: RNase_R; TIGR02063 562970005785 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 562970005786 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 562970005787 RNB domain; Region: RNB; pfam00773 562970005788 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an...; Region: S1_RNase_R; cd04471 562970005789 RNA binding site [nucleotide binding]; other site 562970005790 Esterase/lipase [General function prediction only]; Region: COG1647 562970005791 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 562970005792 enolase; Provisional; Region: eno; PRK00077 562970005793 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 562970005794 dimer interface [polypeptide binding]; other site 562970005795 metal binding site [ion binding]; metal-binding site 562970005796 substrate binding pocket [chemical binding]; other site 562970005797 Sulfatase; Region: Sulfatase; cl10460 562970005798 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 562970005799 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 562970005800 substrate binding site [chemical binding]; other site 562970005801 dimer interface [polypeptide binding]; other site 562970005802 catalytic triad [active] 562970005803 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 562970005804 substrate binding site [chemical binding]; other site 562970005805 hinge regions; other site 562970005806 ADP binding site [chemical binding]; other site 562970005807 catalytic site [active] 562970005808 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970005809 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 562970005810 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 562970005811 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 562970005812 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 562970005813 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 562970005814 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 562970005815 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 562970005816 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 562970005817 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970005818 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 562970005819 UvrD/REP helicase; Region: UvrD-helicase; cl14126 562970005820 UvrD/REP helicase; Region: UvrD-helicase; cl14126 562970005821 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 562970005822 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 562970005823 ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]; Region: AddB; COG3857 562970005824 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 562970005825 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 562970005826 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 562970005827 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 562970005828 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 562970005829 Uncharacterised protein family UPF0052; Region: UPF0052; pfam01933 562970005830 phosphate binding site [ion binding]; other site 562970005831 putative substrate binding pocket [chemical binding]; other site 562970005832 dimer interface [polypeptide binding]; other site 562970005833 P-loop ATPase protein family; Region: ATP_bind_2; cl10035 562970005834 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 562970005835 binding surface 562970005836 TPR motif; other site 562970005837 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 562970005838 TPR motif; other site 562970005839 binding surface 562970005840 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 562970005841 phosphoethanolamine N-methyltransferase; Region: PLN02336 562970005842 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 562970005843 S-adenosylmethionine binding site [chemical binding]; other site 562970005844 acyl-CoA synthetase; Validated; Region: PRK08162 562970005845 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970005846 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 562970005847 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 562970005848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970005849 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 562970005850 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 562970005851 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970005852 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 562970005853 active site 562970005854 catalytic residues [active] 562970005855 metal binding site [ion binding]; metal-binding site 562970005856 CoA-transferase family III; Region: CoA_transf_3; cl00778 562970005857 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 562970005858 putative substrate translocation pore; other site 562970005859 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 562970005860 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 562970005861 Transcriptional regulators [Transcription]; Region: FadR; COG2186 562970005862 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 562970005863 DNA-binding site [nucleotide binding]; DNA binding site 562970005864 FCD domain; Region: FCD; cl11656 562970005865 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 562970005866 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 562970005867 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 562970005868 Imidazoleglycerol-phosphate synthase [Amino acid transport and metabolism]; Region: HisF; COG0107 562970005869 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)-formimino-5-; Region: HisF; cd04731 562970005870 substrate binding site [chemical binding]; other site 562970005871 glutamase interaction surface [polypeptide binding]; other site 562970005872 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 562970005873 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 562970005874 catalytic residues [active] 562970005875 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 562970005876 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 562970005877 putative active site [active] 562970005878 oxyanion strand; other site 562970005879 catalytic triad [active] 562970005880 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 562970005881 putative active site pocket [active] 562970005882 4-fold oligomerization interface [polypeptide binding]; other site 562970005883 metal binding residues [ion binding]; metal-binding site 562970005884 3-fold/trimer interface [polypeptide binding]; other site 562970005885 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 oxidation of L-histidinol to L-...; Region: Histidinol_dh; cd06572 562970005886 NAD binding site [chemical binding]; other site 562970005887 dimerization interface [polypeptide binding]; other site 562970005888 product binding site; other site 562970005889 substrate binding site [chemical binding]; other site 562970005890 zinc binding site [ion binding]; other site 562970005891 catalytic residues [active] 562970005892 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 562970005893 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 562970005894 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 562970005895 dimer interface [polypeptide binding]; other site 562970005896 motif 1; other site 562970005897 active site 562970005898 motif 2; other site 562970005899 motif 3; other site 562970005900 Flavin Reductases; Region: FlaRed; cl00801 562970005901 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 562970005902 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 562970005903 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 562970005904 putative peptidoglycan binding site; other site 562970005905 G5 domain; Region: G5; pfam07501 562970005906 Peptidase family M23; Region: Peptidase_M23; pfam01551 562970005907 Membrane protein of unknown function; Region: DUF360; cl00850 562970005908 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 562970005909 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 562970005910 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 562970005911 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 562970005912 excinuclease ABC subunit B; Provisional; Region: PRK05298 562970005913 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 562970005914 ATP binding site [chemical binding]; other site 562970005915 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 562970005916 nucleotide binding region [chemical binding]; other site 562970005917 ATP-binding site [chemical binding]; other site 562970005918 Ultra-violet resistance protein B; Region: UvrB; pfam12344 562970005919 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830; cl07951 562970005920 flagellar motor protein MotD; Reviewed; Region: PRK09038 562970005921 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 562970005922 ligand binding site [chemical binding]; other site 562970005923 flagellar motor protein MotA; Validated; Region: PRK08124 562970005924 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 562970005925 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 C-...; Region: PDZ_serine_protease; cd00987 562970005926 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 562970005927 C-terminal peptidase (prc); Region: prc; TIGR00225 562970005928 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 562970005929 protein binding site [polypeptide binding]; other site 562970005930 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 562970005931 Catalytic dyad [active] 562970005932 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 562970005933 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 562970005934 FtsX-like permease family; Region: FtsX; pfam02687 562970005935 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 562970005936 FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane. The FtsE/X transporter is thought to be involved in cell division...; Region: ABC_FtsE_transporter; cd03292 562970005937 Walker A/P-loop; other site 562970005938 ATP binding site [chemical binding]; other site 562970005939 Q-loop/lid; other site 562970005940 ABC transporter signature motif; other site 562970005941 Walker B; other site 562970005942 D-loop; other site 562970005943 H-loop/switch region; other site 562970005944 UreD urease accessory protein; Region: UreD; cl00530 562970005945 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 562970005946 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 562970005947 UreF; Region: UreF; pfam01730 562970005948 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_beta; cd00407 562970005949 gamma-beta subunit interface [polypeptide binding]; other site 562970005950 alpha-beta subunit interface [polypeptide binding]; other site 562970005951 urease subunit alpha; Reviewed; Region: ureC; PRK13207 562970005952 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 562970005953 subunit interactions [polypeptide binding]; other site 562970005954 active site 562970005955 flap region; other site 562970005956 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 562970005957 alpha-gamma subunit interface [polypeptide binding]; other site 562970005958 beta-gamma subunit interface [polypeptide binding]; other site 562970005959 Ion channel; Region: Ion_trans_2; cl11596 562970005960 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970005961 S-layer homology domain; Region: SLH; pfam00395 562970005962 argininosuccinate lyase; Provisional; Region: PRK00855 562970005963 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 562970005964 active sites [active] 562970005965 tetramer interface [polypeptide binding]; other site 562970005966 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 562970005967 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 562970005968 ANP binding site [chemical binding]; other site 562970005969 Substrate Binding Site II [chemical binding]; other site 562970005970 Substrate Binding Site I [chemical binding]; other site 562970005971 ornithine carbamoyltransferase; Provisional; Region: PRK00779 562970005972 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 562970005973 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 562970005974 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 562970005975 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 562970005976 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 562970005977 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 562970005978 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 562970005979 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 562970005980 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 562970005981 substrate binding site [chemical binding]; other site 562970005982 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 562970005983 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 562970005984 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 562970005985 catalytic site [active] 562970005986 subunit interface [polypeptide binding]; other site 562970005987 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 562970005988 FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 562970005989 putative active site [active] 562970005990 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 562970005991 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 562970005992 CGNR zinc finger; Region: zf-CGNR; pfam11706 562970005993 Phd_YefM; Region: PhdYeFM; cl09153 562970005994 Integrase core domain; Region: rve; cl01316 562970005995 Protein of unknown function DUF262; Region: DUF262; cl14890 562970005996 Protein of unknown function DUF262; Region: DUF262; cl14890 562970005997 Uncharacterized conserved protein [Function unknown]; Region: COG3586 562970005998 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 562970005999 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 562970006000 generic binding surface II; other site 562970006001 generic binding surface I; other site 562970006002 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 562970006003 replication factor A; Reviewed; Region: PRK12366 562970006004 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 562970006005 S-layer homology domain; Region: SLH; pfam00395 562970006006 S-layer homology domain; Region: SLH; pfam00395 562970006007 Transposase [DNA replication, recombination, and repair]; Region: COG5421 562970006008 Integrase core domain; Region: rve; cl01316 562970006009 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 562970006010 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 562970006011 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 562970006012 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 562970006013 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 562970006014 putative active site [active] 562970006015 catalytic site [active] 562970006016 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 562970006017 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 562970006018 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...; Region: Sigma70_r4; cd06171 562970006019 DNA binding residues [nucleotide binding] 562970006020 mycothiol system anti-sigma-R factor; Region: antisig_RsrA; cl11829 562970006021 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 562970006022 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 562970006023 putative substrate translocation pore; other site 562970006024 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 562970006025 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 562970006026 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 562970006027 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 562970006028 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 562970006029 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970006030 Walker A/P-loop; other site 562970006031 ATP binding site [chemical binding]; other site 562970006032 Q-loop/lid; other site 562970006033 ABC transporter signature motif; other site 562970006034 Walker B; other site 562970006035 D-loop; other site 562970006036 H-loop/switch region; other site 562970006037 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 562970006038 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970006039 Walker A/P-loop; other site 562970006040 ATP binding site [chemical binding]; other site 562970006041 Q-loop/lid; other site 562970006042 ABC transporter signature motif; other site 562970006043 Walker B; other site 562970006044 D-loop; other site 562970006045 H-loop/switch region; other site 562970006046 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 562970006047 Domain of unknown function (DUF955); Region: DUF955; cl01076 562970006048 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 562970006049 UvrD/REP helicase; Region: UvrD-helicase; cl14126 562970006050 UvrD/REP helicase; Region: UvrD-helicase; cl14126 562970006051 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 562970006052 DNA-binding site [nucleotide binding]; DNA binding site 562970006053 RNA-binding motif; other site 562970006054 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 562970006055 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 562970006056 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 562970006057 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 562970006058 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 562970006059 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 562970006060 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 562970006061 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl11817 562970006062 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 562970006063 Vacuolar (H+)-ATPase G subunit; Region: V-ATPase_G; cl03922 562970006064 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 562970006065 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 562970006066 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 562970006067 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 562970006068 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...; Region: TM_PBP2; cl00427 562970006069 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 562970006070 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars...; Region: ABC_NrtD_SsuB_transporters; cd03293 562970006071 Walker A/P-loop; other site 562970006072 ATP binding site [chemical binding]; other site 562970006073 Q-loop/lid; other site 562970006074 ABC transporter signature motif; other site 562970006075 Walker B; other site 562970006076 D-loop; other site 562970006077 H-loop/switch region; other site 562970006078 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 562970006079 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 562970006080 putative homotetramer interface [polypeptide binding]; other site 562970006081 putative homodimer interface [polypeptide binding]; other site 562970006082 putative metal binding site [ion binding]; other site 562970006083 putative homodimer-homodimer interface [polypeptide binding]; other site 562970006084 putative allosteric switch controlling residues; other site 562970006085 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 562970006086 Cation efflux family; Region: Cation_efflux; cl00316 562970006087 Protein of unknown function (DUF1453); Region: DUF1453; cl02009 562970006088 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 562970006089 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 562970006090 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970006091 Bacterial protein of unknown function (DUF910); Region: DUF910; cl11543 562970006092 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 562970006093 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 562970006094 RNA binding surface [nucleotide binding]; other site 562970006095 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 562970006096 active site 562970006097 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 562970006098 acetylornithine aminotransferase; Provisional; Region: PRK02627 562970006099 inhibitor-cofactor binding pocket; inhibition site 562970006100 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970006101 catalytic residue [active] 562970006102 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...; Region: AAK_NAGK-C; cd04250 562970006103 feedback inhibition sensing region; other site 562970006104 homohexameric interface [polypeptide binding]; other site 562970006105 nucleotide binding site [chemical binding]; other site 562970006106 N-acetyl-L-glutamate binding site [chemical binding]; other site 562970006107 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...; Region: OAT; cd02152 562970006108 heterotetramer interface [polypeptide binding]; other site 562970006109 active site pocket [active] 562970006110 cleavage site 562970006111 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 562970006112 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970006113 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 562970006114 Integral membrane protein TerC family; Region: TerC; cl10468 562970006115 Chromate transporter; Region: Chromate_transp; pfam02417 562970006116 Chromate transporter; Region: Chromate_transp; pfam02417 562970006117 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 562970006118 EamA-like transporter family; Region: EamA; cl01037 562970006119 EamA-like transporter family; Region: EamA; cl01037 562970006120 Uncharacterized conserved protein [Function unknown]; Region: COG4717 562970006121 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970006122 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 562970006123 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 562970006124 active site 562970006125 metal binding site [ion binding]; metal-binding site 562970006126 DNA binding site [nucleotide binding] 562970006127 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 562970006128 Predicted membrane protein [Function unknown]; Region: COG1971 562970006129 UDP-D-galactose:(glucosyl)lipopolysaccharide-1, 6-D-galactosyltransferase; Provisional; Region: PRK09922 562970006130 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 562970006131 putative ADP-binding pocket [chemical binding]; other site 562970006132 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 562970006133 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 562970006134 active site 562970006135 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 562970006136 S-adenosylmethionine binding site [chemical binding]; other site 562970006137 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 562970006138 Major Facilitator Superfamily; Region: MFS_1; pfam07690 562970006139 putative substrate translocation pore; other site 562970006140 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 562970006141 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 562970006142 dimerization interface [polypeptide binding]; other site 562970006143 putative DNA binding site [nucleotide binding]; other site 562970006144 putative Zn2+ binding site [ion binding]; other site 562970006145 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 562970006146 active site residue [active] 562970006147 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 562970006148 putative substrate translocation pore; other site 562970006149 Major Facilitator Superfamily; Region: MFS_1; pfam07690 562970006150 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 562970006151 putative substrate translocation pore; other site 562970006152 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 562970006153 Protein of unknown function DUF45; Region: DUF45; cl00636 562970006154 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...; Region: ACD_sHsps-like; cd06464 562970006155 putative dimer interface [polypeptide binding]; other site 562970006156 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 562970006157 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 562970006158 active site 562970006159 HIGH motif; other site 562970006160 dimer interface [polypeptide binding]; other site 562970006161 KMSKS motif; other site 562970006162 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 562970006163 RNA binding surface [nucleotide binding]; other site 562970006164 Transglycosylase; Region: Transgly; cl07896 562970006165 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 562970006166 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 562970006167 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 562970006168 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 562970006169 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 562970006170 Walker A/P-loop; other site 562970006171 ATP binding site [chemical binding]; other site 562970006172 Q-loop/lid; other site 562970006173 ABC transporter signature motif; other site 562970006174 Walker B; other site 562970006175 D-loop; other site 562970006176 H-loop/switch region; other site 562970006177 Smr domain; Region: Smr; cl02619 562970006178 Membrane protein of unknown function; Region: DUF360; cl00850 562970006179 Cell division protein ZapA; Region: ZapA; cl01146 562970006180 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 562970006181 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 562970006182 putative tRNA-binding site [nucleotide binding]; other site 562970006183 B3/4 domain; Region: B3_4; cl11458 562970006184 tRNA synthetase B5 domain; Region: B5; cl08394 562970006185 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 562970006186 dimer interface [polypeptide binding]; other site 562970006187 motif 1; other site 562970006188 motif 3; other site 562970006189 motif 2; other site 562970006190 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 562970006191 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 562970006192 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 562970006193 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 562970006194 dimer interface [polypeptide binding]; other site 562970006195 motif 1; other site 562970006196 active site 562970006197 motif 2; other site 562970006198 motif 3; other site 562970006199 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 562970006200 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 562970006201 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 562970006202 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 562970006203 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 562970006204 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970006205 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; cl09110 562970006206 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 562970006207 Cation transport protein; Region: TrkH; cl10514 562970006208 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 562970006209 23S rRNA binding site [nucleotide binding]; other site 562970006210 L21 binding site [polypeptide binding]; other site 562970006211 L13 binding site [polypeptide binding]; other site 562970006212 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 562970006213 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 562970006214 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 562970006215 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 562970006216 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 562970006217 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...; Region: TGS_ThrRS_N; cd01667 562970006218 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 562970006219 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 562970006220 active site 562970006221 dimer interface [polypeptide binding]; other site 562970006222 motif 1; other site 562970006223 motif 2; other site 562970006224 motif 3; other site 562970006225 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 562970006226 anticodon binding site; other site 562970006227 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 562970006228 active site 562970006229 metal binding site [ion binding]; metal-binding site 562970006230 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 562970006231 CoenzymeA binding site [chemical binding]; other site 562970006232 subunit interaction site [polypeptide binding]; other site 562970006233 PHB binding site; other site 562970006234 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 562970006235 Transposase; Region: DEDD_Tnp_IS110; pfam01548 562970006236 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 562970006237 Transcriptional regulators [Transcription]; Region: FadR; COG2186 562970006238 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 562970006239 DNA-binding site [nucleotide binding]; DNA binding site 562970006240 FCD domain; Region: FCD; cl11656 562970006241 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 562970006242 inter-subunit interface; other site 562970006243 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)...; Region: Rieske; cl00938 562970006244 iron-sulfur cluster [ion binding]; other site 562970006245 [2Fe-2S] cluster binding site [ion binding]; other site 562970006246 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 562970006247 beta subunit interface [polypeptide binding]; other site 562970006248 alpha subunit interface [polypeptide binding]; other site 562970006249 active site 562970006250 substrate binding site [chemical binding]; other site 562970006251 Fe binding site [ion binding]; other site 562970006252 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 562970006253 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 562970006254 active site 562970006255 metal binding site [ion binding]; metal-binding site 562970006256 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 562970006257 dimer interface [polypeptide binding]; other site 562970006258 tetramer interface [polypeptide binding]; other site 562970006259 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 562970006260 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 562970006261 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 562970006262 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 562970006263 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 562970006264 Cupin domain; Region: Cupin_2; cl09118 562970006265 Cupin domain; Region: Cupin_2; cl09118 562970006266 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 562970006267 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 562970006268 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970006269 Transcriptional regulator [Transcription]; Region: IclR; COG1414 562970006270 Bacterial transcriptional regulator; Region: IclR; pfam01614 562970006271 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 562970006272 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 562970006273 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 562970006274 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 562970006275 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 562970006276 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 562970006277 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 562970006278 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 562970006279 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...; Region: AAA; cd00009 562970006280 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 562970006281 Walker A motif; other site 562970006282 ATP binding site [chemical binding]; other site 562970006283 Walker B motif; other site 562970006284 arginine finger; other site 562970006285 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 562970006286 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 562970006287 putative NAD(P) binding site [chemical binding]; other site 562970006288 putative active site [active] 562970006289 enoyl-CoA hydratase; Provisional; Region: PRK08140 562970006290 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 562970006291 substrate binding site [chemical binding]; other site 562970006292 oxyanion hole (OAH) forming residues; other site 562970006293 trimer interface [polypeptide binding]; other site 562970006294 enoyl-CoA hydratase; Provisional; Region: PRK07327 562970006295 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 562970006296 substrate binding site [chemical binding]; other site 562970006297 oxyanion hole (OAH) forming residues; other site 562970006298 trimer interface [polypeptide binding]; other site 562970006299 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 562970006300 active site 2 [active] 562970006301 active site 1 [active] 562970006302 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 562970006303 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 562970006304 NAD(P) binding site [chemical binding]; other site 562970006305 catalytic residues [active] 562970006306 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970006307 Transcriptional regulator [Transcription]; Region: IclR; COG1414 562970006308 Bacterial transcriptional regulator; Region: IclR; pfam01614 562970006309 Cupin domain; Region: Cupin_2; cl09118 562970006310 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 562970006311 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 562970006312 active site 562970006313 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 562970006314 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 562970006315 active site 562970006316 metal binding site [ion binding]; metal-binding site 562970006317 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 562970006318 active site 562970006319 metal binding site [ion binding]; metal-binding site 562970006320 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 562970006321 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 562970006322 active site 562970006323 metal binding site [ion binding]; metal-binding site 562970006324 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 562970006325 active site 562970006326 metal binding site [ion binding]; metal-binding site 562970006327 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 562970006328 catalytic loop [active] 562970006329 iron binding site [ion binding]; other site 562970006330 putative indolepyruvate oxidoreductase subunit B; Reviewed; Region: PRK08312 562970006331 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 562970006332 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 562970006333 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 562970006334 dimer interface [polypeptide binding]; other site 562970006335 PYR/PP interface [polypeptide binding]; other site 562970006336 TPP binding site [chemical binding]; other site 562970006337 substrate binding site [chemical binding]; other site 562970006338 TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as indolepyruvate or phenylpyruvate, which are generated by the...; Region: TPP_IOR_alpha; cd02008 562970006339 TPP-binding site; other site 562970006340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 562970006341 NlpC/P60 family; Region: NLPC_P60; cl11438 562970006342 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 562970006343 putative active site [active] 562970006344 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 562970006345 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 562970006346 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 562970006347 substrate binding site [chemical binding]; other site 562970006348 oxyanion hole (OAH) forming residues; other site 562970006349 trimer interface [polypeptide binding]; other site 562970006350 Thymidylate synthase complementing protein; Region: Thy1; cl03630 562970006351 Thymidylate synthase complementing protein; Region: Thy1; cl03630 562970006352 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 562970006353 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 562970006354 DNA binding residues [nucleotide binding] 562970006355 Peptidase family M48; Region: Peptidase_M48; cl12018 562970006356 Phosphate transporter family; Region: PHO4; cl00396 562970006357 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 562970006358 Peptidase family M23; Region: Peptidase_M23; pfam01551 562970006359 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 562970006360 FOG: CBS domain [General function prediction only]; Region: COG0517 562970006361 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-...; Region: CBS_pair_9; cd04622 562970006362 Phage holin protein (Holin_LLH); Region: Holin_LLH; cl09890 562970006363 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 562970006364 Bacillus subtilis (Bs) citrate synthase (CS)-II_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes...; Region: BSuCS-II_like; cd06110 562970006365 dimer interface [polypeptide binding]; other site 562970006366 Citrate synthase; Region: Citrate_synt; pfam00285 562970006367 active site 562970006368 citrylCoA binding site [chemical binding]; other site 562970006369 oxalacetate/citrate binding site [chemical binding]; other site 562970006370 coenzyme A binding site [chemical binding]; other site 562970006371 catalytic triad [active] 562970006372 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 562970006373 MoaE homodimer interface [polypeptide binding]; other site 562970006374 MoaD interaction [polypeptide binding]; other site 562970006375 active site residues [active] 562970006376 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 562970006377 MoaE interaction surface [polypeptide binding]; other site 562970006378 MoeB interaction surface [polypeptide binding]; other site 562970006379 thiocarboxylated glycine; other site 562970006380 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 562970006381 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 562970006382 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 562970006383 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 562970006384 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 562970006385 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 562970006386 NAD(P) binding site [chemical binding]; other site 562970006387 Ubiquitin fusion degradation protein UFD1; Region: UFD1; pfam03152 562970006388 transcriptional repressor CodY; Validated; Region: PRK04158 562970006389 CodY GAF-like domain; Region: CodY; pfam06018 562970006390 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 562970006391 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 562970006392 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 562970006393 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 562970006394 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 562970006395 substrate binding site [chemical binding]; other site 562970006396 ligand binding site [chemical binding]; other site 562970006397 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 3-...; Region: IPMI_Swivel; cd01577 562970006398 substrate binding site [chemical binding]; other site 562970006399 Coat F domain; Region: Coat_F; cl02368 562970006400 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 562970006401 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970006402 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 562970006403 active site 562970006404 putative substrate binding region [chemical binding]; other site 562970006405 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 562970006406 Flagellar protein YcgR; Region: YcgR_2; pfam12945 562970006407 PilZ domain; Region: PilZ; cl01260 562970006408 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 562970006409 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 562970006410 E3 interaction surface; other site 562970006411 lipoyl attachment site [posttranslational modification]; other site 562970006412 e3 binding domain; Region: E3_binding; pfam02817 562970006413 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 562970006414 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 562970006415 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 562970006416 alpha subunit interface [polypeptide binding]; other site 562970006417 TPP binding site [chemical binding]; other site 562970006418 heterodimer interface [polypeptide binding]; other site 562970006419 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 562970006420 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 562970006421 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 562970006422 tetramer interface [polypeptide binding]; other site 562970006423 TPP-binding site [chemical binding]; other site 562970006424 heterodimer interface [polypeptide binding]; other site 562970006425 phosphorylation loop region [posttranslational modification] 562970006426 GAF domain; Region: GAF; cl00853 562970006427 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 562970006428 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...; Region: AAA; cd00009 562970006429 Walker B motif; other site 562970006430 arginine finger; other site 562970006431 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 562970006432 Protein of unknown function (DUF3055); Region: DUF3055; pfam11256 562970006433 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by...; Region: PRX_BCP; cd03017 562970006434 catalytic triad [active] 562970006435 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 562970006436 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...; Region: AAA; cd00009 562970006437 Walker A motif; other site 562970006438 ATP binding site [chemical binding]; other site 562970006439 Walker B motif; other site 562970006440 arginine finger; other site 562970006441 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 higher-...; Region: HU_IHF; cd00591 562970006442 IHF dimer interface [polypeptide binding]; other site 562970006443 IHF - DNA interface [nucleotide binding]; other site 562970006444 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 562970006445 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970006446 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 562970006447 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 562970006448 RNA binding surface [nucleotide binding]; other site 562970006449 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 562970006450 active site 562970006451 uracil binding [chemical binding]; other site 562970006452 Bacillus subtilis (Bs) citrate synthase CS-I_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes the...; Region: BsCS-I_like; cd06109 562970006453 dimer interface [polypeptide binding]; other site 562970006454 Citrate synthase; Region: Citrate_synt; pfam00285 562970006455 active site 562970006456 citrylCoA binding site [chemical binding]; other site 562970006457 oxalacetate/citrate binding site [chemical binding]; other site 562970006458 coenzyme A binding site [chemical binding]; other site 562970006459 catalytic triad [active] 562970006460 phage shock protein A; Region: phageshock_pspA; TIGR02977 562970006461 phage shock protein PspA; Provisional; Region: PRK10698 562970006462 Predicted membrane protein [Function unknown]; Region: COG3766 562970006463 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 562970006464 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 562970006465 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 562970006466 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 562970006467 Cysteine-rich domain; Region: CCG; pfam02754 562970006468 Cysteine-rich domain; Region: CCG; pfam02754 562970006469 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...; Region: TM_ABC_iron-siderophores_like; cd06550 562970006470 dimer interface [polypeptide binding]; other site 562970006471 putative PBP binding regions; other site 562970006472 ABC-ATPase subunit interface; other site 562970006473 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 562970006474 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 562970006475 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...; Region: TroA-like; cl00262 562970006476 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 562970006477 intersubunit interface [polypeptide binding]; other site 562970006478 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 562970006479 metal binding site 2 [ion binding]; metal-binding site 562970006480 putative DNA binding helix; other site 562970006481 metal binding site 1 [ion binding]; metal-binding site 562970006482 dimer interface [polypeptide binding]; other site 562970006483 structural Zn2+ binding site [ion binding]; other site 562970006484 cell division protein GpsB; Provisional; Region: PRK14127 562970006485 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 562970006486 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 562970006487 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 562970006488 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]; Region: COG4262 562970006489 OpgC protein; Region: OpgC_C; cl10497 562970006490 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; cl12011 562970006491 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 562970006492 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 562970006493 putative substrate translocation pore; other site 562970006494 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 562970006495 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 562970006496 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...; Region: Sigma70_r4; cd06171 562970006497 DNA binding residues [nucleotide binding] 562970006498 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 562970006499 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 562970006500 Cache domain; Region: Cache_1; pfam02743 562970006501 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 562970006502 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 562970006503 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 562970006504 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 562970006505 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 562970006506 N-acetyl-D-glucosamine binding site [chemical binding]; other site 562970006507 catalytic residue [active] 562970006508 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 562970006509 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 562970006510 CoA-binding site [chemical binding]; other site 562970006511 ATP-binding [chemical binding]; other site 562970006512 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 562970006513 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 562970006514 DNA binding site [nucleotide binding] 562970006515 catalytic residue [active] 562970006516 H2TH interface [polypeptide binding]; other site 562970006517 putative catalytic residues [active] 562970006518 turnover-facilitating residue; other site 562970006519 intercalation triad [nucleotide binding]; other site 562970006520 8OG recognition residue [nucleotide binding]; other site 562970006521 putative reading head residues; other site 562970006522 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 562970006523 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 562970006524 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 562970006525 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)...; Region: Rieske; cd03467 562970006526 iron-sulfur cluster [ion binding]; other site 562970006527 [2Fe-2S] cluster binding site [ion binding]; other site 562970006528 DNA polymerase I; Provisional; Region: PRK05755 562970006529 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 562970006530 active site 562970006531 metal binding site 1 [ion binding]; metal-binding site 562970006532 putative 5' ssDNA interaction site; other site 562970006533 metal binding site 3; metal-binding site 562970006534 metal binding site 2 [ion binding]; metal-binding site 562970006535 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 562970006536 putative DNA binding site [nucleotide binding]; other site 562970006537 putative metal binding site [ion binding]; other site 562970006538 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 562970006539 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 562970006540 active site 562970006541 DNA binding site [nucleotide binding] 562970006542 catalytic site [active] 562970006543 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 562970006544 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 562970006545 peptide binding site [polypeptide binding]; other site 562970006546 malate dehydrogenase; Reviewed; Region: PRK06223 562970006547 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 562970006548 NAD(P) binding site [chemical binding]; other site 562970006549 dimer interface [polypeptide binding]; other site 562970006550 tetramer (dimer of dimers) interface [polypeptide binding]; other site 562970006551 substrate binding site [chemical binding]; other site 562970006552 isocitrate dehydrogenase; Validated; Region: PRK07362 562970006553 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 562970006554 pyruvate kinase; Provisional; Region: PRK06354 562970006555 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 562970006556 domain interfaces; other site 562970006557 active site 562970006558 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 562970006559 6-phosphofructokinase; Provisional; Region: PRK03202 562970006560 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases...; Region: PFK; cl00204 562970006561 active site 562970006562 ADP/pyrophosphate binding site [chemical binding]; other site 562970006563 dimerization interface [polypeptide binding]; other site 562970006564 allosteric effector site; other site 562970006565 fructose-1,6-bisphosphate binding site; other site 562970006566 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 562970006567 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 562970006568 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 562970006569 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 562970006570 Malic enzyme, N-terminal domain; Region: malic; pfam00390 562970006571 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 562970006572 putative NAD(P) binding site [chemical binding]; other site 562970006573 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 562970006574 tetramer interfaces [polypeptide binding]; other site 562970006575 binuclear metal-binding site [ion binding]; other site 562970006576 DNA-directed DNA polymerase III (polc); Region: polc; TIGR00594 562970006577 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 562970006578 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 562970006579 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 562970006580 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 562970006581 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970006582 DNA-binding site [nucleotide binding]; DNA binding site 562970006583 DRTGG domain; Region: DRTGG; cl12147 562970006584 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 562970006585 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 562970006586 active site 2 [active] 562970006587 active site 1 [active] 562970006588 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...; Region: 4HBT; cd00586 562970006589 active site 562970006590 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 562970006591 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 562970006592 Glycosyl hydrolase family 18; Region: Glyco_18; smart00636 562970006593 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 562970006594 active site 562970006595 S-layer homology domain; Region: SLH; pfam00395 562970006596 S-layer homology domain; Region: SLH; pfam00395 562970006597 S-layer homology domain; Region: SLH; pfam00395 562970006598 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 562970006599 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 562970006600 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 562970006601 PYR/PP interface [polypeptide binding]; other site 562970006602 dimer interface [polypeptide binding]; other site 562970006603 TPP binding site [chemical binding]; other site 562970006604 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 562970006605 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...; Region: TPP_enzymes; cd00568 562970006606 TPP-binding site [chemical binding]; other site 562970006607 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 562970006608 active site 562970006609 substrate-binding site [chemical binding]; other site 562970006610 metal-binding site [ion binding] 562970006611 ATP binding site [chemical binding]; other site 562970006612 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 562970006613 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 562970006614 Walker A/P-loop; other site 562970006615 ATP binding site [chemical binding]; other site 562970006616 Q-loop/lid; other site 562970006617 ABC transporter signature motif; other site 562970006618 Walker B; other site 562970006619 D-loop; other site 562970006620 H-loop/switch region; other site 562970006621 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...; Region: TM_ABC_iron-siderophores_like; cd06550 562970006622 ABC-ATPase subunit interface; other site 562970006623 dimer interface [polypeptide binding]; other site 562970006624 putative PBP binding regions; other site 562970006625 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 562970006626 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 562970006627 putative binding site residues; other site 562970006628 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 562970006629 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 562970006630 active site 562970006631 RecD/TraA family; Region: recD_rel; TIGR01448 562970006632 oligoendopeptidase F; Region: pepF; TIGR00181 562970006633 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 562970006634 active site 562970006635 Zn binding site [ion binding]; other site 562970006636 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 562970006637 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but...; Region: TST_Repeat_1; cd01448 562970006638 active site residue [active] 562970006639 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 562970006640 active site residue [active] 562970006641 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 562970006642 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical...; Region: CHS_like; cd00831 562970006643 malonyl-CoA binding site [chemical binding]; other site 562970006644 dimer interface [polypeptide binding]; other site 562970006645 active site 562970006646 product binding site; other site 562970006647 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 562970006648 NlpC/P60 family; Region: NLPC_P60; cl11438 562970006649 Bacterial SH3 domain; Region: SH3_3; cl02551 562970006650 Protein of unknown function (DUF1811); Region: DUF1811; pfam08838 562970006651 Protein of unknown function (DUF523); Region: DUF523; cl00733 562970006652 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 562970006653 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 562970006654 DNA binding site [nucleotide binding] 562970006655 active site 562970006656 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; cl01902 562970006657 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 562970006658 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 562970006659 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 562970006660 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 562970006661 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 562970006662 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...; Region: AAA; cd00009 562970006663 Walker A motif; other site 562970006664 ATP binding site [chemical binding]; other site 562970006665 Walker B motif; other site 562970006666 arginine finger; other site 562970006667 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 562970006668 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 562970006669 4Fe-4S binding domain; Region: Fer4; cl02805 562970006670 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl01295 562970006671 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 562970006672 molybdopterin cofactor binding site; other site 562970006673 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 562970006674 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 562970006675 putative molybdopterin cofactor binding site; other site 562970006676 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 562970006677 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 562970006678 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 562970006679 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 562970006680 active site 562970006681 metal binding site [ion binding]; metal-binding site 562970006682 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 562970006683 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 562970006684 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...; Region: LuxR_C_like; cd06170 562970006685 DNA binding residues [nucleotide binding] 562970006686 dimerization interface [polypeptide binding]; other site 562970006687 Uncharacterized homolog of biotin synthetase [Function unknown]; Region: COG1856 562970006688 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 562970006689 FeS/SAM binding site; other site 562970006690 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 562970006691 Biotin synthase-related enzyme [General function prediction only]; Region: COG2516 562970006692 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 562970006693 FeS/SAM binding site; other site 562970006694 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 562970006695 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 562970006696 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 L-...; Region: GCS_H; cd06848 562970006697 lipoyl attachment site [posttranslational modification]; other site 562970006698 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 562970006699 DsrE/DsrF-like family; Region: DrsE; cl00672 562970006700 GAF domain; Region: GAF; cl00853 562970006701 DsrE/DsrF-like family; Region: DrsE; cl00672 562970006702 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 two-...; Region: SirA_YedF_YeeD; cd00291 562970006703 CPxP motif; other site 562970006704 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 562970006705 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 562970006706 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 L-...; Region: GCS_H; cd06848 562970006707 lipoyl attachment site [posttranslational modification]; other site 562970006708 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 L-...; Region: GCS_H; cd06848 562970006709 lipoyl attachment site [posttranslational modification]; other site 562970006710 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 562970006711 Cysteine-rich domain; Region: CCG; pfam02754 562970006712 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 562970006713 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 562970006714 Ligand binding site [chemical binding]; other site 562970006715 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 562970006716 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 562970006717 Ligand Binding Site [chemical binding]; other site 562970006718 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 562970006719 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 alpha-; Region: HCP_like; cl14655 562970006720 Cysteine-rich domain; Region: CCG; pfam02754 562970006721 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 562970006722 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 562970006723 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 562970006724 Cysteine-rich domain; Region: CCG; pfam02754 562970006725 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 562970006726 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 562970006727 SpoVR like protein; Region: SpoVR; pfam04293 562970006728 Protein of unknown function (DUF444); Region: DUF444; pfam04285 562970006729 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 562970006730 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 562970006731 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970006732 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 562970006733 Colicin V production protein; Region: Colicin_V; cl00567 562970006734 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 562970006735 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 562970006736 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; cl11391 562970006737 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 562970006738 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 562970006739 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 562970006740 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 562970006741 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 trans-...; Region: HisKA; cd00082 562970006742 dimer interface [polypeptide binding]; other site 562970006743 phosphorylation site [posttranslational modification] 562970006744 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 562970006745 ATP binding site [chemical binding]; other site 562970006746 Mg2+ binding site [ion binding]; other site 562970006747 G-X-G motif; other site 562970006748 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 562970006749 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 562970006750 active site 562970006751 phosphorylation site [posttranslational modification] 562970006752 intermolecular recognition site; other site 562970006753 dimerization interface [polypeptide binding]; other site 562970006754 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...; Region: trans_reg_C; cd00383 562970006755 DNA binding site [nucleotide binding] 562970006756 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 562970006757 Acylphosphatase; Region: Acylphosphatase; cl00551 562970006758 HypF finger; Region: zf-HYPF; pfam07503 562970006759 HypF finger; Region: zf-HYPF; pfam07503 562970006760 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 562970006761 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide...; Region: NrdH; cd02976 562970006762 catalytic residues [active] 562970006763 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 562970006764 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 562970006765 dimer interface [polypeptide binding]; other site 562970006766 active site 562970006767 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 562970006768 dimerization interface [polypeptide binding]; other site 562970006769 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 562970006770 ATP binding site [chemical binding]; other site 562970006771 High-affinity nickel-transport protein; Region: NicO; cl00964 562970006772 Hydrogenase formation hypA family; Region: HypD; cl12072 562970006773 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 562970006774 HupF/HypC family; Region: HupF_HypC; cl00394 562970006775 HupF/HypC family; Region: HupF_HypC; cl00394 562970006776 NifU-like domain; Region: NifU; cl00484 562970006777 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)...; Region: Rieske; cd03467 562970006778 iron-sulfur cluster [ion binding]; other site 562970006779 [2Fe-2S] cluster binding site [ion binding]; other site 562970006780 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cl00477 562970006781 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 562970006782 nickel binding site [ion binding]; other site 562970006783 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 562970006784 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 562970006785 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 562970006786 Protein of unknown function (DUF1641); Region: DUF1641; cl01025 562970006787 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 562970006788 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...; Region: TM_PBP2; cd06261 562970006789 dimer interface [polypeptide binding]; other site 562970006790 conserved gate region; other site 562970006791 putative PBP binding loops; other site 562970006792 ABC-ATPase subunit interface; other site 562970006793 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...; Region: TM_PBP2; cd06261 562970006794 dimer interface [polypeptide binding]; other site 562970006795 conserved gate region; other site 562970006796 putative PBP binding loops; other site 562970006797 ABC-ATPase subunit interface; other site 562970006798 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 562970006799 PhoU domain; Region: PhoU; pfam01895 562970006800 PhoU domain; Region: PhoU; pfam01895 562970006801 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 562970006802 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 562970006803 Walker A/P-loop; other site 562970006804 ATP binding site [chemical binding]; other site 562970006805 Q-loop/lid; other site 562970006806 ABC transporter signature motif; other site 562970006807 Walker B; other site 562970006808 D-loop; other site 562970006809 H-loop/switch region; other site 562970006810 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 562970006811 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 562970006812 active site 562970006813 phosphorylation site [posttranslational modification] 562970006814 intermolecular recognition site; other site 562970006815 dimerization interface [polypeptide binding]; other site 562970006816 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...; Region: trans_reg_C; cd00383 562970006817 DNA binding site [nucleotide binding] 562970006818 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 connected by an extended linker. The...; Region: HAMP; cl01054 562970006819 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 562970006820 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 562970006821 MutS domain III; Region: MutS_III; pfam05192 562970006822 putative transposase; Provisional; Region: PHA02942 562970006823 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 562970006824 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970006825 Mechanosensitive ion channel; Region: MS_channel; pfam00924 562970006826 aconitate hydratase; Validated; Region: PRK09277 562970006827 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 562970006828 substrate binding site [chemical binding]; other site 562970006829 ligand binding site [chemical binding]; other site 562970006830 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 562970006831 substrate binding site [chemical binding]; other site 562970006832 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 562970006833 putative active site [active] 562970006834 putative CoA binding site [chemical binding]; other site 562970006835 nudix motif; other site 562970006836 metal binding site [ion binding]; metal-binding site 562970006837 Putative amidase domain; Region: Amidase_6; pfam12671 562970006838 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970006839 Transcriptional regulator [Transcription]; Region: IclR; COG1414 562970006840 Bacterial transcriptional regulator; Region: IclR; pfam01614 562970006841 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 562970006842 isocitrate dehydrogenase; Validated; Region: PRK06451 562970006843 Phosphotransferase enzyme family; Region: APH; pfam01636 562970006844 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 562970006845 substrate binding site [chemical binding]; other site 562970006846 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 562970006847 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 562970006848 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin...; Region: ARM; cl02500 562970006849 protein binding surface [polypeptide binding]; other site 562970006850 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 562970006851 active site 562970006852 RNA/DNA hybrid binding site [nucleotide binding]; other site 562970006853 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 562970006854 Protein of unknown function (DUF2614); Region: DUF2614; cl07936 562970006855 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 562970006856 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 562970006857 minor groove reading motif; other site 562970006858 helix-hairpin-helix signature motif; other site 562970006859 substrate binding pocket [chemical binding]; other site 562970006860 active site 562970006861 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 562970006862 putative substrate translocation pore; other site 562970006863 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 562970006864 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 562970006865 Major Facilitator Superfamily; Region: MFS_1; pfam07690 562970006866 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 562970006867 putative substrate translocation pore; other site 562970006868 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 562970006869 putative substrate translocation pore; other site 562970006870 ABC-2 type transporter; Region: ABC2_membrane; cl11417 562970006871 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970006872 PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 562970006873 Walker A/P-loop; other site 562970006874 ATP binding site [chemical binding]; other site 562970006875 Q-loop/lid; other site 562970006876 ABC transporter signature motif; other site 562970006877 Walker B; other site 562970006878 D-loop; other site 562970006879 H-loop/switch region; other site 562970006880 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970006881 CrcB-like protein; Region: CRCB; cl09114 562970006882 CrcB-like protein; Region: CRCB; cl09114 562970006883 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 562970006884 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970006885 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 562970006886 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 562970006887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970006888 NAD(P) binding site [chemical binding]; other site 562970006889 active site 562970006890 Protein of unknown function, DUF488; Region: DUF488; cl01246 562970006891 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 562970006892 FMN binding site [chemical binding]; other site 562970006893 dimer interface [polypeptide binding]; other site 562970006894 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 562970006895 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning]; Region: COG2846 562970006896 FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 562970006897 putative active site [active] 562970006898 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 562970006899 radical SAM protein, BA_1875 family; Region: sam_11; TIGR04053 562970006900 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 562970006901 FeS/SAM binding site; other site 562970006902 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 562970006903 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 562970006904 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 562970006905 FeS/SAM binding site; other site 562970006906 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 562970006907 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 562970006908 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 562970006909 ligand binding site [chemical binding]; other site 562970006910 flexible hinge region; other site 562970006911 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970006912 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...; Region: TM_PBP2; cd06261 562970006913 dimer interface [polypeptide binding]; other site 562970006914 conserved gate region; other site 562970006915 putative PBP binding loops; other site 562970006916 ABC-ATPase subunit interface; other site 562970006917 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 562970006918 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 562970006919 Walker A/P-loop; other site 562970006920 ATP binding site [chemical binding]; other site 562970006921 Q-loop/lid; other site 562970006922 ABC transporter signature motif; other site 562970006923 Walker B; other site 562970006924 D-loop; other site 562970006925 H-loop/switch region; other site 562970006926 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 562970006927 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...; Region: TM_PBP2; cd06261 562970006928 dimer interface [polypeptide binding]; other site 562970006929 conserved gate region; other site 562970006930 putative PBP binding loops; other site 562970006931 ABC-ATPase subunit interface; other site 562970006932 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 562970006933 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...; Region: PBPb; cd00134 562970006934 substrate binding pocket [chemical binding]; other site 562970006935 membrane-bound complex binding site; other site 562970006936 hinge residues; other site 562970006937 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 562970006938 Mechanosensitive ion channel; Region: MS_channel; pfam00924 562970006939 FeoA domain; Region: FeoA; cl00838 562970006940 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 562970006941 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 562970006942 G1 box; other site 562970006943 GTP/Mg2+ binding site [chemical binding]; other site 562970006944 Switch I region; other site 562970006945 G2 box; other site 562970006946 G3 box; other site 562970006947 Switch II region; other site 562970006948 G4 box; other site 562970006949 G5 box; other site 562970006950 Nucleoside recognition; Region: Gate; cl00486 562970006951 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 562970006952 Nucleoside recognition; Region: Gate; cl00486 562970006953 Cupin domain; Region: Cupin_2; cl09118 562970006954 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 562970006955 UvrD/REP helicase; Region: UvrD-helicase; cl14126 562970006956 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 562970006957 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 562970006958 putative metal binding site [ion binding]; other site 562970006959 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 562970006960 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 562970006961 ATP binding site [chemical binding]; other site 562970006962 G-X-G motif; other site 562970006963 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 562970006964 Cu(I) binding site [ion binding]; other site 562970006965 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 562970006966 Protein of unknown function (DUF1054); Region: DUF1054; cl11544 562970006967 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 562970006968 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970006969 Low molecular weight phosphatase family; Region: LMWPc; cd00115 562970006970 Active site [active] 562970006971 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 562970006972 Zn binding site [ion binding]; other site 562970006973 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 562970006974 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 562970006975 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 562970006976 metal-binding site [ion binding] 562970006977 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 562970006978 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; cl11391 562970006979 biotin synthase; Validated; Region: PRK06256 562970006980 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 562970006981 FeS/SAM binding site; other site 562970006982 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 562970006983 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 562970006984 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 562970006985 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS), 8-amino-7-...; Region: KBL_like; cd06454 562970006986 substrate-cofactor binding pocket; other site 562970006987 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970006988 catalytic residue [active] 562970006989 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06916 562970006990 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 562970006991 inhibitor-cofactor binding pocket; inhibition site 562970006992 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970006993 catalytic residue [active] 562970006994 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 562970006995 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 562970006996 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 562970006997 putative substrate translocation pore; other site 562970006998 Predicted membrane protein [Function unknown]; Region: COG1971 562970006999 Pirin-related protein [General function prediction only]; Region: COG1741 562970007000 Cupin domain; Region: Cupin_2; cl09118 562970007001 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 562970007002 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 562970007003 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 562970007004 putative NAD(P) binding site [chemical binding]; other site 562970007005 active site 562970007006 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...; Region: TM_PBP2; cl00427 562970007007 Protein of unknown function (DUF402); Region: DUF402; cl00979 562970007008 Domain of unknown function DUF20; Region: UPF0118; cl00465 562970007009 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 562970007010 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 562970007011 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 562970007012 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 562970007013 minor groove reading motif; other site 562970007014 helix-hairpin-helix signature motif; other site 562970007015 substrate binding pocket [chemical binding]; other site 562970007016 active site 562970007017 FES domain; Region: FES; smart00525 562970007018 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 562970007019 DNA binding and oxoG recognition site [nucleotide binding] 562970007020 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 562970007021 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 562970007022 bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed; Region: PRK06427 562970007023 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 562970007024 dimer interface [polypeptide binding]; other site 562970007025 substrate binding site [chemical binding]; other site 562970007026 ATP binding site [chemical binding]; other site 562970007027 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 562970007028 Fumarase C-terminus; Region: Fumerase_C; cl00795 562970007029 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970007030 Transcriptional regulator [Transcription]; Region: IclR; COG1414 562970007031 Bacterial transcriptional regulator; Region: IclR; pfam01614 562970007032 L-lactate permease; Region: Lactate_perm; cl00701 562970007033 glycolate transporter; Provisional; Region: PRK09695 562970007034 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 562970007035 FAD binding domain; Region: FAD_binding_4; pfam01565 562970007036 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 alpha-; Region: HCP_like; cl14655 562970007037 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 562970007038 Cysteine-rich domain; Region: CCG; pfam02754 562970007039 Cysteine-rich domain; Region: CCG; pfam02754 562970007040 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 562970007041 FAD binding domain; Region: FAD_binding_4; pfam01565 562970007042 Iron permease FTR1 family; Region: FTR1; cl00475 562970007043 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 562970007044 Imelysin; Region: Peptidase_M75; cl09159 562970007045 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 562970007046 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 562970007047 FeS/SAM binding site; other site 562970007048 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 562970007049 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 562970007050 Ligand binding site [chemical binding]; other site 562970007051 metal binding site [ion binding]; metal-binding site 562970007052 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 562970007053 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 562970007054 MoxR-like ATPases [General function prediction only]; Region: COG0714 562970007055 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970007056 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 562970007057 FAD binding domain; Region: FAD_binding_4; pfam01565 562970007058 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 562970007059 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 562970007060 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 562970007061 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 562970007062 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 562970007063 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 562970007064 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 562970007065 putative hydrophobic ligand binding site [chemical binding]; other site 562970007066 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 562970007067 Major Facilitator Superfamily; Region: MFS_1; pfam07690 562970007068 putative substrate translocation pore; other site 562970007069 Sugar fermentation stimulation protein; Region: SfsA; cl00647 562970007070 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 562970007071 DHH family; Region: DHH; pfam01368 562970007072 DHHA1 domain; Region: DHHA1; pfam02272 562970007073 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 562970007074 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 562970007075 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970007076 Walker A/P-loop; other site 562970007077 ATP binding site [chemical binding]; other site 562970007078 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 562970007079 acyl-CoA synthetase; Validated; Region: PRK08316 562970007080 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970007081 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is...; Region: Trunc_globin; cd00454 562970007082 apolar tunnel; other site 562970007083 heme binding site [chemical binding]; other site 562970007084 dimerization interface [polypeptide binding]; other site 562970007085 Membrane transport protein; Region: Mem_trans; cl09117 562970007086 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 562970007087 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; cl11391 562970007088 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 562970007089 transketolase; Reviewed; Region: PRK05899 562970007090 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 562970007091 TPP-binding site [chemical binding]; other site 562970007092 dimer interface [polypeptide binding]; other site 562970007093 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 562970007094 PYR/PP interface [polypeptide binding]; other site 562970007095 dimer interface [polypeptide binding]; other site 562970007096 TPP binding site [chemical binding]; other site 562970007097 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 562970007098 CcmE; Region: CcmE; cl00994 562970007099 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 562970007100 Cytochrome C biogenesis protein; Region: CcmH; cl01179 562970007101 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 562970007102 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970007103 Walker A/P-loop; other site 562970007104 ATP binding site [chemical binding]; other site 562970007105 Q-loop/lid; other site 562970007106 ABC transporter signature motif; other site 562970007107 Walker B; other site 562970007108 D-loop; other site 562970007109 H-loop/switch region; other site 562970007110 CcmB protein; Region: CcmB; cl01016 562970007111 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 562970007112 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...; Region: TlpA_like_family; cd02966 562970007113 catalytic residues [active] 562970007114 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 562970007115 ApbE family; Region: ApbE; cl00643 562970007116 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 562970007117 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 562970007118 active site 562970007119 phosphorylation site [posttranslational modification] 562970007120 intermolecular recognition site; other site 562970007121 dimerization interface [polypeptide binding]; other site 562970007122 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...; Region: trans_reg_C; cd00383 562970007123 DNA binding site [nucleotide binding] 562970007124 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 trans-...; Region: HisKA; cd00082 562970007125 dimer interface [polypeptide binding]; other site 562970007126 phosphorylation site [posttranslational modification] 562970007127 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 562970007128 ATP binding site [chemical binding]; other site 562970007129 Mg2+ binding site [ion binding]; other site 562970007130 G-X-G motif; other site 562970007131 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 562970007132 putative deacylase active site [active] 562970007133 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 562970007134 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 562970007135 endonuclease III; Region: ENDO3c; smart00478 562970007136 minor groove reading motif; other site 562970007137 helix-hairpin-helix signature motif; other site 562970007138 substrate binding pocket [chemical binding]; other site 562970007139 active site 562970007140 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 562970007141 metal-binding site [ion binding] 562970007142 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 562970007143 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 562970007144 metal-binding site [ion binding] 562970007145 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 562970007146 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; cl11391 562970007147 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; cl14056 562970007148 Predicted transcriptional regulators [Transcription]; Region: COG1725 562970007149 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 562970007150 DNA-binding site [nucleotide binding]; DNA binding site 562970007151 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970007152 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 562970007153 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 562970007154 Walker A/P-loop; other site 562970007155 ATP binding site [chemical binding]; other site 562970007156 Q-loop/lid; other site 562970007157 ABC transporter signature motif; other site 562970007158 Walker B; other site 562970007159 D-loop; other site 562970007160 H-loop/switch region; other site 562970007161 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 562970007162 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 562970007163 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 562970007164 CRISPR/Cas system-associated protein Csb2; Region: Csb2_I-U; cl09827 562970007165 CRISPR/Cas system-associated protein Csb1; Region: Csb1_I-U; cl09834 562970007166 CRISPR/Cas system-associated protein Csx17; Region: Csx17_I-U; cd09767 562970007167 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; cl14882 562970007168 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 562970007169 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 562970007170 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 562970007171 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 562970007172 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 562970007173 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 562970007174 DNA-binding site [nucleotide binding]; DNA binding site 562970007175 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 562970007176 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 562970007177 Walker A/P-loop; other site 562970007178 ATP binding site [chemical binding]; other site 562970007179 Q-loop/lid; other site 562970007180 ABC transporter signature motif; other site 562970007181 Walker B; other site 562970007182 D-loop; other site 562970007183 H-loop/switch region; other site 562970007184 ABC-2 type transporter; Region: ABC2_membrane; cl11417 562970007185 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 562970007186 HicB family; Region: HicB; pfam05534 562970007187 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 562970007188 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...; Region: metallo-dependent_hydrolases; cl00281 562970007189 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 562970007190 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 562970007191 DinB superfamily; Region: DinB_2; cl00986 562970007192 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 562970007193 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 562970007194 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 562970007195 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 562970007196 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 562970007197 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 562970007198 classical (c) SDRs; Region: SDR_c; cd05233 562970007199 NAD(P) binding site [chemical binding]; other site 562970007200 active site 562970007201 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 562970007202 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...; Region: PBPb; cd00134 562970007203 substrate binding pocket [chemical binding]; other site 562970007204 membrane-bound complex binding site; other site 562970007205 hinge residues; other site 562970007206 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 562970007207 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 562970007208 putative NAD(P) binding site [chemical binding]; other site 562970007209 dimer interface [polypeptide binding]; other site 562970007210 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl02184 562970007211 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...; Region: URO-D_CIMS_like; cl00464 562970007212 C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 562970007213 methionine synthase; Provisional; Region: PRK01207 562970007214 substrate binding site [chemical binding]; other site 562970007215 THF binding site; other site 562970007216 zinc-binding site [ion binding]; other site 562970007217 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 562970007218 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 562970007219 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 562970007220 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; cl14882 562970007221 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 562970007222 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 562970007223 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 562970007224 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 562970007225 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+...; Region: SIR2; cl00195 562970007226 YCII-related domain; Region: YCII; cl00999 562970007227 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09732 562970007228 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl14784 562970007229 Transposase; Region: DEDD_Tnp_IS110; pfam01548 562970007230 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 562970007231 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 562970007232 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 562970007233 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 562970007234 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 562970007235 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 562970007236 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; cl14882 562970007237 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 562970007238 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 562970007239 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 562970007240 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 562970007241 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+...; Region: SIR2; cl00195 562970007242 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 562970007243 Outer membrane efflux protein; Region: OEP; pfam02321 562970007244 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 562970007245 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 562970007246 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 562970007247 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 562970007248 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 562970007249 PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 562970007250 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970007251 Walker A/P-loop; other site 562970007252 ATP binding site [chemical binding]; other site 562970007253 Q-loop/lid; other site 562970007254 ABC transporter signature motif; other site 562970007255 Walker B; other site 562970007256 D-loop; other site 562970007257 H-loop/switch region; other site 562970007258 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 562970007259 ABC-2 type transporter; Region: ABC2_membrane; cl11417 562970007260 DNA helicase, putative; Region: TIGR00376 562970007261 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 562970007262 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 562970007263 putative active site [active] 562970007264 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 562970007265 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 562970007266 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 562970007267 Walker A/P-loop; other site 562970007268 ATP binding site [chemical binding]; other site 562970007269 Q-loop/lid; other site 562970007270 ABC transporter signature motif; other site 562970007271 Walker B; other site 562970007272 D-loop; other site 562970007273 H-loop/switch region; other site 562970007274 Uncharacterised protein family (UPF0014); Region: UPF0014; cl00424 562970007275 EamA-like transporter family; Region: EamA; cl01037 562970007276 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 562970007277 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 562970007278 aspartate aminotransferase; Provisional; Region: PRK07681 562970007279 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 562970007280 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970007281 homodimer interface [polypeptide binding]; other site 562970007282 catalytic residue [active] 562970007283 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 562970007284 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 562970007285 Transposase domain (DUF772); Region: DUF772; cl12084 562970007286 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 562970007287 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 562970007288 Putative transposase; Region: Y2_Tnp; pfam04986 562970007289 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 562970007290 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 562970007291 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes...; Region: INT_pAE1; cd01188 562970007292 Int/Topo IB signature motif; other site 562970007293 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 562970007294 Phage integrase family; Region: Phage_integrase; pfam00589 562970007295 DNA binding site [nucleotide binding] 562970007296 Int/Topo IB signature motif; other site 562970007297 active site 562970007298 Transposase; Region: DEDD_Tnp_IS110; pfam01548 562970007299 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 562970007300 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 562970007301 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970007302 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 562970007303 Integrase core domain; Region: rve; cl01316 562970007304 Integrase core domain; Region: rve; cl01316 562970007305 Transposase domain (DUF772); Region: DUF772; cl12084 562970007306 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 562970007307 Integral membrane protein TerC family; Region: TerC; cl10468 562970007308 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH...; Region: NfsA_FRP; cd02146 562970007309 dimer interface [polypeptide binding]; other site 562970007310 FMN binding site [chemical binding]; other site 562970007311 NADPH bind site [chemical binding]; other site 562970007312 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 562970007313 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 562970007314 active site 562970007315 metal binding site [ion binding]; metal-binding site 562970007316 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 562970007317 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 562970007318 metal binding site [ion binding]; metal-binding site 562970007319 putative dimer interface [polypeptide binding]; other site 562970007320 Cytochrome c; Region: Cytochrom_C; cl11414 562970007321 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 562970007322 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 562970007323 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 562970007324 putative hydrophobic ligand binding site [chemical binding]; other site 562970007325 MoxR-like ATPases [General function prediction only]; Region: COG0714 562970007326 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...; Region: AAA; cd00009 562970007327 Walker A motif; other site 562970007328 ATP binding site [chemical binding]; other site 562970007329 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 562970007330 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 562970007331 metal ion-dependent adhesion site (MIDAS); other site 562970007332 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 562970007333 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 562970007334 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 562970007335 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 562970007336 non-specific DNA binding site [nucleotide binding]; other site 562970007337 salt bridge; other site 562970007338 sequence-specific DNA binding site [nucleotide binding]; other site 562970007339 Cupin domain; Region: Cupin_2; cl09118 562970007340 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 562970007341 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 562970007342 Walker A/P-loop; other site 562970007343 ATP binding site [chemical binding]; other site 562970007344 Q-loop/lid; other site 562970007345 ABC transporter signature motif; other site 562970007346 Walker B; other site 562970007347 D-loop; other site 562970007348 H-loop/switch region; other site 562970007349 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 562970007350 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 562970007351 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 562970007352 Walker A/P-loop; other site 562970007353 ATP binding site [chemical binding]; other site 562970007354 Q-loop/lid; other site 562970007355 ABC transporter signature motif; other site 562970007356 Walker B; other site 562970007357 D-loop; other site 562970007358 H-loop/switch region; other site 562970007359 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 562970007360 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 562970007361 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...; Region: TM_PBP2; cd06261 562970007362 dimer interface [polypeptide binding]; other site 562970007363 conserved gate region; other site 562970007364 putative PBP binding loops; other site 562970007365 ABC-ATPase subunit interface; other site 562970007366 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 562970007367 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...; Region: TM_PBP2; cd06261 562970007368 dimer interface [polypeptide binding]; other site 562970007369 conserved gate region; other site 562970007370 putative PBP binding loops; other site 562970007371 ABC-ATPase subunit interface; other site 562970007372 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 562970007373 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 562970007374 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...; Region: metallo-dependent_hydrolases; cl00281 562970007375 active site 562970007376 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 562970007377 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970007378 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970007379 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 562970007380 Major Facilitator Superfamily; Region: MFS_1; pfam07690 562970007381 putative substrate translocation pore; other site 562970007382 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 562970007383 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 562970007384 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 562970007385 Transposase domain (DUF772); Region: DUF772; cl12084 562970007386 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 562970007387 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 562970007388 metal-binding site [ion binding] 562970007389 mercuric reductase; Region: MerA; TIGR02053 562970007390 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 562970007391 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 562970007392 MutS domain III; Region: MutS_III; pfam05192 562970007393 putative transposase; Provisional; Region: PHA02942 562970007394 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 562970007395 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970007396 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 562970007397 dimerization interface [polypeptide binding]; other site 562970007398 putative DNA binding site [nucleotide binding]; other site 562970007399 putative Zn2+ binding site [ion binding]; other site 562970007400 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 562970007401 DNA binding residues [nucleotide binding] 562970007402 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 562970007403 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; cl02788 562970007404 catalytic residues [active] 562970007405 catalytic nucleophile [active] 562970007406 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 562970007407 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970007408 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 562970007409 Major Facilitator Superfamily; Region: MFS_1; pfam07690 562970007410 putative substrate translocation pore; other site 562970007411 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970007412 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 562970007413 intersubunit interface [polypeptide binding]; other site 562970007414 active site 562970007415 Zn2+ binding site [ion binding]; other site 562970007416 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 562970007417 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 562970007418 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; cl12011 562970007419 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; cl12011 562970007420 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 562970007421 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 562970007422 GatB domain; Region: GatB_Yqey; cl11497 562970007423 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 562970007424 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 562970007425 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 562970007426 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 562970007427 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 562970007428 Mg++ binding site [ion binding]; other site 562970007429 putative catalytic motif [active] 562970007430 substrate binding site [chemical binding]; other site 562970007431 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 562970007432 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 562970007433 nucleotide binding pocket [chemical binding]; other site 562970007434 K-X-D-G motif; other site 562970007435 catalytic site [active] 562970007436 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 562970007437 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 562970007438 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 562970007439 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 562970007440 Dimer interface [polypeptide binding]; other site 562970007441 BRCT sequence motif; other site 562970007442 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 562970007443 UvrD/REP helicase; Region: UvrD-helicase; cl14126 562970007444 UvrD/REP helicase; Region: UvrD-helicase; cl14126 562970007445 Trp repressor protein; Region: Trp_repressor; cl01121 562970007446 enoyl-CoA hydratase; Provisional; Region: PRK08140 562970007447 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 562970007448 substrate binding site [chemical binding]; other site 562970007449 oxyanion hole (OAH) forming residues; other site 562970007450 trimer interface [polypeptide binding]; other site 562970007451 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 562970007452 sequence-specific DNA binding site [nucleotide binding]; other site 562970007453 salt bridge; other site 562970007454 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 562970007455 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 562970007456 non-specific DNA binding site [nucleotide binding]; other site 562970007457 salt bridge; other site 562970007458 sequence-specific DNA binding site [nucleotide binding]; other site 562970007459 peptide chain release factor 2; Validated; Region: prfB; PRK00578 562970007460 RF-1 domain; Region: RF-1; cl02875 562970007461 RF-1 domain; Region: RF-1; cl02875 562970007462 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 562970007463 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 562970007464 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 562970007465 nucleotide binding region [chemical binding]; other site 562970007466 ATP-binding site [chemical binding]; other site 562970007467 SEC-C motif; Region: SEC-C; cl12132 562970007468 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site...; Region: RaiA; cd00552 562970007469 30S subunit binding site; other site 562970007470 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 562970007471 DNA-binding site [nucleotide binding]; DNA binding site 562970007472 RNA-binding motif; other site 562970007473 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 562970007474 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 562970007475 Walker A/P-loop; other site 562970007476 ATP binding site [chemical binding]; other site 562970007477 Q-loop/lid; other site 562970007478 ABC transporter signature motif; other site 562970007479 Walker B; other site 562970007480 D-loop; other site 562970007481 H-loop/switch region; other site 562970007482 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 562970007483 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...; Region: TM_PBP2; cd06261 562970007484 dimer interface [polypeptide binding]; other site 562970007485 conserved gate region; other site 562970007486 putative PBP binding loops; other site 562970007487 ABC-ATPase subunit interface; other site 562970007488 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 562970007489 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...; Region: PBPb; cd00134 562970007490 substrate binding pocket [chemical binding]; other site 562970007491 membrane-bound complex binding site; other site 562970007492 hinge residues; other site 562970007493 LamB/YcsF family; Region: LamB_YcsF; cl00664 562970007494 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 562970007495 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 562970007496 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 562970007497 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 562970007498 Flagellar protein FliS; Region: FliS; cl00654 562970007499 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 562970007500 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 562970007501 FlaG protein; Region: FlaG; cl00591 562970007502 EamA-like transporter family; Region: EamA; cl01037 562970007503 EamA-like transporter family; Region: EamA; cl01037 562970007504 Transposase, Mutator family; Region: Transposase_mut; pfam00872 562970007505 MULE transposase domain; Region: MULE; pfam10551 562970007506 type 2 lantibiotic, mersacidin/lichenicidin family; Region: lanti_MRSA_kill; TIGR03898 562970007507 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 562970007508 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 562970007509 type 2 lantibiotic biosynthesis protein LanM; Region: lanti_2_LanM; TIGR03897 562970007510 LanM-like proteins. LanM is a bifunctional enzyme, involved in the synthesis of class II lantibiotics. It is responsible for both the dehydration and the cyclization of the precursor-peptide during lantibiotic synthesis. The C-terminal domain shows...; Region: LanM-like; cd04792 562970007511 active site 562970007512 zinc binding site [ion binding]; other site 562970007513 Peptidase S8 family domain in Lantiobiotic (lanthionine-containing antibiotics) specific proteases; Region: Peptidases_S8_Lantibiotic_specific_protease; cd07482 562970007514 active site 562970007515 catalytic triad [active] 562970007516 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 562970007517 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various...; Region: Peptidase_C39F; cd02425 562970007518 putative active site [active] 562970007519 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 562970007520 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 562970007521 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970007522 Walker A/P-loop; other site 562970007523 ATP binding site [chemical binding]; other site 562970007524 Q-loop/lid; other site 562970007525 ABC transporter signature motif; other site 562970007526 Walker B; other site 562970007527 D-loop; other site 562970007528 H-loop/switch region; other site 562970007529 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...; Region: LuxR_C_like; cd06170 562970007530 DNA binding residues [nucleotide binding] 562970007531 dimerization interface [polypeptide binding]; other site 562970007532 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 562970007533 type 2 lantibiotic, mersacidin/lichenicidin family; Region: lanti_MRSA_kill; TIGR03898 562970007534 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 562970007535 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 562970007536 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 562970007537 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970007538 Peptidase family M48; Region: Peptidase_M48; cl12018 562970007539 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 562970007540 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 562970007541 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 562970007542 Major Facilitator Superfamily; Region: MFS_1; pfam07690 562970007543 putative substrate translocation pore; other site 562970007544 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 562970007545 putative peptidoglycan binding site; other site 562970007546 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 562970007547 active site 562970007548 Glycosyl hydrolase family 18; Region: Glyco_18; smart00636 562970007549 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_a; cd09179 562970007550 putative active site [active] 562970007551 catalytic site [active] 562970007552 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 562970007553 ATP binding site [chemical binding]; other site 562970007554 putative Mg++ binding site [ion binding]; other site 562970007555 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 562970007556 nucleotide binding region [chemical binding]; other site 562970007557 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 562970007558 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 562970007559 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 562970007560 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 562970007561 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 562970007562 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...; Region: CBS_pair_GGDEF_assoc; cd04598 562970007563 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 562970007564 metal binding site [ion binding]; metal-binding site 562970007565 active site 562970007566 I-site; other site 562970007567 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 562970007568 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 562970007569 Walker A/P-loop; other site 562970007570 ATP binding site [chemical binding]; other site 562970007571 Q-loop/lid; other site 562970007572 ABC transporter signature motif; other site 562970007573 Walker B; other site 562970007574 D-loop; other site 562970007575 H-loop/switch region; other site 562970007576 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...; Region: TM_PBP2; cd06261 562970007577 dimer interface [polypeptide binding]; other site 562970007578 conserved gate region; other site 562970007579 putative PBP binding loops; other site 562970007580 ABC-ATPase subunit interface; other site 562970007581 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...; Region: TM_PBP2; cd06261 562970007582 dimer interface [polypeptide binding]; other site 562970007583 conserved gate region; other site 562970007584 putative PBP binding loops; other site 562970007585 ABC-ATPase subunit interface; other site 562970007586 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 562970007587 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 562970007588 substrate binding site [chemical binding]; other site 562970007589 hinge regions; other site 562970007590 ADP binding site [chemical binding]; other site 562970007591 catalytic site [active] 562970007592 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970007593 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 562970007594 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 562970007595 putative dimerization interface [polypeptide binding]; other site 562970007596 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...; Region: TBP_aldolase_IIB; cd00947 562970007597 hypothetical protein; Provisional; Region: PRK08185 562970007598 intersubunit interface [polypeptide binding]; other site 562970007599 active site 562970007600 zinc binding site [ion binding]; other site 562970007601 Na+ binding site [ion binding]; other site 562970007602 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970007603 Active site [active] 562970007604 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 562970007605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970007606 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 562970007607 Fructose-1,6-bisphosphatase/sedoheptulose 1,7-bisphosphatase and related proteins [Carbohydrate transport and metabolism]; Region: GlpX; COG1494 562970007608 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 562970007609 putative active site [active] 562970007610 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 562970007611 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 562970007612 homodimer interface [polypeptide binding]; other site 562970007613 active site 562970007614 heterodimer interface [polypeptide binding]; other site 562970007615 catalytic residue [active] 562970007616 metal binding site [ion binding]; metal-binding site 562970007617 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 562970007618 multimerization interface [polypeptide binding]; other site 562970007619 CbbX; Provisional; Region: cbbX; CHL00181 562970007620 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...; Region: AAA; cd00009 562970007621 Walker A motif; other site 562970007622 ATP binding site [chemical binding]; other site 562970007623 Walker B motif; other site 562970007624 Glutathione S-transferase (GST) family, C-terminal alpha helical domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and...; Region: GST_C_family; cl02776 562970007625 substrate binding pocket (H-site) [chemical binding]; other site 562970007626 N-terminal domain interface [polypeptide binding]; other site 562970007627 arginine finger; other site 562970007628 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 562970007629 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 562970007630 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 562970007631 transketolase; Reviewed; Region: PRK05899 562970007632 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 562970007633 TPP-binding site [chemical binding]; other site 562970007634 dimer interface [polypeptide binding]; other site 562970007635 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 562970007636 PYR/PP interface [polypeptide binding]; other site 562970007637 dimer interface [polypeptide binding]; other site 562970007638 TPP binding site [chemical binding]; other site 562970007639 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 562970007640 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 562970007641 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 562970007642 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 562970007643 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 562970007644 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 562970007645 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 562970007646 NADH dehydrogenase; Region: NADHdh; cl00469 562970007647 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 alpha-; Region: HCP_like; cl14655 562970007648 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 562970007649 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 562970007650 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 562970007651 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 562970007652 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 562970007653 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 562970007654 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 562970007655 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 562970007656 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 562970007657 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...; Region: AAA; cd00009 562970007658 Walker A motif; other site 562970007659 ATP binding site [chemical binding]; other site 562970007660 Walker B motif; other site 562970007661 arginine finger; other site 562970007662 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 562970007663 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 oxidation of L-histidinol to L-...; Region: Histidinol_dh; cd06572 562970007664 NAD binding site [chemical binding]; other site 562970007665 dimerization interface [polypeptide binding]; other site 562970007666 product binding site; other site 562970007667 substrate binding site [chemical binding]; other site 562970007668 zinc binding site [ion binding]; other site 562970007669 catalytic residues [active] 562970007670 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...; Region: PBPb; cd00134 562970007671 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 562970007672 substrate binding pocket [chemical binding]; other site 562970007673 membrane-bound complex binding site; other site 562970007674 hinge residues; other site 562970007675 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 562970007676 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...; Region: TM_PBP2; cd06261 562970007677 dimer interface [polypeptide binding]; other site 562970007678 conserved gate region; other site 562970007679 putative PBP binding loops; other site 562970007680 ABC-ATPase subunit interface; other site 562970007681 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 562970007682 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 562970007683 Walker A/P-loop; other site 562970007684 ATP binding site [chemical binding]; other site 562970007685 Q-loop/lid; other site 562970007686 ABC transporter signature motif; other site 562970007687 Walker B; other site 562970007688 D-loop; other site 562970007689 H-loop/switch region; other site 562970007690 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 562970007691 DNA-binding site [nucleotide binding]; DNA binding site 562970007692 transcriptional regulator NanR; Provisional; Region: PRK03837 562970007693 FCD domain; Region: FCD; cl11656 562970007694 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 562970007695 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970007696 NAD(P) binding site [chemical binding]; other site 562970007697 active site 562970007698 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 562970007699 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 562970007700 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 562970007701 inter-subunit interface; other site 562970007702 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)...; Region: Rieske; cl00938 562970007703 iron-sulfur cluster [ion binding]; other site 562970007704 [2Fe-2S] cluster binding site [ion binding]; other site 562970007705 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 562970007706 beta subunit interface [polypeptide binding]; other site 562970007707 alpha subunit interface [polypeptide binding]; other site 562970007708 active site 562970007709 substrate binding site [chemical binding]; other site 562970007710 Fe binding site [ion binding]; other site 562970007711 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 562970007712 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 562970007713 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 562970007714 active site 562970007715 Fe binding site [ion binding]; other site 562970007716 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 562970007717 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...; Region: Aldo_ket_red; cd06660 562970007718 active site 562970007719 catalytic tetrad [active] 562970007720 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 562970007721 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 562970007722 HicB family; Region: HicB; pfam05534 562970007723 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_cladeD; cd03379 562970007724 active site clefts [active] 562970007725 zinc binding site [ion binding]; other site 562970007726 dimer interface [polypeptide binding]; other site 562970007727 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 562970007728 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 562970007729 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 562970007730 Zn2+ binding site [ion binding]; other site 562970007731 Mg2+ binding site [ion binding]; other site 562970007732 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 562970007733 Cache domain; Region: Cache_2; pfam08269 562970007734 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 connected by an extended linker. The...; Region: HAMP; cl01054 562970007735 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 562970007736 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 562970007737 Protein of unknown function (DUF3832); Region: DUF3832; pfam12909 562970007738 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 562970007739 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970007740 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 562970007741 YcfA-like protein; Region: YcfA; cl00752 562970007742 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 562970007743 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 562970007744 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...; Region: Aldo_ket_red; cd06660 562970007745 active site 562970007746 catalytic tetrad [active] 562970007747 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 562970007748 YcfA-like protein; Region: YcfA; cl00752 562970007749 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 562970007750 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970007751 Walker A/P-loop; other site 562970007752 ATP binding site [chemical binding]; other site 562970007753 ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 562970007754 ABC transporter signature motif; other site 562970007755 Walker B; other site 562970007756 D-loop; other site 562970007757 H-loop/switch region; other site 562970007758 Protein of unknown function (DUF3832); Region: DUF3832; pfam12909 562970007759 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 562970007760 YcfA-like protein; Region: YcfA; cl00752 562970007761 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 562970007762 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 562970007763 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 562970007764 HsdM N-terminal domain; Region: HsdM_N; pfam12161 562970007765 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; cl12011 562970007766 HsdM N-terminal domain; Region: HsdM_N; pfam12161 562970007767 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 562970007768 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 562970007769 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 562970007770 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 562970007771 active site 562970007772 NTP binding site [chemical binding]; other site 562970007773 metal binding triad [ion binding]; metal-binding site 562970007774 antibiotic binding site [chemical binding]; other site 562970007775 Protein of unknown function DUF86; Region: DUF86; cl01031 562970007776 Transposase [DNA replication, recombination, and repair]; Region: COG5421 562970007777 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 562970007778 HicB family; Region: HicB; pfam05534 562970007779 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 562970007780 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 562970007781 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970007782 Walker A/P-loop; other site 562970007783 ATP binding site [chemical binding]; other site 562970007784 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970007785 ABC transporter signature motif; other site 562970007786 Walker B; other site 562970007787 D-loop; other site 562970007788 H-loop/switch region; other site 562970007789 RES domain; Region: RES; cl02411 562970007790 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 562970007791 flagellin; Validated; Region: PRK08026 562970007792 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 562970007793 Global regulator protein family; Region: CsrA; cl00670 562970007794 FliW protein; Region: FliW; cl00740 562970007795 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 562970007796 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 562970007797 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 562970007798 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 562970007799 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 562970007800 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 562970007801 FlgN protein; Region: FlgN; cl09176 562970007802 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 562970007803 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 562970007804 putative active site [active] 562970007805 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 562970007806 Zn2+ binding site [ion binding]; other site 562970007807 Mg2+ binding site [ion binding]; other site 562970007808 flagellar operon protein TIGR03826; Region: YvyF 562970007809 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 562970007810 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 562970007811 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 562970007812 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 562970007813 RecD/TraA family; Region: recD_rel; TIGR01448 562970007814 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970007815 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 562970007816 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 562970007817 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 562970007818 active site 562970007819 phosphorylation site [posttranslational modification] 562970007820 intermolecular recognition site; other site 562970007821 dimerization interface [polypeptide binding]; other site 562970007822 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...; Region: LuxR_C_like; cd06170 562970007823 DNA binding residues [nucleotide binding] 562970007824 dimerization interface [polypeptide binding]; other site 562970007825 S-adenosylmethionine synthetase; Validated; Region: PRK05250 562970007826 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 562970007827 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 562970007828 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 562970007829 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 562970007830 dinuclear metal binding motif [ion binding]; other site 562970007831 Protein of unknown function (DUF421); Region: DUF421; cl00990 562970007832 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 562970007833 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 562970007834 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 562970007835 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 562970007836 Plant Basic Secretory Protein; Region: BSP; pfam04450 562970007837 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 562970007838 CHASE3 domain; Region: CHASE3; cl05000 562970007839 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 connected by an extended linker. The...; Region: HAMP; cd06225 562970007840 dimerization interface [polypeptide binding]; other site 562970007841 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 562970007842 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 562970007843 S-layer homology domain; Region: SLH; pfam00395 562970007844 S-layer homology domain; Region: SLH; pfam00395 562970007845 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 562970007846 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 562970007847 nucleophile elbow; other site 562970007848 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 562970007849 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 562970007850 putative enoyl-(acyl-carrier-protein) reductase II; Region: enACPred_II; TIGR03151 562970007851 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...; Region: NPD_like; cd04730 562970007852 FMN binding site [chemical binding]; other site 562970007853 substrate binding site [chemical binding]; other site 562970007854 putative catalytic residue [active] 562970007855 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 562970007856 putative metal binding site [ion binding]; other site 562970007857 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970007858 alanine racemase; Reviewed; Region: alr; PRK00053 562970007859 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 562970007860 active site 562970007861 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 562970007862 dimer interface [polypeptide binding]; other site 562970007863 substrate binding site [chemical binding]; other site 562970007864 catalytic residues [active] 562970007865 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 562970007866 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970007867 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 562970007868 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 562970007869 Transposase domain (DUF772); Region: DUF772; cl12084 562970007870 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 562970007871 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 562970007872 Amino acid permease; Region: AA_permease; pfam00324 562970007873 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 562970007874 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of highly-; Region: nylC_like; cd02252 562970007875 putative active site pocket [active] 562970007876 cleavage site 562970007877 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 562970007878 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 562970007879 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 562970007880 intersubunit interface [polypeptide binding]; other site 562970007881 active site 562970007882 Zn2+ binding site [ion binding]; other site 562970007883 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 562970007884 Transposase; Region: DEDD_Tnp_IS110; pfam01548 562970007885 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 562970007886 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 562970007887 EamA-like transporter family; Region: EamA; cl01037 562970007888 EamA-like transporter family; Region: EamA; cl01037 562970007889 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 562970007890 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 562970007891 DNA-binding site [nucleotide binding]; DNA binding site 562970007892 FCD domain; Region: FCD; cl11656 562970007893 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 562970007894 Integrase core domain; Region: rve; cl01316 562970007895 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 562970007896 enoyl-CoA hydratase; Provisional; Region: PRK06144 562970007897 substrate binding site [chemical binding]; other site 562970007898 oxyanion hole (OAH) forming residues; other site 562970007899 trimer interface [polypeptide binding]; other site 562970007900 CoA-transferase family III; Region: CoA_transf_3; cl00778 562970007901 metabolite-proton symporter; Region: 2A0106; TIGR00883 562970007902 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 562970007903 putative substrate translocation pore; other site 562970007904 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of highly-; Region: nylC_like; cd02252 562970007905 putative active site pocket [active] 562970007906 cleavage site 562970007907 Predicted membrane protein [Function unknown]; Region: COG4684 562970007908 Cobalt transport protein; Region: CbiQ; cl00463 562970007909 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 562970007910 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 562970007911 Walker A/P-loop; other site 562970007912 ATP binding site [chemical binding]; other site 562970007913 Q-loop/lid; other site 562970007914 ABC transporter signature motif; other site 562970007915 Walker B; other site 562970007916 D-loop; other site 562970007917 H-loop/switch region; other site 562970007918 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 562970007919 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 562970007920 Walker A/P-loop; other site 562970007921 ATP binding site [chemical binding]; other site 562970007922 Q-loop/lid; other site 562970007923 ABC transporter signature motif; other site 562970007924 Walker B; other site 562970007925 D-loop; other site 562970007926 H-loop/switch region; other site 562970007927 acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; Region: DapE-ArgE; TIGR01910 562970007928 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 562970007929 metal binding site [ion binding]; metal-binding site 562970007930 dimer interface [polypeptide binding]; other site 562970007931 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970007932 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 562970007933 NAD(P) binding site [chemical binding]; other site 562970007934 active site 562970007935 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 562970007936 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 562970007937 NAD(P) binding site [chemical binding]; other site 562970007938 catalytic residues [active] 562970007939 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 562970007940 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 562970007941 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 562970007942 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 562970007943 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...; Region: AAA; cd00009 562970007944 Walker A motif; other site 562970007945 ATP binding site [chemical binding]; other site 562970007946 Walker B motif; other site 562970007947 arginine finger; other site 562970007948 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 562970007949 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 562970007950 trimer interface [polypeptide binding]; other site 562970007951 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 562970007952 Flavin Reductases; Region: FlaRed; cl00801 562970007953 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 562970007954 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970007955 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 562970007956 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 562970007957 active site 562970007958 non-prolyl cis peptide bond; other site 562970007959 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 562970007960 homotrimer interaction site [polypeptide binding]; other site 562970007961 putative active site [active] 562970007962 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 562970007963 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 562970007964 dimerization interface [polypeptide binding]; other site 562970007965 ligand binding site [chemical binding]; other site 562970007966 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 562970007967 TM-ABC transporter signature motif; other site 562970007968 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 562970007969 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 562970007970 Walker A/P-loop; other site 562970007971 ATP binding site [chemical binding]; other site 562970007972 Q-loop/lid; other site 562970007973 ABC transporter signature motif; other site 562970007974 Walker B; other site 562970007975 D-loop; other site 562970007976 H-loop/switch region; other site 562970007977 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 562970007978 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 562970007979 Walker A/P-loop; other site 562970007980 ATP binding site [chemical binding]; other site 562970007981 Q-loop/lid; other site 562970007982 ABC transporter signature motif; other site 562970007983 Walker B; other site 562970007984 D-loop; other site 562970007985 H-loop/switch region; other site 562970007986 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 562970007987 TM-ABC transporter signature motif; other site 562970007988 Transcriptional regulator [Transcription]; Region: LysR; COG0583 562970007989 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970007990 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 562970007991 dimerization interface [polypeptide binding]; other site 562970007992 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 562970007993 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 562970007994 ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-like; cd04879 562970007995 L-serine binding site [chemical binding]; other site 562970007996 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 562970007997 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 562970007998 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 562970007999 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 562970008000 inhibitor site; inhibition site 562970008001 active site 562970008002 dimer interface [polypeptide binding]; other site 562970008003 catalytic residue [active] 562970008004 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 562970008005 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970008006 NAD(P) binding site [chemical binding]; other site 562970008007 active site 562970008008 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970008009 putative sialic acid transporter; Region: 2A0112; TIGR00891 562970008010 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 562970008011 putative substrate translocation pore; other site 562970008012 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 562970008013 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 562970008014 metal binding site [ion binding]; metal-binding site 562970008015 dimer interface [polypeptide binding]; other site 562970008016 Predicted transcriptional regulator [Transcription]; Region: COG2345 562970008017 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 562970008018 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 562970008019 aminotransferase; Validated; Region: PRK07678 562970008020 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 562970008021 inhibitor-cofactor binding pocket; inhibition site 562970008022 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970008023 catalytic residue [active] 562970008024 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 562970008025 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 562970008026 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970008027 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 562970008028 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 562970008029 tetrameric interface [polypeptide binding]; other site 562970008030 NAD binding site [chemical binding]; other site 562970008031 catalytic residues [active] 562970008032 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 562970008033 putative mechanosensitive channel protein; Provisional; Region: PRK10929 562970008034 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 562970008035 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 562970008036 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 562970008037 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...; Region: metallo-dependent_hydrolases; cl00281 562970008038 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...; Region: metallo-dependent_hydrolases; cl00281 562970008039 active site 562970008040 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 562970008041 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970008042 Walker A/P-loop; other site 562970008043 ATP binding site [chemical binding]; other site 562970008044 Q-loop/lid; other site 562970008045 ABC transporter signature motif; other site 562970008046 Walker B; other site 562970008047 D-loop; other site 562970008048 H-loop/switch region; other site 562970008049 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 562970008050 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 562970008051 Walker A/P-loop; other site 562970008052 ATP binding site [chemical binding]; other site 562970008053 Q-loop/lid; other site 562970008054 ABC transporter signature motif; other site 562970008055 Walker B; other site 562970008056 D-loop; other site 562970008057 H-loop/switch region; other site 562970008058 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 562970008059 Phosphonate metabolism protein PhnJ; Region: PhnJ; cl01457 562970008060 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 562970008061 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 562970008062 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 562970008063 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 562970008064 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 562970008065 DNA-binding site [nucleotide binding]; DNA binding site 562970008066 UTRA domain; Region: UTRA; cl06649 562970008067 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 562970008068 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...; Region: metallo-dependent_hydrolases; cl00281 562970008069 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...; Region: metallo-dependent_hydrolases; cl00281 562970008070 active site 562970008071 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 562970008072 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 562970008073 trimer interface [polypeptide binding]; other site 562970008074 active site 562970008075 substrate binding site [chemical binding]; other site 562970008076 CoA binding site [chemical binding]; other site 562970008077 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 562970008078 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...; Region: TM_PBP2; cd06261 562970008079 dimer interface [polypeptide binding]; other site 562970008080 conserved gate region; other site 562970008081 putative PBP binding loops; other site 562970008082 ABC-ATPase subunit interface; other site 562970008083 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 562970008084 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...; Region: TM_PBP2; cl00427 562970008085 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 562970008086 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 562970008087 Walker A/P-loop; other site 562970008088 ATP binding site [chemical binding]; other site 562970008089 Q-loop/lid; other site 562970008090 ABC transporter signature motif; other site 562970008091 Walker B; other site 562970008092 D-loop; other site 562970008093 H-loop/switch region; other site 562970008094 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 562970008095 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 562970008096 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 562970008097 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 562970008098 NAD binding site [chemical binding]; other site 562970008099 homotetramer interface [polypeptide binding]; other site 562970008100 homodimer interface [polypeptide binding]; other site 562970008101 active site 562970008102 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 562970008103 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 562970008104 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 562970008105 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 562970008106 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 562970008107 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 562970008108 putative substrate translocation pore; other site 562970008109 multidrug resistance protein MdtN; Provisional; Region: PRK10476 562970008110 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2...; Region: Biotinyl_lipoyl_domains; cl11404 562970008111 lipoyl-biotinyl attachment site [posttranslational modification]; other site 562970008112 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 562970008113 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 562970008114 carboxyltransferase (CT) interaction site; other site 562970008115 biotinylation site [posttranslational modification]; other site 562970008116 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 562970008117 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 562970008118 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 562970008119 Predicted amidohydrolase [General function prediction only]; Region: COG0388 562970008120 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 562970008121 putative active site [active] 562970008122 catalytic triad [active] 562970008123 putative dimer interface [polypeptide binding]; other site 562970008124 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; cl09156 562970008125 arsenical pump membrane protein; Provisional; Region: PRK15445 562970008126 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 562970008127 transmembrane helices; other site 562970008128 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 562970008129 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 562970008130 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 562970008131 Walker A motif; other site 562970008132 ATP binding site [chemical binding]; other site 562970008133 Walker B motif; other site 562970008134 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 562970008135 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 562970008136 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 562970008137 Bacterial type II secretion system protein G; Region: GSPII_G; pfam08334 562970008138 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 562970008139 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 562970008140 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 562970008141 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 562970008142 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 562970008143 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 562970008144 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 562970008145 Uncharacterised ACR, COG2135; Region: DUF159; cl03646 562970008146 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 562970008147 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 562970008148 oligomer interface [polypeptide binding]; other site 562970008149 active site 562970008150 metal binding site [ion binding]; metal-binding site 562970008151 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 562970008152 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 562970008153 oligomer interface [polypeptide binding]; other site 562970008154 active site 562970008155 metal binding site [ion binding]; metal-binding site 562970008156 M28, and M42; Region: Zinc_peptidase_like; cl14876 562970008157 metal binding site [ion binding]; metal-binding site 562970008158 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 562970008159 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 562970008160 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 562970008161 Ligand binding site [chemical binding]; other site 562970008162 Putative Catalytic site [active] 562970008163 DXD motif; other site 562970008164 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 562970008165 ABC-2 type transporter; Region: ABC2_membrane; cl11417 562970008166 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 562970008167 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970008168 Walker A/P-loop; other site 562970008169 ATP binding site [chemical binding]; other site 562970008170 Q-loop/lid; other site 562970008171 ABC transporter signature motif; other site 562970008172 Walker B; other site 562970008173 D-loop; other site 562970008174 H-loop/switch region; other site 562970008175 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 562970008176 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule...; Region: GT1_like_5; cd04962 562970008177 S-layer homology domain; Region: SLH; pfam00395 562970008178 S-layer homology domain; Region: SLH; pfam00395 562970008179 S-layer homology domain; Region: SLH; pfam00395 562970008180 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 562970008181 active site 562970008182 NTP binding site [chemical binding]; other site 562970008183 metal binding triad [ion binding]; metal-binding site 562970008184 antibiotic binding site [chemical binding]; other site 562970008185 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl08495 562970008186 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 562970008187 S-layer homology domain; Region: SLH; pfam00395 562970008188 S-layer homology domain; Region: SLH; pfam00395 562970008189 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 562970008190 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 562970008191 NAD(P) binding site [chemical binding]; other site 562970008192 GAF domain; Region: GAF; cl00853 562970008193 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 562970008194 metal binding site [ion binding]; metal-binding site 562970008195 active site 562970008196 I-site; other site 562970008197 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 562970008198 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 562970008199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970008200 NAD(P) binding site [chemical binding]; other site 562970008201 active site 562970008202 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 562970008203 FAD binding domain; Region: FAD_binding_4; pfam01565 562970008204 D-arabinono-1,4-lactone oxidase; Region: ALO; cl04370 562970008205 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 562970008206 O-Antigen ligase; Region: Wzy_C; cl04850 562970008207 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 562970008208 TPR motif; other site 562970008209 binding surface 562970008210 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 562970008211 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 562970008212 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 562970008213 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 562970008214 putative substrate translocation pore; other site 562970008215 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 562970008216 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 562970008217 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 562970008218 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 562970008219 E3 interaction surface; other site 562970008220 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 562970008221 lipoyl attachment site [posttranslational modification]; other site 562970008222 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 562970008223 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 562970008224 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 562970008225 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 562970008226 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 562970008227 Transposase domain (DUF772); Region: DUF772; cl12084 562970008228 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 562970008229 Transposase domain (DUF772); Region: DUF772; cl12084 562970008230 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 562970008231 Phd_YefM; Region: PhdYeFM; cl09153 562970008232 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 562970008233 DNA binding residues [nucleotide binding] 562970008234 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 562970008235 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 562970008236 catalytic residues [active] 562970008237 catalytic nucleophile [active] 562970008238 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 562970008239 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970008240 Phd_YefM; Region: PhdYeFM; cl09153 562970008241 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 562970008242 DNA binding residues [nucleotide binding] 562970008243 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 562970008244 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 562970008245 catalytic residues [active] 562970008246 catalytic nucleophile [active] 562970008247 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 562970008248 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 562970008249 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 562970008250 Domain of unknown function (DUF955); Region: DUF955; cl01076 562970008251 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 562970008252 Fic/DOC family; Region: Fic; cl00960 562970008253 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 562970008254 putative active site [active] 562970008255 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 562970008256 Phd_YefM; Region: PhdYeFM; cl09153 562970008257 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 562970008258 oligomeric interface; other site 562970008259 putative active site [active] 562970008260 homodimer interface [polypeptide binding]; other site 562970008261 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...; Region: TM_PBP2; cl00427 562970008262 PemK-like protein; Region: PemK; cl00995 562970008263 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 562970008264 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 562970008265 putative active site [active] 562970008266 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 562970008267 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 562970008268 Protein export membrane protein; Region: SecD_SecF; cl14618 562970008269 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 562970008270 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 562970008271 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 562970008272 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 562970008273 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 562970008274 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 562970008275 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 562970008276 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 562970008277 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 562970008278 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 562970008279 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 562970008280 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 562970008281 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 562970008282 Stage III sporulation protein D; Region: SpoIIID; cl11824 562970008283 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 562970008284 Peptidase family M23; Region: Peptidase_M23; pfam01551 562970008285 Stage II sporulation protein; Region: SpoIID; cl07201 562970008286 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 562970008287 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 562970008288 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated; Region: PRK09369 562970008289 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 562970008290 hinge; other site 562970008291 active site 562970008292 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 562970008293 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 562970008294 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 562970008295 Major Facilitator Superfamily; Region: MFS_1; pfam07690 562970008296 putative substrate translocation pore; other site 562970008297 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 562970008298 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 562970008299 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 562970008300 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 562970008301 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 562970008302 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 562970008303 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 562970008304 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 562970008305 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 562970008306 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 562970008307 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 alpha-; Region: HCP_like; cl14655 562970008308 NADH dehydrogenase; Region: NADHdh; cl00469 562970008309 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 562970008310 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 562970008311 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 562970008312 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 562970008313 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 562970008314 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 562970008315 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 562970008316 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 562970008317 alpha subunit interaction interface [polypeptide binding]; other site 562970008318 Walker A motif; other site 562970008319 ATP binding site [chemical binding]; other site 562970008320 Walker B motif; other site 562970008321 inhibitor binding site; inhibition site 562970008322 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 562970008323 ATP synthase; Region: ATP-synt; cl00365 562970008324 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 562970008325 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 562970008326 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 562970008327 beta subunit interaction interface [polypeptide binding]; other site 562970008328 Walker A motif; other site 562970008329 ATP binding site [chemical binding]; other site 562970008330 Walker B motif; other site 562970008331 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 562970008332 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 562970008333 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 562970008334 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 562970008335 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 562970008336 ATP synthase subunit C; Region: ATP-synt_C; cl00466 562970008337 ATP synthase A chain; Region: ATP-synt_A; cl00413 562970008338 putative acyltransferase; Provisional; Region: PRK05790 562970008339 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 562970008340 dimer interface [polypeptide binding]; other site 562970008341 active site 562970008342 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 562970008343 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...; Region: SHMT; cd00378 562970008344 dimer interface [polypeptide binding]; other site 562970008345 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 562970008346 glycine-pyridoxal phosphate binding site [chemical binding]; other site 562970008347 active site 562970008348 folate binding site [chemical binding]; other site 562970008349 Protein of unknown function (DUF436); Region: DUF436; cl01860 562970008350 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 562970008351 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 two-...; Region: SirA_YedF_YeeD; cd00291 562970008352 CPxP motif; other site 562970008353 putative inner membrane protein; Provisional; Region: PRK11099 562970008354 Low molecular weight phosphatase family; Region: LMWPc; cd00115 562970008355 Active site [active] 562970008356 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 562970008357 ADP-ribose binding site [chemical binding]; other site 562970008358 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 562970008359 Predicted membrane protein [Function unknown]; Region: COG1971 562970008360 Domain of unknown function DUF; Region: DUF204; pfam02659 562970008361 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 562970008362 SUA5 domain; Region: SUA5; pfam03481 562970008363 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; cl09775 562970008364 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 562970008365 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 562970008366 S-adenosylmethionine binding site [chemical binding]; other site 562970008367 peptide chain release factor 1; Validated; Region: prfA; PRK00591 562970008368 RF-1 domain; Region: RF-1; cl02875 562970008369 RF-1 domain; Region: RF-1; cl02875 562970008370 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 562970008371 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 562970008372 Predicted membrane protein (DUF2078); Region: DUF2078; cl01373 562970008373 Glycerate kinase family; Region: Gly_kinase; cl00841 562970008374 transcription termination factor Rho; Provisional; Region: rho; PRK09376 562970008375 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 562970008376 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent...; Region: Rho_CSD; cd04459 562970008377 RNA binding site [nucleotide binding]; other site 562970008378 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of...; Region: rho_factor; cd01128 562970008379 multimer interface [polypeptide binding]; other site 562970008380 Walker A motif; other site 562970008381 ATP binding site [chemical binding]; other site 562970008382 Walker B motif; other site 562970008383 Fructose-1,6-bisphosphatase/sedoheptulose 1,7-bisphosphatase and related proteins [Carbohydrate transport and metabolism]; Region: GlpX; COG1494 562970008384 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 562970008385 putative active site [active] 562970008386 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 562970008387 Zn binding site [ion binding]; other site 562970008388 M28, and M42; Region: Zinc_peptidase_like; cl14876 562970008389 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 562970008390 metal binding site [ion binding]; metal-binding site 562970008391 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapD_N; pfam08503 562970008392 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 562970008393 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA...; Region: LbH_THP_succinylT; cd03350 562970008394 active site 562970008395 trimer interface [polypeptide binding]; other site 562970008396 substrate binding site [chemical binding]; other site 562970008397 CoA binding site [chemical binding]; other site 562970008398 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 562970008399 active site 562970008400 intersubunit interactions; other site 562970008401 catalytic residue [active] 562970008402 hypothetical protein; Provisional; Region: PRK08185 562970008403 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...; Region: TBP_aldolase_IIB; cd00947 562970008404 intersubunit interface [polypeptide binding]; other site 562970008405 active site 562970008406 zinc binding site [ion binding]; other site 562970008407 Na+ binding site [ion binding]; other site 562970008408 Response regulator receiver domain; Region: Response_reg; pfam00072 562970008409 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 562970008410 active site 562970008411 phosphorylation site [posttranslational modification] 562970008412 intermolecular recognition site; other site 562970008413 dimerization interface [polypeptide binding]; other site 562970008414 CTP synthetase; Validated; Region: pyrG; PRK05380 562970008415 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...; Region: CTGs; cd03113 562970008416 Catalytic site [active] 562970008417 Active site [active] 562970008418 UTP binding site [chemical binding]; other site 562970008419 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 562970008420 active site 562970008421 putative oxyanion hole; other site 562970008422 catalytic triad [active] 562970008423 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 562970008424 ArgK protein; Region: ArgK; pfam03308 562970008425 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 562970008426 Walker A; other site 562970008427 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 562970008428 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 562970008429 FAD binding site [chemical binding]; other site 562970008430 homotetramer interface [polypeptide binding]; other site 562970008431 substrate binding pocket [chemical binding]; other site 562970008432 catalytic base [active] 562970008433 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 562970008434 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 562970008435 active site 562970008436 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 562970008437 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 562970008438 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 562970008439 acetyl-CoA acetyltransferase; Provisional; Region: PRK08235 562970008440 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 562970008441 dimer interface [polypeptide binding]; other site 562970008442 active site 562970008443 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 562970008444 Cysteine-rich domain; Region: CCG; pfam02754 562970008445 Cysteine-rich domain; Region: CCG; pfam02754 562970008446 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 562970008447 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 562970008448 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 562970008449 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 562970008450 active site 562970008451 HIGH motif; other site 562970008452 KMSK motif region; other site 562970008453 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 562970008454 tRNA binding surface [nucleotide binding]; other site 562970008455 anticodon binding site; other site 562970008456 Arginase family; Region: Arginase; cl00306 562970008457 spermidine synthase; Provisional; Region: PRK00811 562970008458 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 562970008459 S-adenosylmethionine binding site [chemical binding]; other site 562970008460 Transglycosylase; Region: Transgly; cl07896 562970008461 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 562970008462 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 562970008463 aspartate aminotransferase; Provisional; Region: PRK08361 562970008464 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 562970008465 pyridoxal 5'-phosphate binding site [chemical binding]; other site 562970008466 homodimer interface [polypeptide binding]; other site 562970008467 catalytic residue [active] 562970008468 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 562970008469 active site 562970008470 catalytic triad [active] 562970008471 oxyanion hole [active] 562970008472 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 562970008473 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 562970008474 Walker A/P-loop; other site 562970008475 ATP binding site [chemical binding]; other site 562970008476 Q-loop/lid; other site 562970008477 ABC transporter signature motif; other site 562970008478 Walker B; other site 562970008479 D-loop; other site 562970008480 H-loop/switch region; other site 562970008481 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 562970008482 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...; Region: TM_PBP2; cd06261 562970008483 dimer interface [polypeptide binding]; other site 562970008484 conserved gate region; other site 562970008485 putative PBP binding loops; other site 562970008486 ABC-ATPase subunit interface; other site 562970008487 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...; Region: TM_PBP2; cd06261 562970008488 dimer interface [polypeptide binding]; other site 562970008489 conserved gate region; other site 562970008490 putative PBP binding loops; other site 562970008491 ABC-ATPase subunit interface; other site 562970008492 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 562970008493 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 562970008494 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 562970008495 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 562970008496 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 C-...; Region: PDZ_serine_protease; cd00987 562970008497 protein binding site [polypeptide binding]; other site 562970008498 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 562970008499 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 562970008500 DNA binding residues [nucleotide binding] 562970008501 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 562970008502 catalytic residues [active] 562970008503 catalytic nucleophile [active] 562970008504 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 562970008505 adenylosuccinate synthetase; Provisional; Region: PRK01117 562970008506 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 r-...; Region: AdSS; cd03108 562970008507 GDP-binding site [chemical binding]; other site 562970008508 ACT binding site; other site 562970008509 IMP binding site; other site 562970008510 Cell division protein FtsA; Region: FtsA; cl11496 562970008511 cell division protein FtsA; Region: ftsA; TIGR01174 562970008512 Cell division protein FtsA; Region: FtsA; cl11496 562970008513 replicative DNA helicase; Region: DnaB; TIGR00665 562970008514 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 562970008515 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 562970008516 Walker A motif; other site 562970008517 ATP binding site [chemical binding]; other site 562970008518 Walker B motif; other site 562970008519 DNA binding loops [nucleotide binding] 562970008520 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 562970008521 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 562970008522 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 562970008523 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 562970008524 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 562970008525 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 562970008526 dimer interface [polypeptide binding]; other site 562970008527 ssDNA binding site [nucleotide binding]; other site 562970008528 tetramer (dimer of dimers) interface [polypeptide binding]; other site 562970008529 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 562970008530 GTP-binding protein YchF; Reviewed; Region: PRK09601 562970008531 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 562970008532 G1 box; other site 562970008533 GTP/Mg2+ binding site [chemical binding]; other site 562970008534 Switch I region; other site 562970008535 G2 box; other site 562970008536 Switch II region; other site 562970008537 G3 box; other site 562970008538 G4 box; other site 562970008539 G5 box; other site 562970008540 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 562970008541 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 562970008542 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 562970008543 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 562970008544 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 562970008545 Protein of unknown function (DUF554); Region: DUF554; cl00784 562970008546 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 562970008547 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 562970008548 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 562970008549 catalytic residue [active] 562970008550 ParB-like nuclease domain; Region: ParBc; cl02129 562970008551 ParB-like partition proteins; Region: parB_part; TIGR00180 562970008552 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 562970008553 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 562970008554 ParB-like partition proteins; Region: parB_part; TIGR00180 562970008555 ParB-like nuclease domain; Region: ParBc; cl02129 562970008556 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 562970008557 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 562970008558 S-adenosylmethionine binding site [chemical binding]; other site 562970008559 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 562970008560 Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]; Region: GidA; COG0445 562970008561 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 562970008562 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 562970008563 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 562970008564 G1 box; other site 562970008565 GTP/Mg2+ binding site [chemical binding]; other site 562970008566 Switch I region; other site 562970008567 G2 box; other site 562970008568 Switch II region; other site 562970008569 G3 box; other site 562970008570 G4 box; other site 562970008571 G5 box; other site 562970008572 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 562970008573 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 562970008574 Domain of unknown function DUF37; Region: DUF37; cl00506 562970008575 Ribonuclease P; Region: Ribonuclease_P; cl00457 562970008576 Ribosomal protein L34; Region: Ribosomal_L34; cl00370