-- dump date 20140620_085418 -- class Genbank::misc_feature -- table misc_feature_note -- id note 170187000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 170187000002 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 170187000003 Walker A motif; other site 170187000004 ATP binding site [chemical binding]; other site 170187000005 Walker B motif; other site 170187000006 arginine finger; other site 170187000007 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 170187000008 DnaA box-binding interface [nucleotide binding]; other site 170187000009 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 170187000010 DNA polymerase III beta subunit; Region: POL3Bc; smart00480 170187000011 putative DNA binding surface [nucleotide binding]; other site 170187000012 dimer interface [polypeptide binding]; other site 170187000013 beta-clamp/clamp loader binding surface; other site 170187000014 beta-clamp/translesion DNA polymerase binding surface; other site 170187000015 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4481 170187000016 GTP-binding protein YchF; Reviewed; Region: PRK09601 170187000017 YchF GTPase; Region: YchF; cd01900 170187000018 G1 box; other site 170187000019 GTP/Mg2+ binding site [chemical binding]; other site 170187000020 Switch I region; other site 170187000021 G2 box; other site 170187000022 Switch II region; other site 170187000023 G3 box; other site 170187000024 G4 box; other site 170187000025 G5 box; other site 170187000026 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 170187000027 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 170187000028 putative active site [active] 170187000029 catalytic residue [active] 170187000030 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 170187000031 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 170187000032 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 170187000033 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 170187000034 ATP binding site [chemical binding]; other site 170187000035 putative Mg++ binding site [ion binding]; other site 170187000036 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 170187000037 nucleotide binding region [chemical binding]; other site 170187000038 ATP-binding site [chemical binding]; other site 170187000039 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 170187000040 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 170187000041 RNA binding surface [nucleotide binding]; other site 170187000042 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 170187000043 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 170187000044 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 170187000045 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 170187000046 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 170187000047 Ligand Binding Site [chemical binding]; other site 170187000048 TilS substrate C-terminal domain; Region: TilS_C; smart00977 170187000049 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 170187000050 active site 170187000051 FtsH Extracellular; Region: FtsH_ext; pfam06480 170187000052 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 170187000053 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 170187000054 Walker A motif; other site 170187000055 ATP binding site [chemical binding]; other site 170187000056 Walker B motif; other site 170187000057 arginine finger; other site 170187000058 Peptidase family M41; Region: Peptidase_M41; pfam01434 170187000059 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 170187000060 Transposase; Region: HTH_Tnp_IS630; pfam01710 170187000061 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 170187000062 DDE superfamily endonuclease; Region: DDE_3; pfam13358 170187000063 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 170187000064 GDP-binding site [chemical binding]; other site 170187000065 ACT binding site; other site 170187000066 IMP binding site; other site 170187000067 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 170187000068 nucleoside/Zn binding site; other site 170187000069 dimer interface [polypeptide binding]; other site 170187000070 catalytic motif [active] 170187000071 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 170187000072 trimer interface [polypeptide binding]; other site 170187000073 active site 170187000074 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 170187000075 catalytic core [active] 170187000076 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 170187000077 active site clefts [active] 170187000078 zinc binding site [ion binding]; other site 170187000079 dimer interface [polypeptide binding]; other site 170187000080 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 170187000081 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 170187000082 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 170187000083 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 170187000084 active site 170187000085 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 170187000086 DNA polymerase I; Provisional; Region: PRK05755 170187000087 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 170187000088 active site 170187000089 metal binding site 1 [ion binding]; metal-binding site 170187000090 putative 5' ssDNA interaction site; other site 170187000091 metal binding site 3; metal-binding site 170187000092 metal binding site 2 [ion binding]; metal-binding site 170187000093 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 170187000094 putative DNA binding site [nucleotide binding]; other site 170187000095 putative metal binding site [ion binding]; other site 170187000096 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 170187000097 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 170187000098 active site 170187000099 DNA binding site [nucleotide binding] 170187000100 catalytic site [active] 170187000101 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 170187000102 Predicted membrane protein [Function unknown]; Region: COG2855 170187000103 aminotransferase A; Validated; Region: PRK07683 170187000104 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 170187000105 pyridoxal 5'-phosphate binding site [chemical binding]; other site 170187000106 homodimer interface [polypeptide binding]; other site 170187000107 catalytic residue [active] 170187000108 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 170187000109 Recombination protein O N terminal; Region: RecO_N; pfam11967 170187000110 Recombination protein O C terminal; Region: RecO_C; pfam02565 170187000111 putative phosphate acyltransferase; Provisional; Region: PRK05331 170187000112 Phosphopantetheine attachment site; Region: PP-binding; cl09936 170187000113 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 170187000114 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_C39B; cd02418 170187000115 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 170187000116 putative active site [active] 170187000117 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 170187000118 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187000119 Walker A/P-loop; other site 170187000120 ATP binding site [chemical binding]; other site 170187000121 Q-loop/lid; other site 170187000122 ABC transporter signature motif; other site 170187000123 Walker B; other site 170187000124 D-loop; other site 170187000125 H-loop/switch region; other site 170187000126 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 170187000127 HlyD family secretion protein; Region: HlyD_3; pfam13437 170187000128 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 170187000129 ATP binding site [chemical binding]; other site 170187000130 active site 170187000131 substrate binding site [chemical binding]; other site 170187000132 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 170187000133 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 170187000134 dimerization interface [polypeptide binding]; other site 170187000135 ATP binding site [chemical binding]; other site 170187000136 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 170187000137 dimerization interface [polypeptide binding]; other site 170187000138 ATP binding site [chemical binding]; other site 170187000139 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 170187000140 putative active site [active] 170187000141 catalytic triad [active] 170187000142 amidophosphoribosyltransferase; Provisional; Region: PRK07272 170187000143 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 170187000144 active site 170187000145 tetramer interface [polypeptide binding]; other site 170187000146 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 170187000147 active site 170187000148 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 170187000149 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 170187000150 dimerization interface [polypeptide binding]; other site 170187000151 putative ATP binding site [chemical binding]; other site 170187000152 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 170187000153 active site 170187000154 substrate binding site [chemical binding]; other site 170187000155 cosubstrate binding site; other site 170187000156 catalytic site [active] 170187000157 VanZ like family; Region: VanZ; pfam04892 170187000158 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 170187000159 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 170187000160 purine monophosphate binding site [chemical binding]; other site 170187000161 dimer interface [polypeptide binding]; other site 170187000162 putative catalytic residues [active] 170187000163 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 170187000164 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 170187000165 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 170187000166 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 170187000167 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 170187000168 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 170187000169 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 170187000170 ATP-grasp domain; Region: ATP-grasp_4; cl17255 170187000171 adenylosuccinate lyase; Provisional; Region: PRK07492 170187000172 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 170187000173 tetramer interface [polypeptide binding]; other site 170187000174 active site 170187000175 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 170187000176 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 170187000177 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 170187000178 Glycosyl hydrolase family 20 (GH20) catalytic domain of dispersin B (DspB), lacto-N-biosidase (LnbB) and related proteins. Dispersin B is a soluble beta-N-acetylglucosamidase found in bacteria that hydrolyzes the beta-1,6-linkages of PGA (poly-beta-(1,6)...; Region: GH20_DspB_LnbB-like; cd06564 170187000179 active site 170187000180 Glycosyl hydrolase family 20 (GH20) catalytic domain of dispersin B (DspB), lacto-N-biosidase (LnbB) and related proteins. Dispersin B is a soluble beta-N-acetylglucosamidase found in bacteria that hydrolyzes the beta-1,6-linkages of PGA (poly-beta-(1,6)...; Region: GH20_DspB_LnbB-like; cd06564 170187000181 active site 170187000182 G5 domain; Region: G5; pfam07501 170187000183 G5 domain; Region: G5; pfam07501 170187000184 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 170187000185 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 170187000186 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 170187000187 DNA-binding site [nucleotide binding]; DNA binding site 170187000188 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 170187000189 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 170187000190 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 170187000191 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 170187000192 active site 170187000193 phosphorylation site [posttranslational modification] 170187000194 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 170187000195 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 170187000196 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 170187000197 active pocket/dimerization site; other site 170187000198 active site 170187000199 phosphorylation site [posttranslational modification] 170187000200 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 170187000201 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 170187000202 dimer interface [polypeptide binding]; other site 170187000203 active site 170187000204 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 170187000205 putative active site [active] 170187000206 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 170187000207 active site 170187000208 catalytic residues [active] 170187000209 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 170187000210 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187000211 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187000212 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 170187000213 G5 domain; Region: G5; pfam07501 170187000214 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 170187000215 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 170187000216 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 170187000217 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 170187000218 putative metal binding site [ion binding]; other site 170187000219 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 170187000220 active site 170187000221 maltose O-acetyltransferase; Provisional; Region: PRK10092 170187000222 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 170187000223 active site 170187000224 substrate binding site [chemical binding]; other site 170187000225 trimer interface [polypeptide binding]; other site 170187000226 CoA binding site [chemical binding]; other site 170187000227 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 170187000228 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 170187000229 Cation transport protein; Region: TrkH; cl17365 170187000230 Cation transport protein; Region: TrkH; cl17365 170187000231 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 170187000232 TrkA-N domain; Region: TrkA_N; pfam02254 170187000233 Fibronectin-binding repeat; Region: SSURE; pfam11966 170187000234 Fibronectin-binding repeat; Region: SSURE; pfam11966 170187000235 Fibronectin-binding repeat; Region: SSURE; pfam11966 170187000236 Fibronectin-binding repeat; Region: SSURE; pfam11966 170187000237 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 170187000238 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 170187000239 active site 170187000240 phosphorylation site [posttranslational modification] 170187000241 intermolecular recognition site; other site 170187000242 dimerization interface [polypeptide binding]; other site 170187000243 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 170187000244 DNA binding site [nucleotide binding] 170187000245 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 170187000246 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 170187000247 dimerization interface [polypeptide binding]; other site 170187000248 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 170187000249 dimer interface [polypeptide binding]; other site 170187000250 phosphorylation site [posttranslational modification] 170187000251 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 170187000252 ATP binding site [chemical binding]; other site 170187000253 Mg2+ binding site [ion binding]; other site 170187000254 G-X-G motif; other site 170187000255 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 170187000256 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 170187000257 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 170187000258 RNA binding surface [nucleotide binding]; other site 170187000259 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 170187000260 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187000261 dimer interface [polypeptide binding]; other site 170187000262 conserved gate region; other site 170187000263 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 170187000264 ABC-ATPase subunit interface; other site 170187000265 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 170187000266 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187000267 dimer interface [polypeptide binding]; other site 170187000268 conserved gate region; other site 170187000269 putative PBP binding loops; other site 170187000270 ABC-ATPase subunit interface; other site 170187000271 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 170187000272 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 170187000273 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 170187000274 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 170187000275 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 170187000276 active site residue [active] 170187000277 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 170187000278 Domain of unknown function (DUF4299); Region: DUF4299; pfam14132 170187000279 Merozoite surface protein (SPAM); Region: Merozoite_SPAM; pfam07133 170187000280 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 170187000281 Predicted membrane protein [Function unknown]; Region: COG4709 170187000282 Predicted transcriptional regulators [Transcription]; Region: COG1695 170187000283 putative DNA binding site [nucleotide binding]; other site 170187000284 putative Zn2+ binding site [ion binding]; other site 170187000285 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 170187000286 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 170187000287 putative substrate translocation pore; other site 170187000288 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 170187000289 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 170187000290 Ligand binding site; other site 170187000291 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 170187000292 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 170187000293 CoA binding domain; Region: CoA_binding; cl17356 170187000294 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 170187000295 NAD(P) binding site [chemical binding]; other site 170187000296 homodimer interface [polypeptide binding]; other site 170187000297 substrate binding site [chemical binding]; other site 170187000298 active site 170187000299 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 170187000300 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 170187000301 active site 170187000302 motif I; other site 170187000303 motif II; other site 170187000304 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 170187000305 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 170187000306 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 170187000307 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 170187000308 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 170187000309 putative L-serine binding site [chemical binding]; other site 170187000310 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 170187000311 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 170187000312 bacteriocin, lactococcin 972 family; Region: lactococcin_972; TIGR01653 170187000313 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 170187000314 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 170187000315 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 170187000316 Walker A/P-loop; other site 170187000317 ATP binding site [chemical binding]; other site 170187000318 Q-loop/lid; other site 170187000319 ABC transporter signature motif; other site 170187000320 Walker B; other site 170187000321 D-loop; other site 170187000322 H-loop/switch region; other site 170187000323 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 170187000324 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 170187000325 substrate binding pocket [chemical binding]; other site 170187000326 membrane-bound complex binding site; other site 170187000327 hinge residues; other site 170187000328 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 170187000329 Protein of unknown function (DUF342); Region: DUF342; cl19219 170187000330 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 170187000331 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 170187000332 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 170187000333 Small proline-rich 2; Region: SPRR2; pfam14820 170187000334 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187000335 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 170187000336 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187000337 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187000338 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187000339 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187000340 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187000341 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187000342 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187000343 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187000344 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 170187000345 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 170187000346 Ligand Binding Site [chemical binding]; other site 170187000347 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_29; cd04688 170187000348 nudix motif; other site 170187000349 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 170187000350 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 170187000351 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 170187000352 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 170187000353 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 170187000354 RNA-metabolizing metallo-beta-lactamase; Region: RMMBL; pfam07521 170187000355 hypothetical protein; Provisional; Region: PRK13667 170187000356 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 170187000357 Glycoprotease family; Region: Peptidase_M22; pfam00814 170187000358 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 170187000359 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 170187000360 Coenzyme A binding pocket [chemical binding]; other site 170187000361 UGMP family protein; Validated; Region: PRK09604 170187000362 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 170187000363 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 170187000364 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 170187000365 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 170187000366 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 170187000367 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 170187000368 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 170187000369 active site 170187000370 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 170187000371 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 170187000372 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 170187000373 Walker A/P-loop; other site 170187000374 ATP binding site [chemical binding]; other site 170187000375 Q-loop/lid; other site 170187000376 ABC transporter signature motif; other site 170187000377 Walker B; other site 170187000378 D-loop; other site 170187000379 H-loop/switch region; other site 170187000380 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 170187000381 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 170187000382 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 170187000383 non-specific DNA binding site [nucleotide binding]; other site 170187000384 salt bridge; other site 170187000385 sequence-specific DNA binding site [nucleotide binding]; other site 170187000386 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 170187000387 Predicted metal-dependent membrane protease [General function prediction only]; Region: COG1266 170187000388 Predicted metal-dependent membrane protease [General function prediction only]; Region: COG1266 170187000389 H+ Antiporter protein; Region: 2A0121; TIGR00900 170187000390 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 170187000391 Predicted membrane protein [Function unknown]; Region: COG4392 170187000392 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 170187000393 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 170187000394 substrate binding pocket [chemical binding]; other site 170187000395 membrane-bound complex binding site; other site 170187000396 hinge residues; other site 170187000397 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 170187000398 hypothetical protein; Provisional; Region: PRK06446 170187000399 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_4; cd05681 170187000400 metal binding site [ion binding]; metal-binding site 170187000401 dimer interface [polypeptide binding]; other site 170187000402 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 170187000403 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187000404 Walker A/P-loop; other site 170187000405 ATP binding site [chemical binding]; other site 170187000406 Q-loop/lid; other site 170187000407 ABC transporter signature motif; other site 170187000408 Walker B; other site 170187000409 D-loop; other site 170187000410 H-loop/switch region; other site 170187000411 NIL domain; Region: NIL; pfam09383 170187000412 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187000413 dimer interface [polypeptide binding]; other site 170187000414 conserved gate region; other site 170187000415 ABC-ATPase subunit interface; other site 170187000416 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 170187000417 Predicted integral membrane protein [Function unknown]; Region: COG5578 170187000418 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 170187000419 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 170187000420 dimerization interface [polypeptide binding]; other site 170187000421 Histidine kinase; Region: His_kinase; pfam06580 170187000422 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 170187000423 ATP binding site [chemical binding]; other site 170187000424 Mg2+ binding site [ion binding]; other site 170187000425 G-X-G motif; other site 170187000426 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 170187000427 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 170187000428 active site 170187000429 phosphorylation site [posttranslational modification] 170187000430 intermolecular recognition site; other site 170187000431 dimerization interface [polypeptide binding]; other site 170187000432 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 170187000433 flavoprotein NrdI; Provisional; Region: PRK02551 170187000434 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 170187000435 Amino acid permease; Region: AA_permease_2; pfam13520 170187000436 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 170187000437 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 170187000438 LytTr DNA-binding domain; Region: LytTR; smart00850 170187000439 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 170187000440 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 170187000441 non-specific DNA binding site [nucleotide binding]; other site 170187000442 salt bridge; other site 170187000443 sequence-specific DNA binding site [nucleotide binding]; other site 170187000444 Phosphopantothenoylcysteine synthetase/decarboxylase [Coenzyme metabolism]; Region: Dfp; COG0452 170187000445 Flavoprotein; Region: Flavoprotein; pfam02441 170187000446 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 170187000447 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 170187000448 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 170187000449 catalytic residue [active] 170187000450 H+ Antiporter protein; Region: 2A0121; TIGR00900 170187000451 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 170187000452 putative substrate translocation pore; other site 170187000453 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 170187000454 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 170187000455 nucleotide binding site [chemical binding]; other site 170187000456 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 170187000457 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 170187000458 ATP binding site [chemical binding]; other site 170187000459 Mg2+ binding site [ion binding]; other site 170187000460 G-X-G motif; other site 170187000461 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 170187000462 ATP binding site [chemical binding]; other site 170187000463 MutL C terminal dimerization domain; Region: MutL_C; pfam08676 170187000464 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 170187000465 homopentamer interface [polypeptide binding]; other site 170187000466 active site 170187000467 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 170187000468 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 170187000469 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 170187000470 dimerization interface [polypeptide binding]; other site 170187000471 active site 170187000472 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 170187000473 Lumazine binding domain; Region: Lum_binding; pfam00677 170187000474 Lumazine binding domain; Region: Lum_binding; pfam00677 170187000475 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 170187000476 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 170187000477 catalytic motif [active] 170187000478 Zn binding site [ion binding]; other site 170187000479 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 170187000480 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 170187000481 RuvA N terminal domain; Region: RuvA_N; pfam01330 170187000482 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 170187000483 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 170187000484 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 170187000485 CAAX protease self-immunity; Region: Abi; pfam02517 170187000486 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 170187000487 putative dimer interface [polypeptide binding]; other site 170187000488 catalytic triad [active] 170187000489 Uncharacterized membrane-bound protein conserved in bacteria [Function unknown]; Region: COG4858 170187000490 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 170187000491 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 170187000492 Cl binding site [ion binding]; other site 170187000493 oligomer interface [polypeptide binding]; other site 170187000494 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 170187000495 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 170187000496 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 170187000497 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 170187000498 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 170187000499 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 170187000500 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 170187000501 active site 170187000502 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 170187000503 putative catalytic residues [active] 170187000504 thiol/disulfide switch; other site 170187000505 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4472 170187000506 hypothetical protein; Provisional; Region: PRK13678 170187000507 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 170187000508 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 170187000509 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 170187000510 Bacterial lipoprotein; Region: DUF3642; pfam12182 170187000511 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 170187000512 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 170187000513 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 170187000514 putative active site [active] 170187000515 catalytic site [active] 170187000516 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 170187000517 putative active site [active] 170187000518 catalytic site [active] 170187000519 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 170187000520 ATP cone domain; Region: ATP-cone; pfam03477 170187000521 Class III ribonucleotide reductase; Region: RNR_III; cd01675 170187000522 effector binding site; other site 170187000523 active site 170187000524 Zn binding site [ion binding]; other site 170187000525 glycine loop; other site 170187000526 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 170187000527 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 170187000528 Coenzyme A binding pocket [chemical binding]; other site 170187000529 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 170187000530 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 170187000531 FeS/SAM binding site; other site 170187000532 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 170187000533 active site 170187000534 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 170187000535 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 170187000536 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 170187000537 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 170187000538 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 170187000539 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 170187000540 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 170187000541 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 170187000542 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 170187000543 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 170187000544 putative translocon binding site; other site 170187000545 protein-rRNA interface [nucleotide binding]; other site 170187000546 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 170187000547 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 170187000548 G-X-X-G motif; other site 170187000549 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 170187000550 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 170187000551 23S rRNA interface [nucleotide binding]; other site 170187000552 5S rRNA interface [nucleotide binding]; other site 170187000553 putative antibiotic binding site [chemical binding]; other site 170187000554 L25 interface [polypeptide binding]; other site 170187000555 L27 interface [polypeptide binding]; other site 170187000556 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 170187000557 23S rRNA interface [nucleotide binding]; other site 170187000558 putative translocon interaction site; other site 170187000559 signal recognition particle (SRP54) interaction site; other site 170187000560 L23 interface [polypeptide binding]; other site 170187000561 trigger factor interaction site; other site 170187000562 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 170187000563 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 170187000564 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 170187000565 RNA binding site [nucleotide binding]; other site 170187000566 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 170187000567 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 170187000568 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 170187000569 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 170187000570 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 170187000571 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 170187000572 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 170187000573 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 170187000574 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 170187000575 5S rRNA interface [nucleotide binding]; other site 170187000576 L27 interface [polypeptide binding]; other site 170187000577 23S rRNA interface [nucleotide binding]; other site 170187000578 L5 interface [polypeptide binding]; other site 170187000579 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 170187000580 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 170187000581 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 170187000582 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 170187000583 23S rRNA binding site [nucleotide binding]; other site 170187000584 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 170187000585 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 170187000586 SecY translocase; Region: SecY; pfam00344 170187000587 adenylate kinase; Reviewed; Region: adk; PRK00279 170187000588 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 170187000589 AMP-binding site [chemical binding]; other site 170187000590 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 170187000591 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 170187000592 rRNA binding site [nucleotide binding]; other site 170187000593 predicted 30S ribosome binding site; other site 170187000594 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 170187000595 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 170187000596 30S ribosomal protein S11; Validated; Region: PRK05309 170187000597 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 170187000598 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 170187000599 alphaNTD homodimer interface [polypeptide binding]; other site 170187000600 alphaNTD - beta interaction site [polypeptide binding]; other site 170187000601 alphaNTD - beta' interaction site [polypeptide binding]; other site 170187000602 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 170187000603 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 170187000604 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 170187000605 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 170187000606 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 170187000607 catalytic core [active] 170187000608 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 170187000609 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187000610 Walker A/P-loop; other site 170187000611 ATP binding site [chemical binding]; other site 170187000612 Q-loop/lid; other site 170187000613 ABC transporter signature motif; other site 170187000614 Walker B; other site 170187000615 D-loop; other site 170187000616 H-loop/switch region; other site 170187000617 TOBE domain; Region: TOBE_2; pfam08402 170187000618 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 170187000619 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 170187000620 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 170187000621 FeS/SAM binding site; other site 170187000622 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 170187000623 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 170187000624 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 170187000625 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 170187000626 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 170187000627 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 170187000628 active site 170187000629 methionine cluster; other site 170187000630 phosphorylation site [posttranslational modification] 170187000631 metal binding site [ion binding]; metal-binding site 170187000632 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 170187000633 active site 170187000634 P-loop; other site 170187000635 phosphorylation site [posttranslational modification] 170187000636 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 170187000637 Pyruvate-formate lyase [Energy production and conversion]; Region: PflD; COG1882 170187000638 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 170187000639 dimer interface [polypeptide binding]; other site 170187000640 active site 170187000641 glycine loop; other site 170187000642 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 170187000643 active site 170187000644 intersubunit interactions; other site 170187000645 catalytic residue [active] 170187000646 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 170187000647 dimer interface [polypeptide binding]; other site 170187000648 active site 170187000649 metal binding site [ion binding]; metal-binding site 170187000650 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 170187000651 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 170187000652 active site 170187000653 HIGH motif; other site 170187000654 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 170187000655 KMSKS motif; other site 170187000656 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 170187000657 tRNA binding surface [nucleotide binding]; other site 170187000658 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 170187000659 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 170187000660 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 170187000661 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 170187000662 Coenzyme A binding pocket [chemical binding]; other site 170187000663 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 170187000664 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 170187000665 Walker A motif; other site 170187000666 ATP binding site [chemical binding]; other site 170187000667 Walker B motif; other site 170187000668 arginine finger; other site 170187000669 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 170187000670 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3575 170187000671 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 170187000672 active site 170187000673 dimer interface [polypeptide binding]; other site 170187000674 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 170187000675 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 170187000676 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 170187000677 active site 170187000678 putative substrate binding region [chemical binding]; other site 170187000679 prolyl-tRNA synthetase; Provisional; Region: PRK09194 170187000680 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 170187000681 dimer interface [polypeptide binding]; other site 170187000682 motif 1; other site 170187000683 active site 170187000684 motif 2; other site 170187000685 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 170187000686 putative deacylase active site [active] 170187000687 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 170187000688 active site 170187000689 motif 3; other site 170187000690 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 170187000691 anticodon binding site; other site 170187000692 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 170187000693 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 170187000694 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 170187000695 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 170187000696 glutaminase active site [active] 170187000697 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 170187000698 dimer interface [polypeptide binding]; other site 170187000699 active site 170187000700 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 170187000701 dimer interface [polypeptide binding]; other site 170187000702 active site 170187000703 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 170187000704 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 170187000705 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 170187000706 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 170187000707 carbohydrate binding site [chemical binding]; other site 170187000708 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 170187000709 carbohydrate binding site [chemical binding]; other site 170187000710 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 170187000711 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 170187000712 Ca binding site [ion binding]; other site 170187000713 active site 170187000714 catalytic site [active] 170187000715 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 170187000716 S17 interaction site [polypeptide binding]; other site 170187000717 S8 interaction site; other site 170187000718 16S rRNA interaction site [nucleotide binding]; other site 170187000719 streptomycin interaction site [chemical binding]; other site 170187000720 23S rRNA interaction site [nucleotide binding]; other site 170187000721 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 170187000722 30S ribosomal protein S7; Validated; Region: PRK05302 170187000723 elongation factor G; Reviewed; Region: PRK00007 170187000724 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 170187000725 G1 box; other site 170187000726 putative GEF interaction site [polypeptide binding]; other site 170187000727 GTP/Mg2+ binding site [chemical binding]; other site 170187000728 Switch I region; other site 170187000729 G2 box; other site 170187000730 G3 box; other site 170187000731 Switch II region; other site 170187000732 G4 box; other site 170187000733 G5 box; other site 170187000734 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 170187000735 Elongation Factor G, domain II; Region: EFG_II; pfam14492 170187000736 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 170187000737 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 170187000738 DNA polymerase III PolC; Validated; Region: polC; PRK00448 170187000739 DNA polymerase III polC-type N-terminus I; Region: DNA_pol3_a_NI; pfam14480 170187000740 DNA polymerase III polC-type N-terminus II; Region: DNA_pol3_a_NII; pfam11490 170187000741 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 170187000742 generic binding surface II; other site 170187000743 generic binding surface I; other site 170187000744 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 170187000745 active site 170187000746 putative PHP Thumb interface [polypeptide binding]; other site 170187000747 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 170187000748 active site 170187000749 catalytic site [active] 170187000750 substrate binding site [chemical binding]; other site 170187000751 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 170187000752 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 170187000753 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 170187000754 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 170187000755 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 170187000756 Predicted membrane protein [Function unknown]; Region: COG2261 170187000757 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 170187000758 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 170187000759 RNA binding surface [nucleotide binding]; other site 170187000760 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 170187000761 active site 170187000762 uracil binding [chemical binding]; other site 170187000763 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 170187000764 trimer interface [polypeptide binding]; other site 170187000765 active site 170187000766 G bulge; other site 170187000767 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 170187000768 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 170187000769 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 170187000770 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 170187000771 active pocket/dimerization site; other site 170187000772 active site 170187000773 phosphorylation site [posttranslational modification] 170187000774 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 170187000775 active site 170187000776 phosphorylation site [posttranslational modification] 170187000777 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 170187000778 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 170187000779 NAD binding site [chemical binding]; other site 170187000780 substrate binding site [chemical binding]; other site 170187000781 catalytic Zn binding site [ion binding]; other site 170187000782 tetramer interface [polypeptide binding]; other site 170187000783 structural Zn binding site [ion binding]; other site 170187000784 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 170187000785 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 170187000786 active site 170187000787 motif I; other site 170187000788 motif II; other site 170187000789 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 170187000790 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 170187000791 Sulfate transporter family; Region: Sulfate_transp; cl19250 170187000792 Predicted metal-dependent membrane protease [General function prediction only]; Region: COG1266 170187000793 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 170187000794 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 170187000795 substrate binding pocket [chemical binding]; other site 170187000796 dimer interface [polypeptide binding]; other site 170187000797 inhibitor binding site; inhibition site 170187000798 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 170187000799 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 170187000800 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 170187000801 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 170187000802 homodecamer interface [polypeptide binding]; other site 170187000803 active site 170187000804 putative catalytic site residues [active] 170187000805 zinc binding site [ion binding]; other site 170187000806 GTP-CH-I/GFRP interaction surface; other site 170187000807 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 170187000808 homooctamer interface [polypeptide binding]; other site 170187000809 active site 170187000810 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 170187000811 catalytic center binding site [active] 170187000812 ATP binding site [chemical binding]; other site 170187000813 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 170187000814 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 170187000815 23S rRNA interface [nucleotide binding]; other site 170187000816 L3 interface [polypeptide binding]; other site 170187000817 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 170187000818 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 170187000819 AAA domain; Region: AAA_14; pfam13173 170187000820 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 170187000821 Transposase; Region: HTH_Tnp_IS630; pfam01710 170187000822 Winged helix-turn helix; Region: HTH_29; pfam13551 170187000823 DDE superfamily endonuclease; Region: DDE_3; pfam13358 170187000824 Uncharacterized conserved protein [Function unknown]; Region: COG1359 170187000825 6-phospho-beta-glucosidase; Reviewed; Region: celA; PRK09589 170187000826 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 170187000827 Uncharacterized conserved protein [Function unknown]; Region: COG4095 170187000828 cellobiose phosphotransferase system IIB component; Reviewed; Region: celB; PRK09590 170187000829 active site 170187000830 P-loop; other site 170187000831 phosphorylation site [posttranslational modification] 170187000832 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 170187000833 HTH domain; Region: HTH_11; pfam08279 170187000834 Mga helix-turn-helix domain; Region: Mga; pfam05043 170187000835 PRD domain; Region: PRD; pfam00874 170187000836 PRD domain; Region: PRD; pfam00874 170187000837 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 170187000838 active site 170187000839 P-loop; other site 170187000840 phosphorylation site [posttranslational modification] 170187000841 Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: PtsN; COG1762 170187000842 active site 170187000843 phosphorylation site [posttranslational modification] 170187000844 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 170187000845 methionine cluster; other site 170187000846 active site 170187000847 phosphorylation site [posttranslational modification] 170187000848 metal binding site [ion binding]; metal-binding site 170187000849 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 170187000850 Glycosyl hydrolases family 31; Region: Glyco_hydro_31; pfam01055 170187000851 This family represents an uncharacterized glycosyl hydrolase family 31 (GH31) enzyme found in bacteria and eukaryotes that is related to the XylS xylosidase of Sulfolobus solfataricus. Alpha-xylosidases catalyze the release of an alpha-xylose residue...; Region: GH31_xylosidase_XylS-like; cd06595 170187000852 putative active site [active] 170187000853 putative catalytic site [active] 170187000854 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 170187000855 catalytic residues [active] 170187000856 dimer interface [polypeptide binding]; other site 170187000857 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 170187000858 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cd01083 170187000859 substrate binding site [chemical binding]; other site 170187000860 catalytic residues [active] 170187000861 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 170187000862 Entner-Doudoroff aldolase; Region: eda; TIGR01182 170187000863 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 170187000864 active site 170187000865 intersubunit interface [polypeptide binding]; other site 170187000866 catalytic residue [active] 170187000867 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 170187000868 substrate binding site [chemical binding]; other site 170187000869 ATP binding site [chemical binding]; other site 170187000870 hypothetical protein; Provisional; Region: PRK09273 170187000871 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 170187000872 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 170187000873 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 170187000874 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 170187000875 NADP binding site [chemical binding]; other site 170187000876 homodimer interface [polypeptide binding]; other site 170187000877 active site 170187000878 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 170187000879 active pocket/dimerization site; other site 170187000880 active site 170187000881 phosphorylation site [posttranslational modification] 170187000882 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 170187000883 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 170187000884 active site 170187000885 phosphorylation site [posttranslational modification] 170187000886 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 170187000887 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 170187000888 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 170187000889 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 170187000890 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 170187000891 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 170187000892 Transcriptional regulators [Transcription]; Region: PurR; COG1609 170187000893 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 170187000894 DNA binding site [nucleotide binding] 170187000895 domain linker motif; other site 170187000896 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 170187000897 putative dimerization interface [polypeptide binding]; other site 170187000898 putative ligand binding site [chemical binding]; other site 170187000899 Protein of unknown function (DUF3278); Region: DUF3278; pfam11683 170187000900 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 170187000901 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 170187000902 non-specific DNA binding site [nucleotide binding]; other site 170187000903 salt bridge; other site 170187000904 sequence-specific DNA binding site [nucleotide binding]; other site 170187000905 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 170187000906 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 170187000907 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 170187000908 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 170187000909 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 170187000910 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cd06573 170187000911 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cd06573 170187000912 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 170187000913 Mg++ binding site [ion binding]; other site 170187000914 putative catalytic motif [active] 170187000915 putative substrate binding site [chemical binding]; other site 170187000916 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 170187000917 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 170187000918 Walker A motif; other site 170187000919 ATP binding site [chemical binding]; other site 170187000920 Walker B motif; other site 170187000921 arginine finger; other site 170187000922 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 170187000923 UvrB/uvrC motif; Region: UVR; pfam02151 170187000924 MoxR-like ATPases [General function prediction only]; Region: COG0714 170187000925 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 170187000926 Walker A motif; other site 170187000927 ATP binding site [chemical binding]; other site 170187000928 Walker B motif; other site 170187000929 arginine finger; other site 170187000930 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 170187000931 LuxS protein involved in autoinducer AI2 synthesis [Signal transduction mechanisms]; Region: LuxS; COG1854 170187000932 hypothetical protein; Provisional; Region: PRK13663 170187000933 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 170187000934 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 170187000935 Ca binding site [ion binding]; other site 170187000936 active site 170187000937 catalytic site [active] 170187000938 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 170187000939 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 170187000940 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 170187000941 DDE superfamily endonuclease; Region: DDE_3; pfam13358 170187000942 Transposase; Region: HTH_Tnp_IS630; pfam01710 170187000943 Winged helix-turn helix; Region: HTH_29; pfam13551 170187000944 DNA polymerase processivity factor; Region: DNA_PPF; pfam02916 170187000945 Transcriptional regulator [Transcription]; Region: LytR; COG1316 170187000946 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 170187000947 PHP domain; Region: PHP; pfam02811 170187000948 polysaccharide export protein, MPA1 family, Gram-positive type; Region: polys_exp_MPA1; TIGR01006 170187000949 Chain length determinant protein; Region: Wzz; pfam02706 170187000950 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 170187000951 AAA domain; Region: AAA_31; pfam13614 170187000952 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 170187000953 putative glycosyl transferase; Provisional; Region: PRK10307 170187000954 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 170187000955 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 170187000956 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 170187000957 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 170187000958 putative ADP-binding pocket [chemical binding]; other site 170187000959 O-antigen polysaccharide polymerase Wzy; Region: O-ag_pol_Wzy; pfam14296 170187000960 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 170187000961 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 170187000962 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 170187000963 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 170187000964 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 170187000965 active site 170187000966 homodimer interface [polypeptide binding]; other site 170187000967 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 170187000968 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 170187000969 NAD(P) binding site [chemical binding]; other site 170187000970 homodimer interface [polypeptide binding]; other site 170187000971 substrate binding site [chemical binding]; other site 170187000972 active site 170187000973 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 170187000974 capsular polysaccharide assembling protein (CAPF) like, extended (e) SDRs; Region: CAPF_like_SDR_e; cd05261 170187000975 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 170187000976 putative NAD(P) binding site [chemical binding]; other site 170187000977 active site 170187000978 putative substrate binding site [chemical binding]; other site 170187000979 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 170187000980 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 170187000981 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 170187000982 active site 170187000983 homodimer interface [polypeptide binding]; other site 170187000984 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 170187000985 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 170187000986 peptide binding site [polypeptide binding]; other site 170187000987 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 170187000988 Endo-alpha-N-acetylgalactosaminidase; Region: Glyco_hydro_101; pfam12905 170187000989 Alpha amylase catalytic domain family; Region: AmyAc_family; cd00551 170187000990 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 170187000991 active site 170187000992 catalytic site [active] 170187000993 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 170187000994 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 170187000995 Transglycosylase; Region: Transgly; pfam00912 170187000996 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 170187000997 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 170187000998 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 170187000999 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4474 170187001000 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 170187001001 cell division protein GpsB; Provisional; Region: PRK14127; cl19517 170187001002 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 170187001003 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 170187001004 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 170187001005 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 170187001006 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 170187001007 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 170187001008 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 170187001009 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 170187001010 active site 170187001011 phosphorylation site [posttranslational modification] 170187001012 intermolecular recognition site; other site 170187001013 dimerization interface [polypeptide binding]; other site 170187001014 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 170187001015 DNA binding site [nucleotide binding] 170187001016 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 170187001017 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187001018 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 170187001019 Major Facilitator Superfamily; Region: MFS_1; pfam07690 170187001020 Lantibiotic modifying enzyme [Defense mechanisms]; Region: LcnDR2; COG4403 170187001021 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 170187001022 active site 170187001023 zinc binding site [ion binding]; other site 170187001024 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 170187001025 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 170187001026 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 170187001027 diphosphomevalonate decarboxylase; Region: PLN02407 170187001028 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 170187001029 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 170187001030 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 170187001031 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 170187001032 homotetramer interface [polypeptide binding]; other site 170187001033 FMN binding site [chemical binding]; other site 170187001034 homodimer contacts [polypeptide binding]; other site 170187001035 putative active site [active] 170187001036 putative substrate binding site [chemical binding]; other site 170187001037 Predicted membrane protein [Function unknown]; Region: COG4758 170187001038 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 170187001039 Histidine kinase; Region: HisKA_3; pfam07730 170187001040 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 170187001041 ATP binding site [chemical binding]; other site 170187001042 Mg2+ binding site [ion binding]; other site 170187001043 G-X-G motif; other site 170187001044 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 170187001045 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 170187001046 active site 170187001047 phosphorylation site [posttranslational modification] 170187001048 intermolecular recognition site; other site 170187001049 dimerization interface [polypeptide binding]; other site 170187001050 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 170187001051 DNA binding residues [nucleotide binding] 170187001052 dimerization interface [polypeptide binding]; other site 170187001053 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 170187001054 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 170187001055 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187001056 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187001057 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 170187001058 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 170187001059 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 170187001060 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 170187001061 active site 170187001062 P-loop; other site 170187001063 phosphorylation site [posttranslational modification] 170187001064 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 170187001065 active site 170187001066 P-loop; other site 170187001067 phosphorylation site [posttranslational modification] 170187001068 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 170187001069 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 170187001070 active site 170187001071 P-loop; other site 170187001072 phosphorylation site [posttranslational modification] 170187001073 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 170187001074 active site 170187001075 phosphorylation site [posttranslational modification] 170187001076 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 170187001077 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 170187001078 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 170187001079 trigger factor; Provisional; Region: tig; PRK01490 170187001080 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 170187001081 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 170187001082 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 170187001083 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 170187001084 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 170187001085 DNA binding site [nucleotide binding] 170187001086 Helix-hairpin-helix containing domain; Region: HHH_4; pfam14490 170187001087 AAA domain; Region: AAA_30; pfam13604 170187001088 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 170187001089 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 170187001090 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 170187001091 Catalytic site [active] 170187001092 ribonuclease HIII; Provisional; Region: PRK00996 170187001093 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 170187001094 Bacterial type 2 ribonuclease, HII and HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 170187001095 RNA/DNA hybrid binding site [nucleotide binding]; other site 170187001096 active site 170187001097 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 170187001098 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 170187001099 MutS domain III; Region: MutS_III; pfam05192 170187001100 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187001101 Walker A/P-loop; other site 170187001102 ATP binding site [chemical binding]; other site 170187001103 Q-loop/lid; other site 170187001104 ABC transporter signature motif; other site 170187001105 Walker B; other site 170187001106 D-loop; other site 170187001107 H-loop/switch region; other site 170187001108 Smr domain; Region: Smr; pfam01713 170187001109 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 170187001110 Uncharacterized conserved protein [Function unknown]; Region: COG2128 170187001111 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 170187001112 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 170187001113 gating phenylalanine in ion channel; other site 170187001114 seryl-tRNA synthetase; Provisional; Region: PRK05431 170187001115 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 170187001116 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 170187001117 dimer interface [polypeptide binding]; other site 170187001118 active site 170187001119 motif 1; other site 170187001120 motif 2; other site 170187001121 motif 3; other site 170187001122 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4687 170187001123 aspartate kinase; Reviewed; Region: PRK09034 170187001124 AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in...; Region: AAK_AKiii-YclM-BS; cd04245 170187001125 putative catalytic residues [active] 170187001126 putative nucleotide binding site [chemical binding]; other site 170187001127 putative aspartate binding site [chemical binding]; other site 170187001128 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 170187001129 allosteric regulatory residue; other site 170187001130 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 170187001131 enoyl-CoA hydratase; Provisional; Region: PRK07260 170187001132 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 170187001133 substrate binding site [chemical binding]; other site 170187001134 oxyanion hole (OAH) forming residues; other site 170187001135 trimer interface [polypeptide binding]; other site 170187001136 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 170187001137 Transcriptional regulators [Transcription]; Region: MarR; COG1846 170187001138 putative Zn2+ binding site [ion binding]; other site 170187001139 putative DNA binding site [nucleotide binding]; other site 170187001140 dimerization interface [polypeptide binding]; other site 170187001141 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 170187001142 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 170187001143 dimer interface [polypeptide binding]; other site 170187001144 active site 170187001145 CoA binding pocket [chemical binding]; other site 170187001146 acyl carrier protein; Provisional; Region: acpP; PRK00982 170187001147 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 170187001148 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 170187001149 FMN binding site [chemical binding]; other site 170187001150 substrate binding site [chemical binding]; other site 170187001151 putative catalytic residue [active] 170187001152 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 170187001153 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 170187001154 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 170187001155 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 170187001156 NAD(P) binding site [chemical binding]; other site 170187001157 homotetramer interface [polypeptide binding]; other site 170187001158 homodimer interface [polypeptide binding]; other site 170187001159 active site 170187001160 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 170187001161 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 170187001162 dimer interface [polypeptide binding]; other site 170187001163 active site 170187001164 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 170187001165 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 170187001166 carboxyltransferase (CT) interaction site; other site 170187001167 biotinylation site [posttranslational modification]; other site 170187001168 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 170187001169 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 170187001170 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 170187001171 ATP-grasp domain; Region: ATP-grasp_4; cl17255 170187001172 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 170187001173 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 170187001174 acetyl-CoA carboxylase subunit alpha; Provisional; Region: PRK12319 170187001175 CAAX protease self-immunity; Region: Abi; pfam02517 170187001176 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 170187001177 putative RNA binding site [nucleotide binding]; other site 170187001178 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 170187001179 elongation factor P; Validated; Region: PRK00529 170187001180 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 170187001181 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 170187001182 RNA binding site [nucleotide binding]; other site 170187001183 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 170187001184 RNA binding site [nucleotide binding]; other site 170187001185 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 170187001186 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 170187001187 GatB domain; Region: GatB_Yqey; pfam02637 170187001188 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 170187001189 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 170187001190 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 170187001191 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 170187001192 G1 box; other site 170187001193 putative GEF interaction site [polypeptide binding]; other site 170187001194 GTP/Mg2+ binding site [chemical binding]; other site 170187001195 Switch I region; other site 170187001196 G2 box; other site 170187001197 G3 box; other site 170187001198 Switch II region; other site 170187001199 G4 box; other site 170187001200 G5 box; other site 170187001201 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 170187001202 Elongation Factor G, domain II; Region: EFG_II; pfam14492 170187001203 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 170187001204 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 170187001205 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 170187001206 DAK2 domain; Region: Dak2; pfam02734 170187001207 Dihydroxyacetone kinase family; Region: Dak1_2; pfam13684 170187001208 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07282 170187001209 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 170187001210 PYR/PP interface [polypeptide binding]; other site 170187001211 dimer interface [polypeptide binding]; other site 170187001212 TPP binding site [chemical binding]; other site 170187001213 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 170187001214 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 170187001215 TPP-binding site [chemical binding]; other site 170187001216 dimer interface [polypeptide binding]; other site 170187001217 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 170187001218 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 170187001219 putative valine binding site [chemical binding]; other site 170187001220 dimer interface [polypeptide binding]; other site 170187001221 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 170187001222 ketol-acid reductoisomerase; Provisional; Region: PRK05479 170187001223 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 170187001224 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 170187001225 threonine dehydratase; Validated; Region: PRK08639 170187001226 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 170187001227 tetramer interface [polypeptide binding]; other site 170187001228 pyridoxal 5'-phosphate binding site [chemical binding]; other site 170187001229 catalytic residue [active] 170187001230 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 170187001231 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 170187001232 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187001233 Walker A/P-loop; other site 170187001234 ATP binding site [chemical binding]; other site 170187001235 Q-loop/lid; other site 170187001236 ABC transporter signature motif; other site 170187001237 Walker B; other site 170187001238 D-loop; other site 170187001239 H-loop/switch region; other site 170187001240 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 170187001241 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 170187001242 substrate binding pocket [chemical binding]; other site 170187001243 membrane-bound complex binding site; other site 170187001244 hinge residues; other site 170187001245 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 170187001246 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187001247 dimer interface [polypeptide binding]; other site 170187001248 conserved gate region; other site 170187001249 putative PBP binding loops; other site 170187001250 ABC-ATPase subunit interface; other site 170187001251 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 170187001252 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 170187001253 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 170187001254 active site 170187001255 DNA polymerase IV; Validated; Region: PRK02406 170187001256 DNA binding site [nucleotide binding] 170187001257 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 170187001258 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 170187001259 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 170187001260 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 170187001261 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 170187001262 Transposase; Region: DDE_Tnp_ISL3; pfam01610 170187001263 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 170187001264 Mga helix-turn-helix domain; Region: Mga; pfam05043 170187001265 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 170187001266 Cna protein B-type domain; Region: Cna_B; pfam05738 170187001267 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 170187001268 metal ion-dependent adhesion site (MIDAS); other site 170187001269 Cna protein B-type domain; Region: Cna_B; pfam05738 170187001270 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 170187001271 Cna protein B-type domain; Region: Cna_B; pfam05738 170187001272 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 170187001273 Cna protein B-type domain; Region: Cna_B; pfam05738 170187001274 Cna protein B-type domain; Region: Cna_B; pfam05738 170187001275 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 170187001276 active site 170187001277 catalytic site [active] 170187001278 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 170187001279 active site 170187001280 catalytic site [active] 170187001281 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 170187001282 active site 170187001283 catalytic site [active] 170187001284 Transcriptional regulators [Transcription]; Region: MarR; COG1846 170187001285 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 170187001286 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 170187001287 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 170187001288 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 170187001289 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 170187001290 methionine cluster; other site 170187001291 active site 170187001292 phosphorylation site [posttranslational modification] 170187001293 metal binding site [ion binding]; metal-binding site 170187001294 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 170187001295 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 170187001296 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 170187001297 PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two...; Region: PTS_IIB_lactose; cd05565 170187001298 active site 170187001299 P-loop; other site 170187001300 phosphorylation site [posttranslational modification] 170187001301 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 170187001302 Cation transport protein; Region: TrkH; cl17365 170187001303 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 170187001304 TrkA-N domain; Region: TrkA_N; pfam02254 170187001305 TrkA-C domain; Region: TrkA_C; pfam02080 170187001306 TrkA-N domain; Region: TrkA_N; pfam02254 170187001307 TrkA-C domain; Region: TrkA_C; pfam02080 170187001308 Uncharacterized conserved protein [Function unknown]; Region: COG1912 170187001309 hypothetical protein; Provisional; Region: PRK13661 170187001310 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 170187001311 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 170187001312 Walker A/P-loop; other site 170187001313 ATP binding site [chemical binding]; other site 170187001314 Q-loop/lid; other site 170187001315 ABC transporter signature motif; other site 170187001316 Walker B; other site 170187001317 D-loop; other site 170187001318 H-loop/switch region; other site 170187001319 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 170187001320 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 170187001321 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 170187001322 Walker A/P-loop; other site 170187001323 ATP binding site [chemical binding]; other site 170187001324 Q-loop/lid; other site 170187001325 ABC transporter signature motif; other site 170187001326 Walker B; other site 170187001327 D-loop; other site 170187001328 H-loop/switch region; other site 170187001329 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 170187001330 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 170187001331 Predicted membrane protein [Function unknown]; Region: COG3601 170187001332 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 170187001333 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 170187001334 active site 170187001335 ParB-like nuclease domain; Region: ParBc; cl02129 170187001336 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 170187001337 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 170187001338 DNA-directed RNA polymerase, delta subunit [Transcription]; Region: RpoE; COG3343 170187001339 CTP synthetase; Validated; Region: pyrG; PRK05380 170187001340 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 170187001341 Catalytic site [active] 170187001342 active site 170187001343 UTP binding site [chemical binding]; other site 170187001344 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 170187001345 active site 170187001346 putative oxyanion hole; other site 170187001347 catalytic triad [active] 170187001348 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 170187001349 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 170187001350 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 170187001351 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 170187001352 PhoU domain; Region: PhoU; pfam01895 170187001353 PhoU domain; Region: PhoU; pfam01895 170187001354 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 170187001355 Endo-beta-N-acetylglucosaminidase D [Carbohydrate transport and metabolism]; Region: COG4724 170187001356 active site 170187001357 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 170187001358 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 170187001359 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 170187001360 G5 domain; Region: G5; pfam07501 170187001361 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 170187001362 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 170187001363 substrate binding site [chemical binding]; other site 170187001364 hinge regions; other site 170187001365 ADP binding site [chemical binding]; other site 170187001366 catalytic site [active] 170187001367 Predicted membrane protein [Function unknown]; Region: COG4129 170187001368 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 170187001369 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 170187001370 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 170187001371 DNA binding residues [nucleotide binding] 170187001372 putative dimer interface [polypeptide binding]; other site 170187001373 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 170187001374 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 170187001375 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 170187001376 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 170187001377 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 170187001378 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 170187001379 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 170187001380 VanD integrase, IntD, and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases including those similar to IntD, a putative integrase-like protein, a component...; Region: INT_VanD; cd01196 170187001381 Int/Topo IB signature motif; other site 170187001382 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 170187001383 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 170187001384 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 170187001385 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 170187001386 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 170187001387 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 170187001388 HsdM N-terminal domain; Region: HsdM_N; pfam12161 170187001389 Methyltransferase domain; Region: Methyltransf_26; pfam13659 170187001390 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 170187001391 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 170187001392 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 170187001393 ATP binding site [chemical binding]; other site 170187001394 putative Mg++ binding site [ion binding]; other site 170187001395 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 170187001396 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 170187001397 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 170187001398 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 170187001399 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 170187001400 HrcA protein C terminal domain; Region: HrcA; pfam01628 170187001401 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 170187001402 dimer interface [polypeptide binding]; other site 170187001403 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 170187001404 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 170187001405 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 170187001406 nucleotide binding site [chemical binding]; other site 170187001407 NEF interaction site [polypeptide binding]; other site 170187001408 SBD interface [polypeptide binding]; other site 170187001409 chaperone protein DnaJ; Provisional; Region: PRK14276 170187001410 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 170187001411 HSP70 interaction site [polypeptide binding]; other site 170187001412 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 170187001413 substrate binding site [polypeptide binding]; other site 170187001414 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 170187001415 Zn binding sites [ion binding]; other site 170187001416 dimer interface [polypeptide binding]; other site 170187001417 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 170187001418 HIT family signature motif; other site 170187001419 catalytic residue [active] 170187001420 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 170187001421 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 170187001422 Walker A/P-loop; other site 170187001423 ATP binding site [chemical binding]; other site 170187001424 Q-loop/lid; other site 170187001425 ABC transporter signature motif; other site 170187001426 Walker B; other site 170187001427 D-loop; other site 170187001428 H-loop/switch region; other site 170187001429 Predicted ABC-type exoprotein transport system, permease component [Intracellular trafficking and secretion]; Region: EcsB; COG4473 170187001430 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 170187001431 LytTr DNA-binding domain; Region: LytTR; pfam04397 170187001432 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 170187001433 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 170187001434 active site 170187001435 phosphorylation site [posttranslational modification] 170187001436 intermolecular recognition site; other site 170187001437 dimerization interface [polypeptide binding]; other site 170187001438 LytTr DNA-binding domain; Region: LytTR; pfam04397 170187001439 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 170187001440 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 170187001441 ATP binding site [chemical binding]; other site 170187001442 Mg2+ binding site [ion binding]; other site 170187001443 G-X-G motif; other site 170187001444 COMC family; Region: ComC; pfam03047 170187001445 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 170187001446 HlyD family secretion protein; Region: HlyD_3; pfam13437 170187001447 COMC family; Region: ComC; pfam03047 170187001448 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 170187001449 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 170187001450 Helix-turn-helix of DDE superfamily endonuclease; Region: HTH_Tnp_4; pfam13613 170187001451 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 170187001452 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 170187001453 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 170187001454 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 170187001455 Predicted metal-dependent membrane protease [General function prediction only]; Region: COG1266 170187001456 CAAX protease self-immunity; Region: Abi; pfam02517 170187001457 Thiamine kinase and related kinases [Coenzyme transport and metabolism]; Region: ycfN; COG0510 170187001458 Phosphotransferase enzyme family; Region: APH; pfam01636 170187001459 substrate binding site [chemical binding]; other site 170187001460 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 170187001461 S-adenosylmethionine binding site [chemical binding]; other site 170187001462 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 170187001463 putative oligomer interface [polypeptide binding]; other site 170187001464 putative RNA binding site [nucleotide binding]; other site 170187001465 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 170187001466 NusA N-terminal domain; Region: NusA_N; pfam08529 170187001467 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 170187001468 RNA binding site [nucleotide binding]; other site 170187001469 homodimer interface [polypeptide binding]; other site 170187001470 NusA-like KH domain; Region: KH_5; pfam13184 170187001471 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 170187001472 G-X-X-G motif; other site 170187001473 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 170187001474 putative RNA binding cleft [nucleotide binding]; other site 170187001475 hypothetical protein; Provisional; Region: PRK07283 170187001476 translation initiation factor IF-2; Validated; Region: infB; PRK05306 170187001477 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 170187001478 Histone H1-like nucleoprotein HC2; Region: HC2; cl19298 170187001479 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 170187001480 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 170187001481 G1 box; other site 170187001482 putative GEF interaction site [polypeptide binding]; other site 170187001483 GTP/Mg2+ binding site [chemical binding]; other site 170187001484 Switch I region; other site 170187001485 G2 box; other site 170187001486 G3 box; other site 170187001487 Switch II region; other site 170187001488 G4 box; other site 170187001489 G5 box; other site 170187001490 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 170187001491 Translation-initiation factor 2; Region: IF-2; pfam11987 170187001492 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 170187001493 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 170187001494 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 170187001495 Uncharacterized conserved protein [Function unknown]; Region: COG2461 170187001496 Family of unknown function (DUF438); Region: DUF438; pfam04282 170187001497 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 170187001498 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 170187001499 putative active site [active] 170187001500 heme pocket [chemical binding]; other site 170187001501 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 170187001502 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 170187001503 hypothetical protein; Provisional; Region: PRK07758 170187001504 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 170187001505 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 170187001506 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 170187001507 AAA domain; Region: AAA_33; pfam13671 170187001508 AAA domain; Region: AAA_18; pfam13238 170187001509 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 170187001510 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 170187001511 active site 170187001512 HIGH motif; other site 170187001513 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 170187001514 KMSKS motif; other site 170187001515 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 170187001516 tRNA binding surface [nucleotide binding]; other site 170187001517 anticodon binding site; other site 170187001518 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 170187001519 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 170187001520 cofactor binding site; other site 170187001521 ABC transporter signature motif; other site 170187001522 AAA domain; Region: AAA_21; pfam13304 170187001523 Walker B; other site 170187001524 D-loop; other site 170187001525 H-loop/switch region; other site 170187001526 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 170187001527 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4951 170187001528 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 170187001529 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 170187001530 ATP binding site [chemical binding]; other site 170187001531 putative Mg++ binding site [ion binding]; other site 170187001532 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 170187001533 nucleotide binding region [chemical binding]; other site 170187001534 ATP-binding site [chemical binding]; other site 170187001535 C-terminal putative phospholipase D-like domain of uncharacterized prokaryotic HKD family nucleases fused to DEAD/DEAH box helicases; Region: PLDc_C_DEXD_like; cd09126 170187001536 transcriptional antiterminator BglG; Provisional; Region: PRK09772 170187001537 CAT RNA binding domain; Region: CAT_RBD; smart01061 170187001538 PRD domain; Region: PRD; pfam00874 170187001539 PRD domain; Region: PRD; pfam00874 170187001540 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 170187001541 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 170187001542 active site turn [active] 170187001543 phosphorylation site [posttranslational modification] 170187001544 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 170187001545 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 170187001546 HPr interaction site; other site 170187001547 glycerol kinase (GK) interaction site [polypeptide binding]; other site 170187001548 active site 170187001549 phosphorylation site [posttranslational modification] 170187001550 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 170187001551 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 170187001552 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 170187001553 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 170187001554 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 170187001555 dimer interface [polypeptide binding]; other site 170187001556 motif 1; other site 170187001557 active site 170187001558 motif 2; other site 170187001559 motif 3; other site 170187001560 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 170187001561 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 170187001562 Coenzyme A binding pocket [chemical binding]; other site 170187001563 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 170187001564 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 170187001565 putative tRNA-binding site [nucleotide binding]; other site 170187001566 B3/4 domain; Region: B3_4; pfam03483 170187001567 tRNA synthetase B5 domain; Region: B5; smart00874 170187001568 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 170187001569 dimer interface [polypeptide binding]; other site 170187001570 motif 1; other site 170187001571 motif 3; other site 170187001572 motif 2; other site 170187001573 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 170187001574 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; pfam03372 170187001575 putative catalytic site [active] 170187001576 putative metal binding site [ion binding]; other site 170187001577 putative phosphate binding site [ion binding]; other site 170187001578 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 170187001579 non-specific DNA binding site [nucleotide binding]; other site 170187001580 salt bridge; other site 170187001581 sequence-specific DNA binding site [nucleotide binding]; other site 170187001582 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 170187001583 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 170187001584 THF binding site; other site 170187001585 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 170187001586 substrate binding site [chemical binding]; other site 170187001587 THF binding site; other site 170187001588 zinc-binding site [ion binding]; other site 170187001589 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 170187001590 FAD binding site [chemical binding]; other site 170187001591 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 170187001592 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 170187001593 RNase E interface [polypeptide binding]; other site 170187001594 trimer interface [polypeptide binding]; other site 170187001595 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 170187001596 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 170187001597 RNase E interface [polypeptide binding]; other site 170187001598 trimer interface [polypeptide binding]; other site 170187001599 active site 170187001600 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 170187001601 putative nucleic acid binding region [nucleotide binding]; other site 170187001602 G-X-X-G motif; other site 170187001603 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 170187001604 RNA binding site [nucleotide binding]; other site 170187001605 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 170187001606 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 170187001607 trimer interface [polypeptide binding]; other site 170187001608 active site 170187001609 substrate binding site [chemical binding]; other site 170187001610 CoA binding site [chemical binding]; other site 170187001611 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 170187001612 Coenzyme A binding pocket [chemical binding]; other site 170187001613 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 170187001614 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 170187001615 Coenzyme A binding pocket [chemical binding]; other site 170187001616 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 170187001617 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 170187001618 active site 170187001619 HIGH motif; other site 170187001620 KMSKS motif; other site 170187001621 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 170187001622 tRNA binding surface [nucleotide binding]; other site 170187001623 anticodon binding site; other site 170187001624 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 170187001625 active site 170187001626 metal binding site [ion binding]; metal-binding site 170187001627 dimerization interface [polypeptide binding]; other site 170187001628 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 170187001629 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 170187001630 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 170187001631 FtsX-like permease family; Region: FtsX; pfam02687 170187001632 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 170187001633 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 170187001634 Walker A/P-loop; other site 170187001635 ATP binding site [chemical binding]; other site 170187001636 Q-loop/lid; other site 170187001637 ABC transporter signature motif; other site 170187001638 Walker B; other site 170187001639 D-loop; other site 170187001640 H-loop/switch region; other site 170187001641 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 170187001642 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 170187001643 FtsX-like permease family; Region: FtsX; pfam02687 170187001644 similar to pep27 protein; similar to GP:5712670; identified by sequence similarity 170187001645 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 170187001646 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 170187001647 active site 170187001648 phosphorylation site [posttranslational modification] 170187001649 intermolecular recognition site; other site 170187001650 dimerization interface [polypeptide binding]; other site 170187001651 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 170187001652 DNA binding site [nucleotide binding] 170187001653 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 170187001654 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 170187001655 dimerization interface [polypeptide binding]; other site 170187001656 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 170187001657 dimer interface [polypeptide binding]; other site 170187001658 phosphorylation site [posttranslational modification] 170187001659 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 170187001660 ATP binding site [chemical binding]; other site 170187001661 Mg2+ binding site [ion binding]; other site 170187001662 G-X-G motif; other site 170187001663 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 170187001664 intersubunit interface [polypeptide binding]; other site 170187001665 active site 170187001666 zinc binding site [ion binding]; other site 170187001667 Na+ binding site [ion binding]; other site 170187001668 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 170187001669 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 170187001670 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 170187001671 FAD binding pocket [chemical binding]; other site 170187001672 FAD binding motif [chemical binding]; other site 170187001673 phosphate binding motif [ion binding]; other site 170187001674 beta-alpha-beta structure motif; other site 170187001675 NAD binding pocket [chemical binding]; other site 170187001676 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 170187001677 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187001678 dimer interface [polypeptide binding]; other site 170187001679 conserved gate region; other site 170187001680 putative PBP binding loops; other site 170187001681 ABC-ATPase subunit interface; other site 170187001682 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 170187001683 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187001684 dimer interface [polypeptide binding]; other site 170187001685 conserved gate region; other site 170187001686 putative PBP binding loops; other site 170187001687 ABC-ATPase subunit interface; other site 170187001688 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 170187001689 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 170187001690 substrate binding pocket [chemical binding]; other site 170187001691 membrane-bound complex binding site; other site 170187001692 hinge residues; other site 170187001693 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 170187001694 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 170187001695 Walker A/P-loop; other site 170187001696 ATP binding site [chemical binding]; other site 170187001697 Q-loop/lid; other site 170187001698 ABC transporter signature motif; other site 170187001699 Walker B; other site 170187001700 D-loop; other site 170187001701 H-loop/switch region; other site 170187001702 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 170187001703 DHH family; Region: DHH; pfam01368 170187001704 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4199 170187001705 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 170187001706 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 170187001707 RNA-metabolizing metallo-beta-lactamase; Region: RMMBL; pfam07521 170187001708 Predicted esterase [General function prediction only]; Region: COG0627 170187001709 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819; cl19187 170187001710 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 170187001711 FemAB family; Region: FemAB; pfam02388 170187001712 Zinc-dependent metalloprotease, MMP_like subfamily. This group contains matrix metalloproteinases (MMPs), serralysins, and the astacin_like family of proteases; Region: ZnMc_MMP_like; cd04268 170187001713 active site 170187001714 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 170187001715 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 170187001716 GIY-YIG motif/motif A; other site 170187001717 active site 170187001718 catalytic site [active] 170187001719 putative DNA binding site [nucleotide binding]; other site 170187001720 metal binding site [ion binding]; metal-binding site 170187001721 UvrB/uvrC motif; Region: UVR; pfam02151 170187001722 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 170187001723 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 170187001724 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 170187001725 active site 170187001726 metal binding site [ion binding]; metal-binding site 170187001727 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 170187001728 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 170187001729 substrate binding pocket [chemical binding]; other site 170187001730 membrane-bound complex binding site; other site 170187001731 hinge residues; other site 170187001732 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 170187001733 dimer interface [polypeptide binding]; other site 170187001734 FMN binding site [chemical binding]; other site 170187001735 dipeptidase PepV; Reviewed; Region: PRK07318 170187001736 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 170187001737 active site 170187001738 metal binding site [ion binding]; metal-binding site 170187001739 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 170187001740 putative uracil binding site [chemical binding]; other site 170187001741 putative active site [active] 170187001742 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 170187001743 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 170187001744 putative oligomer interface [polypeptide binding]; other site 170187001745 putative active site [active] 170187001746 metal binding site [ion binding]; metal-binding site 170187001747 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 170187001748 nucleotide binding site/active site [active] 170187001749 HIT family signature motif; other site 170187001750 catalytic residue [active] 170187001751 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 170187001752 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 170187001753 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 170187001754 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 170187001755 23S rRNA interface [nucleotide binding]; other site 170187001756 L7/L12 interface [polypeptide binding]; other site 170187001757 putative thiostrepton binding site; other site 170187001758 L25 interface [polypeptide binding]; other site 170187001759 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 170187001760 mRNA/rRNA interface [nucleotide binding]; other site 170187001761 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 170187001762 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 170187001763 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187001764 Walker A/P-loop; other site 170187001765 ATP binding site [chemical binding]; other site 170187001766 Q-loop/lid; other site 170187001767 ABC transporter signature motif; other site 170187001768 Walker B; other site 170187001769 D-loop; other site 170187001770 H-loop/switch region; other site 170187001771 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 170187001772 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG3694 170187001773 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 170187001774 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 170187001775 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 170187001776 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 170187001777 catalytic triad [active] 170187001778 putative active site [active] 170187001779 PA_2: Protease-associated (PA) domain subgroup 2. A subgroup of PA-domain containing proteins. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is...; Region: PA_2; cd04819 170187001780 PA/protease or protease-like domain interface [polypeptide binding]; other site 170187001781 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 170187001782 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 170187001783 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 170187001784 active site 170187001785 phosphorylation site [posttranslational modification] 170187001786 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 170187001787 active site 170187001788 P-loop; other site 170187001789 phosphorylation site [posttranslational modification] 170187001790 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 170187001791 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 170187001792 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 170187001793 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 170187001794 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 170187001795 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 170187001796 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 170187001797 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 170187001798 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 170187001799 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 170187001800 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 170187001801 G5 domain; Region: G5; pfam07501 170187001802 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 170187001803 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 170187001804 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 170187001805 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 170187001806 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 170187001807 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 170187001808 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 170187001809 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 170187001810 catalytic residues [active] 170187001811 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 170187001812 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 170187001813 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 170187001814 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 170187001815 active site 170187001816 phosphorylation site [posttranslational modification] 170187001817 intermolecular recognition site; other site 170187001818 dimerization interface [polypeptide binding]; other site 170187001819 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 170187001820 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 170187001821 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 170187001822 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 170187001823 Cache domain; Region: Cache_1; pfam02743 170187001824 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 170187001825 dimerization interface [polypeptide binding]; other site 170187001826 Histidine kinase; Region: His_kinase; pfam06580 170187001827 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 170187001828 ATP binding site [chemical binding]; other site 170187001829 Mg2+ binding site [ion binding]; other site 170187001830 G-X-G motif; other site 170187001831 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4475 170187001832 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 170187001833 Brain acid soluble protein 1 (BASP1 protein); Region: BASP1; pfam05466 170187001834 Proacrosin binding protein sp32; Region: PBP_sp32; pfam07222 170187001835 Mitochondria Localisation Sequence; Region: AIF-MLS; pfam14962 170187001836 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 170187001837 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 170187001838 aminodeoxychorismate synthase; Provisional; Region: PRK07508 170187001839 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 170187001840 substrate-cofactor binding pocket; other site 170187001841 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 170187001842 pyridoxal 5'-phosphate binding site [chemical binding]; other site 170187001843 catalytic residue [active] 170187001844 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 170187001845 Putative lysophospholipase; Region: Hydrolase_4; cl19140 170187001846 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 170187001847 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 170187001848 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 170187001849 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 170187001850 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 170187001851 nucleotide binding site [chemical binding]; other site 170187001852 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 170187001853 dimerization interface [polypeptide binding]; other site 170187001854 active site 170187001855 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 170187001856 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 170187001857 GTPases [General function prediction only]; Region: HflX; COG2262 170187001858 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 170187001859 HflX GTPase family; Region: HflX; cd01878 170187001860 G1 box; other site 170187001861 GTP/Mg2+ binding site [chemical binding]; other site 170187001862 Switch I region; other site 170187001863 G2 box; other site 170187001864 G3 box; other site 170187001865 Switch II region; other site 170187001866 G4 box; other site 170187001867 G5 box; other site 170187001868 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 170187001869 ribonuclease Z; Region: RNase_Z; TIGR02651 170187001870 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 170187001871 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 170187001872 NAD(P) binding site [chemical binding]; other site 170187001873 active site 170187001874 Transcriptional regulator [Transcription]; Region: LysR; COG0583 170187001875 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 170187001876 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 170187001877 dimerization interface [polypeptide binding]; other site 170187001878 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 170187001879 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 170187001880 active site residue [active] 170187001881 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 170187001882 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 170187001883 RNA binding surface [nucleotide binding]; other site 170187001884 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 170187001885 active site 170187001886 uracil binding [chemical binding]; other site 170187001887 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 170187001888 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 170187001889 G1 box; other site 170187001890 putative GEF interaction site [polypeptide binding]; other site 170187001891 GTP/Mg2+ binding site [chemical binding]; other site 170187001892 Switch I region; other site 170187001893 G2 box; other site 170187001894 G3 box; other site 170187001895 Switch II region; other site 170187001896 G4 box; other site 170187001897 G5 box; other site 170187001898 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 170187001899 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 170187001900 Protein of unknown function (DUF3165); Region: DUF3165; pfam11364 170187001901 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 170187001902 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 170187001903 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187001904 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 170187001905 Walker A/P-loop; other site 170187001906 ATP binding site [chemical binding]; other site 170187001907 Q-loop/lid; other site 170187001908 ABC transporter signature motif; other site 170187001909 Walker B; other site 170187001910 D-loop; other site 170187001911 H-loop/switch region; other site 170187001912 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 170187001913 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; cl19125 170187001914 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 170187001915 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 170187001916 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 170187001917 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 170187001918 active site 170187001919 homodimer interface [polypeptide binding]; other site 170187001920 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 170187001921 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 170187001922 Cell division protein FtsQ; Region: FtsQ; pfam03799 170187001923 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 170187001924 ThiF family; Region: ThiF; pfam00899 170187001925 ATP binding site [chemical binding]; other site 170187001926 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 170187001927 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 170187001928 active site 170187001929 dimer interface [polypeptide binding]; other site 170187001930 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 170187001931 active site 170187001932 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 170187001933 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187001934 Walker A/P-loop; other site 170187001935 ATP binding site [chemical binding]; other site 170187001936 Q-loop/lid; other site 170187001937 ABC transporter signature motif; other site 170187001938 Walker B; other site 170187001939 D-loop; other site 170187001940 H-loop/switch region; other site 170187001941 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 170187001942 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 170187001943 Walker A/P-loop; other site 170187001944 ATP binding site [chemical binding]; other site 170187001945 Q-loop/lid; other site 170187001946 ABC transporter signature motif; other site 170187001947 Walker B; other site 170187001948 D-loop; other site 170187001949 H-loop/switch region; other site 170187001950 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 170187001951 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187001952 dimer interface [polypeptide binding]; other site 170187001953 conserved gate region; other site 170187001954 putative PBP binding loops; other site 170187001955 ABC-ATPase subunit interface; other site 170187001956 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 170187001957 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187001958 dimer interface [polypeptide binding]; other site 170187001959 conserved gate region; other site 170187001960 putative PBP binding loops; other site 170187001961 ABC-ATPase subunit interface; other site 170187001962 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 170187001963 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 170187001964 dimer interface [polypeptide binding]; other site 170187001965 putative anticodon binding site; other site 170187001966 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 170187001967 motif 1; other site 170187001968 active site 170187001969 motif 2; other site 170187001970 motif 3; other site 170187001971 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 170187001972 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 170187001973 L-Lactate oxidase (LOX) FMN-binding domain. LOX is a member of the family of FMN-containing alpha-hydroxyacid oxidases and catalyzes the oxidation of l-lactate using molecular oxygen to generate pyruvate and H2O2. This family occurs in both prokaryotes...; Region: LOX_like_FMN; cd04737 170187001974 teramer interface [polypeptide binding]; other site 170187001975 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 170187001976 active site 170187001977 FMN binding site [chemical binding]; other site 170187001978 catalytic residues [active] 170187001979 Putative transcription activator [Transcription]; Region: TenA; COG0819 170187001980 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 170187001981 substrate binding site [chemical binding]; other site 170187001982 multimerization interface [polypeptide binding]; other site 170187001983 ATP binding site [chemical binding]; other site 170187001984 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 170187001985 thiamine phosphate binding site [chemical binding]; other site 170187001986 active site 170187001987 pyrophosphate binding site [ion binding]; other site 170187001988 ABC-type cobalt transport system, predicted permease component [Inorganic ion transport and metabolism]; Region: COG4721 170187001989 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 170187001990 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 170187001991 Q-loop/lid; other site 170187001992 ABC transporter signature motif; other site 170187001993 Walker B; other site 170187001994 D-loop; other site 170187001995 H-loop/switch region; other site 170187001996 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 170187001997 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 170187001998 Walker A/P-loop; other site 170187001999 ATP binding site [chemical binding]; other site 170187002000 Q-loop/lid; other site 170187002001 ABC transporter signature motif; other site 170187002002 Walker B; other site 170187002003 D-loop; other site 170187002004 H-loop/switch region; other site 170187002005 Putative transcription activator [Transcription]; Region: TenA; COG0819 170187002006 Predicted membrane protein [Function unknown]; Region: COG4732 170187002007 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 170187002008 substrate binding site [chemical binding]; other site 170187002009 multimerization interface [polypeptide binding]; other site 170187002010 ATP binding site [chemical binding]; other site 170187002011 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 170187002012 thiamine phosphate binding site [chemical binding]; other site 170187002013 active site 170187002014 pyrophosphate binding site [ion binding]; other site 170187002015 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 170187002016 dimer interface [polypeptide binding]; other site 170187002017 substrate binding site [chemical binding]; other site 170187002018 ATP binding site [chemical binding]; other site 170187002019 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 170187002020 Transcriptional regulators [Transcription]; Region: MarR; COG1846 170187002021 Plastocyanin domain containing protein [General function prediction only]; Region: COG4633 170187002022 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 170187002023 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 170187002024 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 170187002025 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 170187002026 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 170187002027 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 170187002028 PYR/PP interface [polypeptide binding]; other site 170187002029 dimer interface [polypeptide binding]; other site 170187002030 tetramer interface [polypeptide binding]; other site 170187002031 TPP binding site [chemical binding]; other site 170187002032 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 170187002033 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 170187002034 TPP-binding site [chemical binding]; other site 170187002035 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 170187002036 active site 170187002037 Winged helix-turn helix; Region: HTH_33; pfam13592 170187002038 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 170187002039 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl19057 170187002040 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 170187002041 putative substrate binding site 2 [chemical binding]; other site 170187002042 putative substrate binding site 1 [chemical binding]; other site 170187002043 Na binding site 1 [ion binding]; other site 170187002044 Na2 binding site [ion binding]; other site 170187002045 Na+-dependent transporters of the SNF family [General function prediction only]; Region: COG0733 170187002046 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 170187002047 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 170187002048 DNA binding residues [nucleotide binding] 170187002049 dimer interface [polypeptide binding]; other site 170187002050 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 170187002051 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 170187002052 putative active site [active] 170187002053 nucleotide binding site [chemical binding]; other site 170187002054 nudix motif; other site 170187002055 putative metal binding site [ion binding]; other site 170187002056 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 170187002057 HI0933-like protein; Region: HI0933_like; pfam03486 170187002058 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 170187002059 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 170187002060 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 170187002061 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 170187002062 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 170187002063 catalytic motif [active] 170187002064 Zn binding site [ion binding]; other site 170187002065 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 170187002066 active site 170187002067 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 170187002068 oligomer interface [polypeptide binding]; other site 170187002069 active site residues [active] 170187002070 hypothetical protein; Provisional; Region: PRK02302 170187002071 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 170187002072 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 170187002073 putative ligand binding site [chemical binding]; other site 170187002074 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 170187002075 TM-ABC transporter signature motif; other site 170187002076 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 170187002077 TM-ABC transporter signature motif; other site 170187002078 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 170187002079 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 170187002080 Walker A/P-loop; other site 170187002081 ATP binding site [chemical binding]; other site 170187002082 Q-loop/lid; other site 170187002083 ABC transporter signature motif; other site 170187002084 Walker B; other site 170187002085 D-loop; other site 170187002086 H-loop/switch region; other site 170187002087 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 170187002088 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 170187002089 Walker A/P-loop; other site 170187002090 ATP binding site [chemical binding]; other site 170187002091 Q-loop/lid; other site 170187002092 ABC transporter signature motif; other site 170187002093 Walker B; other site 170187002094 D-loop; other site 170187002095 H-loop/switch region; other site 170187002096 FOG: CBS domain [General function prediction only]; Region: COG0517 170187002097 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_assoc2; cd04585 170187002098 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 170187002099 peptide chain release factor 2; Validated; Region: prfB; PRK00578 170187002100 PCRF domain; Region: PCRF; pfam03462 170187002101 RF-1 domain; Region: RF-1; pfam00472 170187002102 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 170187002103 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187002104 Walker A/P-loop; other site 170187002105 ATP binding site [chemical binding]; other site 170187002106 Q-loop/lid; other site 170187002107 ABC transporter signature motif; other site 170187002108 Walker B; other site 170187002109 D-loop; other site 170187002110 H-loop/switch region; other site 170187002111 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 170187002112 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 170187002113 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 170187002114 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 170187002115 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 170187002116 active site turn [active] 170187002117 phosphorylation site [posttranslational modification] 170187002118 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 170187002119 HPr interaction site; other site 170187002120 glycerol kinase (GK) interaction site [polypeptide binding]; other site 170187002121 active site 170187002122 phosphorylation site [posttranslational modification] 170187002123 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 170187002124 putative catalytic site [active] 170187002125 putative metal binding site [ion binding]; other site 170187002126 putative phosphate binding site [ion binding]; other site 170187002127 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 170187002128 DEAD-like helicases superfamily; Region: DEXDc; smart00487 170187002129 ATP binding site [chemical binding]; other site 170187002130 Mg++ binding site [ion binding]; other site 170187002131 motif III; other site 170187002132 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 170187002133 nucleotide binding region [chemical binding]; other site 170187002134 ATP-binding site [chemical binding]; other site 170187002135 S-adenosylmethionine synthetase; Validated; Region: PRK05250 170187002136 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 170187002137 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 170187002138 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 170187002139 Dihydroorotate dehydrogenase (DHOD) class 1A 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_1A_like; cd04741 170187002140 active site 170187002141 FMN binding site [chemical binding]; other site 170187002142 substrate binding site [chemical binding]; other site 170187002143 catalytic residues [active] 170187002144 homodimer interface [polypeptide binding]; other site 170187002145 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 170187002146 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 170187002147 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 170187002148 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 170187002149 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 170187002150 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4470 170187002151 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 170187002152 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 170187002153 FeS/SAM binding site; other site 170187002154 VanZ like family; Region: VanZ; pfam04892 170187002155 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 170187002156 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 170187002157 ABC transporter; Region: ABC_tran_2; pfam12848 170187002158 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 170187002159 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 170187002160 active site 170187002161 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 170187002162 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 170187002163 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 170187002164 G-X-X-G motif; other site 170187002165 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 170187002166 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 170187002167 RimM N-terminal domain; Region: RimM; pfam01782 170187002168 PRC-barrel domain; Region: PRC; pfam05239 170187002169 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 170187002170 ATP cone domain; Region: ATP-cone; pfam03477 170187002171 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4443 170187002172 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 170187002173 glutathione reductase; Validated; Region: PRK06116 170187002174 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 170187002175 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 170187002176 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 170187002177 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 170187002178 HlyD family secretion protein; Region: HlyD_3; pfam13437 170187002179 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 170187002180 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 170187002181 Walker A/P-loop; other site 170187002182 ATP binding site [chemical binding]; other site 170187002183 Q-loop/lid; other site 170187002184 ABC transporter signature motif; other site 170187002185 Walker B; other site 170187002186 D-loop; other site 170187002187 H-loop/switch region; other site 170187002188 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 170187002189 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 170187002190 FtsX-like permease family; Region: FtsX; pfam02687 170187002191 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 170187002192 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 170187002193 active site 170187002194 HIGH motif; other site 170187002195 KMSKS motif; other site 170187002196 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 170187002197 tRNA binding surface [nucleotide binding]; other site 170187002198 anticodon binding site; other site 170187002199 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 170187002200 dimer interface [polypeptide binding]; other site 170187002201 putative tRNA-binding site [nucleotide binding]; other site 170187002202 Predicted transcriptional regulators [Transcription]; Region: COG1695 170187002203 Domain of unknown function (DUF373); Region: DUF373; cl12079 170187002204 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 170187002205 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 170187002206 active site 170187002207 catalytic tetrad [active] 170187002208 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 170187002209 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 170187002210 classical (c) SDRs; Region: SDR_c; cd05233 170187002211 NAD(P) binding site [chemical binding]; other site 170187002212 active site 170187002213 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 170187002214 nudix motif; other site 170187002215 Phosphoenolpyruvate synthase/pyruvate phosphate dikinase [Carbohydrate transport and metabolism]; Region: PpsA; COG0574 170187002216 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 170187002217 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 170187002218 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 170187002219 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 170187002220 Zn binding site [ion binding]; other site 170187002221 ERAP1-like C-terminal domain; Region: ERAP1_C; pfam11838 170187002222 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 170187002223 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 170187002224 active site 170187002225 phosphorylation site [posttranslational modification] 170187002226 intermolecular recognition site; other site 170187002227 dimerization interface [polypeptide binding]; other site 170187002228 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 170187002229 DNA binding site [nucleotide binding] 170187002230 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 170187002231 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 170187002232 dimer interface [polypeptide binding]; other site 170187002233 phosphorylation site [posttranslational modification] 170187002234 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 170187002235 ATP binding site [chemical binding]; other site 170187002236 Mg2+ binding site [ion binding]; other site 170187002237 G-X-G motif; other site 170187002238 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 170187002239 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 170187002240 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK07246 170187002241 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 170187002242 active site 170187002243 catalytic site [active] 170187002244 substrate binding site [chemical binding]; other site 170187002245 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cd09708 170187002246 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 170187002247 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 170187002248 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 170187002249 DJ-1 family protein; Region: not_thiJ; TIGR01383 170187002250 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 170187002251 conserved cys residue [active] 170187002252 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 170187002253 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 170187002254 motif II; other site 170187002255 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 170187002256 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 170187002257 ATP binding site [chemical binding]; other site 170187002258 Mg2+ binding site [ion binding]; other site 170187002259 G-X-G motif; other site 170187002260 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 170187002261 anchoring element; other site 170187002262 dimer interface [polypeptide binding]; other site 170187002263 ATP binding site [chemical binding]; other site 170187002264 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 170187002265 active site 170187002266 putative metal-binding site [ion binding]; other site 170187002267 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 170187002268 Negative regulator of septation ring formation [Cell division and chromosome partitioning]; Region: EzrA; COG4477 170187002269 DDE superfamily endonuclease; Region: DDE_3; pfam13358 170187002270 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 170187002271 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 170187002272 nudix motif; other site 170187002273 Transposase; Region: HTH_Tnp_IS630; pfam01710 170187002274 Winged helix-turn helix; Region: HTH_29; pfam13551 170187002275 DDE superfamily endonuclease; Region: DDE_3; pfam13358 170187002276 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 170187002277 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 170187002278 Walker A motif; other site 170187002279 ATP binding site [chemical binding]; other site 170187002280 Walker B motif; other site 170187002281 arginine finger; other site 170187002282 UvrB/uvrC motif; Region: UVR; pfam02151 170187002283 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 170187002284 Walker A motif; other site 170187002285 ATP binding site [chemical binding]; other site 170187002286 Walker B motif; other site 170187002287 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 170187002288 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4703 170187002289 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 170187002290 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187002291 dimer interface [polypeptide binding]; other site 170187002292 conserved gate region; other site 170187002293 putative PBP binding loops; other site 170187002294 ABC-ATPase subunit interface; other site 170187002295 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 170187002296 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 170187002297 Walker A/P-loop; other site 170187002298 ATP binding site [chemical binding]; other site 170187002299 Q-loop/lid; other site 170187002300 ABC transporter signature motif; other site 170187002301 Walker B; other site 170187002302 D-loop; other site 170187002303 H-loop/switch region; other site 170187002304 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 170187002305 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 170187002306 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 170187002307 homodimer interface [polypeptide binding]; other site 170187002308 NADP binding site [chemical binding]; other site 170187002309 substrate binding site [chemical binding]; other site 170187002310 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 170187002311 tetramer (dimer of dimers) interface [polypeptide binding]; other site 170187002312 active site 170187002313 dimer interface [polypeptide binding]; other site 170187002314 phosphopentomutase; Provisional; Region: PRK05362 170187002315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3797 170187002316 purine nucleoside phosphorylase; Provisional; Region: PRK08202 170187002317 Purine nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pnp; COG0005 170187002318 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 170187002319 nucleophilic elbow; other site 170187002320 catalytic triad; other site 170187002321 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl19067 170187002322 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 170187002323 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 170187002324 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 170187002325 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 170187002326 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 170187002327 Transposase; Region: DDE_Tnp_ISL3; pfam01610 170187002328 topology modulation protein; Provisional; Region: PRK07261 170187002329 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 170187002330 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 170187002331 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 170187002332 ATP-binding site [chemical binding]; other site 170187002333 CoA-binding site [chemical binding]; other site 170187002334 Mg2+-binding site [ion binding]; other site 170187002335 Methyltransferase domain; Region: Methyltransf_31; pfam13847 170187002336 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 170187002337 S-adenosylmethionine binding site [chemical binding]; other site 170187002338 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 170187002339 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 170187002340 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 170187002341 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 170187002342 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 170187002343 intersubunit interface [polypeptide binding]; other site 170187002344 active site 170187002345 catalytic residue [active] 170187002346 Cytidine deaminase [Nucleotide transport and metabolism]; Region: Cdd; COG0295 170187002347 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 170187002348 active site 170187002349 catalytic motif [active] 170187002350 Zn binding site [ion binding]; other site 170187002351 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 170187002352 ligand binding site [chemical binding]; other site 170187002353 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 170187002354 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 170187002355 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 170187002356 Walker A/P-loop; other site 170187002357 ATP binding site [chemical binding]; other site 170187002358 Q-loop/lid; other site 170187002359 ABC transporter signature motif; other site 170187002360 Walker B; other site 170187002361 D-loop; other site 170187002362 H-loop/switch region; other site 170187002363 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 170187002364 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 170187002365 TM-ABC transporter signature motif; other site 170187002366 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 170187002367 TM-ABC transporter signature motif; other site 170187002368 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 170187002369 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 170187002370 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 170187002371 ATP binding site [chemical binding]; other site 170187002372 Mg2+ binding site [ion binding]; other site 170187002373 G-X-G motif; other site 170187002374 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 170187002375 anchoring element; other site 170187002376 dimer interface [polypeptide binding]; other site 170187002377 ATP binding site [chemical binding]; other site 170187002378 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 170187002379 active site 170187002380 metal binding site [ion binding]; metal-binding site 170187002381 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 170187002382 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 170187002383 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 170187002384 CAP-like domain; other site 170187002385 active site 170187002386 primary dimer interface [polypeptide binding]; other site 170187002387 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 170187002388 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 170187002389 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 170187002390 homodimer interface [polypeptide binding]; other site 170187002391 substrate-cofactor binding pocket; other site 170187002392 catalytic residue [active] 170187002393 Predicted membrane protein [Function unknown]; Region: COG3819 170187002394 Predicted membrane protein [Function unknown]; Region: COG3817 170187002395 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 170187002396 putative substrate binding pocket [chemical binding]; other site 170187002397 AC domain interface; other site 170187002398 catalytic triad [active] 170187002399 AB domain interface; other site 170187002400 interchain disulfide; other site 170187002401 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 170187002402 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 170187002403 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 170187002404 RNA binding site [nucleotide binding]; other site 170187002405 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 170187002406 RNA binding site [nucleotide binding]; other site 170187002407 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 170187002408 RNA binding site [nucleotide binding]; other site 170187002409 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 170187002410 RNA binding site [nucleotide binding]; other site 170187002411 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 170187002412 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 170187002413 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 170187002414 Walker A motif; other site 170187002415 ATP binding site [chemical binding]; other site 170187002416 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl18944 170187002417 Walker B motif; other site 170187002418 arginine finger; other site 170187002419 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 170187002420 Protein of unknown function (DUF3272); Region: DUF3272; pfam11676 170187002421 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 170187002422 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 170187002423 Walker A/P-loop; other site 170187002424 ATP binding site [chemical binding]; other site 170187002425 Q-loop/lid; other site 170187002426 ABC transporter signature motif; other site 170187002427 Walker B; other site 170187002428 D-loop; other site 170187002429 H-loop/switch region; other site 170187002430 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 170187002431 FeS assembly protein SufD; Region: sufD; TIGR01981 170187002432 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 170187002433 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 170187002434 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 170187002435 catalytic residue [active] 170187002436 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 170187002437 trimerization site [polypeptide binding]; other site 170187002438 active site 170187002439 FeS assembly protein SufB; Region: sufB; TIGR01980 170187002440 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 170187002441 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 170187002442 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 170187002443 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 170187002444 Domain of unknown function DUF20; Region: UPF0118; pfam01594 170187002445 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 170187002446 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 170187002447 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 170187002448 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 170187002449 putative substrate binding site [chemical binding]; other site 170187002450 putative ATP binding site [chemical binding]; other site 170187002451 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 170187002452 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 170187002453 active site 170187002454 phosphorylation site [posttranslational modification] 170187002455 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 170187002456 active site 170187002457 P-loop; other site 170187002458 phosphorylation site [posttranslational modification] 170187002459 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 170187002460 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 170187002461 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 170187002462 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 170187002463 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 170187002464 endonuclease 4-like protein; Provisional; Region: PTZ00372 170187002465 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 170187002466 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 170187002467 catalytic residue [active] 170187002468 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 170187002469 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 170187002470 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 170187002471 Ligand Binding Site [chemical binding]; other site 170187002472 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 170187002473 Putative esterase; Region: Esterase; pfam00756 170187002474 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 170187002475 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 170187002476 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 170187002477 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 170187002478 HsdM N-terminal domain; Region: HsdM_N; pfam12161 170187002479 Methyltransferase domain; Region: Methyltransf_26; pfam13659 170187002480 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 170187002481 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 170187002482 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 170187002483 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 170187002484 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 170187002485 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 170187002486 active site 170187002487 DNA binding site [nucleotide binding] 170187002488 Int/Topo IB signature motif; other site 170187002489 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 170187002490 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 170187002491 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 170187002492 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 170187002493 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 170187002494 ATP binding site [chemical binding]; other site 170187002495 putative Mg++ binding site [ion binding]; other site 170187002496 Helicase conserved C-terminal domain; Region: Helicase_C; cl17351 170187002497 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 170187002498 Arginine repressor [Transcription]; Region: ArgR; COG1438 170187002499 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 170187002500 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 170187002501 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 170187002502 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; pfam09168 170187002503 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 170187002504 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 170187002505 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 170187002506 active site 170187002507 PHP Thumb interface [polypeptide binding]; other site 170187002508 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 170187002509 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 170187002510 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 170187002511 generic binding surface II; other site 170187002512 generic binding surface I; other site 170187002513 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 170187002514 active site 170187002515 ADP/pyrophosphate binding site [chemical binding]; other site 170187002516 dimerization interface [polypeptide binding]; other site 170187002517 allosteric effector site; other site 170187002518 fructose-1,6-bisphosphate binding site; other site 170187002519 pyruvate kinase; Provisional; Region: PRK05826 170187002520 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 170187002521 domain interfaces; other site 170187002522 active site 170187002523 Domain of unknown function (DUF4300); Region: DUF4300; pfam14133 170187002524 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 170187002525 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 170187002526 Predicted membrane protein [Function unknown]; Region: COG3689 170187002527 Predicted permeases [General function prediction only]; Region: COG0701 170187002528 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 170187002529 active site 170187002530 Exopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3955 170187002531 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 170187002532 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 170187002533 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 170187002534 Uncharacterized protein family (UPF0081); Region: UPF0081; cl17278 170187002535 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 170187002536 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 170187002537 RNA binding site [nucleotide binding]; other site 170187002538 hypothetical protein; Provisional; Region: PRK04351 170187002539 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 170187002540 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 170187002541 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 170187002542 Walker A/P-loop; other site 170187002543 ATP binding site [chemical binding]; other site 170187002544 Q-loop/lid; other site 170187002545 ABC transporter signature motif; other site 170187002546 Walker B; other site 170187002547 D-loop; other site 170187002548 H-loop/switch region; other site 170187002549 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 170187002550 FtsX-like permease family; Region: FtsX; pfam02687 170187002551 FtsX-like permease family; Region: FtsX; pfam02687 170187002552 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 170187002553 Helix-turn-helix domain; Region: HTH_38; pfam13936 170187002554 Integrase core domain; Region: rve; pfam00665 170187002555 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 170187002556 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 170187002557 homodimer interface [polypeptide binding]; other site 170187002558 pyridoxal 5'-phosphate binding site [chemical binding]; other site 170187002559 catalytic residue [active] 170187002560 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 170187002561 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 170187002562 Transposase; Region: DEDD_Tnp_IS110; pfam01548 170187002563 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 170187002564 S-adenosylmethionine binding site [chemical binding]; other site 170187002565 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 170187002566 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 170187002567 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 170187002568 dimer interface [polypeptide binding]; other site 170187002569 active site 170187002570 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 170187002571 catalytic residues [active] 170187002572 substrate binding site [chemical binding]; other site 170187002573 agmatine deiminase; Provisional; Region: PRK13551 170187002574 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 170187002575 putative active site; other site 170187002576 catalytic triad [active] 170187002577 putative dimer interface [polypeptide binding]; other site 170187002578 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 170187002579 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 170187002580 active site 170187002581 motif I; other site 170187002582 motif II; other site 170187002583 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 170187002584 Predicted metal-dependent membrane protease [General function prediction only]; Region: COG1266 170187002585 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 170187002586 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 170187002587 Transcriptional regulator [Transcription]; Region: LysR; COG0583 170187002588 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 170187002589 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 170187002590 dimerization interface [polypeptide binding]; other site 170187002591 lipoprotein signal peptidase; Provisional; Region: PRK14797 170187002592 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 170187002593 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 170187002594 RNA binding surface [nucleotide binding]; other site 170187002595 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 170187002596 active site 170187002597 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 170187002598 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 170187002599 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 170187002600 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 170187002601 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 170187002602 nucleotide binding site [chemical binding]; other site 170187002603 homotetrameric interface [polypeptide binding]; other site 170187002604 putative phosphate binding site [ion binding]; other site 170187002605 putative allosteric binding site; other site 170187002606 PUA domain; Region: PUA; pfam01472 170187002607 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 170187002608 putative catalytic cysteine [active] 170187002609 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 170187002610 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 170187002611 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 170187002612 thymidylate kinase; Validated; Region: tmk; PRK00698 170187002613 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 170187002614 TMP-binding site; other site 170187002615 ATP-binding site [chemical binding]; other site 170187002616 DNA polymerase III subunit delta'; Validated; Region: PRK07276 170187002617 DNA polymerase III subunit delta'; Validated; Region: PRK08485 170187002618 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 170187002619 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 170187002620 putative SAM binding site [chemical binding]; other site 170187002621 putative homodimer interface [polypeptide binding]; other site 170187002622 Uncharacterized conserved protein [Function unknown]; Region: COG4283 170187002623 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 170187002624 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 170187002625 Helix-turn-helix of DDE superfamily endonuclease; Region: HTH_Tnp_4; pfam13613 170187002626 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 170187002627 Glucose inhibited division protein A; Region: GIDA; pfam01134 170187002628 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 170187002629 putative nucleotide binding site [chemical binding]; other site 170187002630 uridine monophosphate binding site [chemical binding]; other site 170187002631 homohexameric interface [polypeptide binding]; other site 170187002632 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 170187002633 hinge region; other site 170187002634 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 170187002635 S1 domain; Region: S1_2; pfam13509 170187002636 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 170187002637 hypothetical protein; Provisional; Region: PRK13672 170187002638 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 170187002639 PhoH-like protein; Region: PhoH; cl17668 170187002640 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 170187002641 ATP binding site [chemical binding]; other site 170187002642 putative Mg++ binding site [ion binding]; other site 170187002643 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 170187002644 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 170187002645 Coenzyme A binding pocket [chemical binding]; other site 170187002646 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 170187002647 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 170187002648 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 170187002649 SLBB domain; Region: SLBB; pfam10531 170187002650 comEA protein; Region: comE; TIGR01259 170187002651 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 170187002652 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 170187002653 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 170187002654 Competence protein; Region: Competence; pfam03772 170187002655 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 170187002656 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 170187002657 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 170187002658 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 170187002659 Walker A/P-loop; other site 170187002660 ATP binding site [chemical binding]; other site 170187002661 Q-loop/lid; other site 170187002662 ABC transporter signature motif; other site 170187002663 Walker B; other site 170187002664 D-loop; other site 170187002665 H-loop/switch region; other site 170187002666 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 170187002667 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 170187002668 Translation initiation factor 3 (IF-3) [Translation, ribosomal structure and biogenesis]; Region: InfC; COG0290 170187002669 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 170187002670 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 170187002671 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 170187002672 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 170187002673 23S rRNA binding site [nucleotide binding]; other site 170187002674 L21 binding site [polypeptide binding]; other site 170187002675 L13 binding site [polypeptide binding]; other site 170187002676 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 170187002677 dimer interface [polypeptide binding]; other site 170187002678 active site 170187002679 metal binding site [ion binding]; metal-binding site 170187002680 glutathione binding site [chemical binding]; other site 170187002681 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 170187002682 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 170187002683 FAD binding pocket [chemical binding]; other site 170187002684 FAD binding motif [chemical binding]; other site 170187002685 phosphate binding motif [ion binding]; other site 170187002686 beta-alpha-beta structure motif; other site 170187002687 NAD binding pocket [chemical binding]; other site 170187002688 Iron coordination center [ion binding]; other site 170187002689 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 170187002690 heterodimer interface [polypeptide binding]; other site 170187002691 active site 170187002692 FMN binding site [chemical binding]; other site 170187002693 homodimer interface [polypeptide binding]; other site 170187002694 substrate binding site [chemical binding]; other site 170187002695 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 170187002696 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 170187002697 Lysozyme subfamily 2; Region: LYZ2; smart00047 170187002698 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 170187002699 Domain of unknown function (DUF814); Region: DUF814; pfam05670 170187002700 metal-binding heat shock protein; Provisional; Region: PRK00016 170187002701 Integral membrane undecaprenol kinase and similar enzymes; Region: UDPK_IM_like; cd14265 170187002702 trimer interface [polypeptide binding]; other site 170187002703 putative active site [active] 170187002704 Zn binding site [ion binding]; other site 170187002705 GTPase Era; Reviewed; Region: era; PRK00089 170187002706 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 170187002707 G1 box; other site 170187002708 GTP/Mg2+ binding site [chemical binding]; other site 170187002709 Switch I region; other site 170187002710 G2 box; other site 170187002711 Switch II region; other site 170187002712 G3 box; other site 170187002713 G4 box; other site 170187002714 G5 box; other site 170187002715 KH domain; Region: KH_2; pfam07650 170187002716 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 170187002717 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 170187002718 DNA binding site [nucleotide binding] 170187002719 catalytic residue [active] 170187002720 H2TH interface [polypeptide binding]; other site 170187002721 putative catalytic residues [active] 170187002722 turnover-facilitating residue; other site 170187002723 intercalation triad [nucleotide binding]; other site 170187002724 8OG recognition residue [nucleotide binding]; other site 170187002725 putative reading head residues; other site 170187002726 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 170187002727 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 170187002728 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 170187002729 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 170187002730 CoA-binding site [chemical binding]; other site 170187002731 drug efflux system protein MdtG; Provisional; Region: PRK09874 170187002732 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 170187002733 putative substrate translocation pore; other site 170187002734 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 170187002735 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 170187002736 ribonuclease R; Region: RNase_R; TIGR02063 170187002737 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 170187002738 RNB domain; Region: RNB; pfam00773 170187002739 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 170187002740 RNA binding site [nucleotide binding]; other site 170187002741 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 170187002742 SmpB-tmRNA interface; other site 170187002743 tellurite resistance protein TehB; Provisional; Region: PRK12335 170187002744 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 170187002745 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 170187002746 S-adenosylmethionine binding site [chemical binding]; other site 170187002747 Competence protein CoiA-like family, contains a predicted nuclease domain [General function prediction only]; Region: CoiA; COG4469 170187002748 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 170187002749 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 170187002750 active site 170187002751 Zn binding site [ion binding]; other site 170187002752 Methyltransferase domain; Region: Methyltransf_31; pfam13847 170187002753 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 170187002754 S-adenosylmethionine binding site [chemical binding]; other site 170187002755 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 170187002756 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 170187002757 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 170187002758 catalytic core [active] 170187002759 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 170187002760 putative deacylase active site [active] 170187002761 Predicted membrane protein [Function unknown]; Region: COG2035 170187002762 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 170187002763 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 170187002764 active site 170187002765 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 170187002766 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 170187002767 Substrate binding site; other site 170187002768 Mg++ binding site; other site 170187002769 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 170187002770 active site 170187002771 substrate binding site [chemical binding]; other site 170187002772 CoA binding site [chemical binding]; other site 170187002773 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 170187002774 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 170187002775 dimer interface [polypeptide binding]; other site 170187002776 ADP-ribose binding site [chemical binding]; other site 170187002777 active site 170187002778 nudix motif; other site 170187002779 metal binding site [ion binding]; metal-binding site 170187002780 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 170187002781 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 170187002782 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 170187002783 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 170187002784 active site 170187002785 catalytic site [active] 170187002786 substrate binding site [chemical binding]; other site 170187002787 Membrane domain of membrane-anchored glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: COG4781 170187002788 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 170187002789 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 170187002790 putative active site [active] 170187002791 catalytic site [active] 170187002792 putative metal binding site [ion binding]; other site 170187002793 Transposase; Region: HTH_Tnp_IS630; pfam01710 170187002794 Winged helix-turn helix; Region: HTH_29; pfam13551 170187002795 Transmembrane domain of the Epidermal Growth Factor Receptor family of Protein Tyrosine Kinases; Region: TM_EGFR-like; cd12087 170187002796 dimer interface [polypeptide binding]; other site 170187002797 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 170187002798 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 170187002799 catalytic residues [active] 170187002800 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 170187002801 amino acid transporter; Region: 2A0306; TIGR00909 170187002802 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 170187002803 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 170187002804 metal binding site [ion binding]; metal-binding site 170187002805 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 170187002806 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 170187002807 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 170187002808 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 170187002809 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 170187002810 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 170187002811 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 170187002812 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 170187002813 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 170187002814 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 170187002815 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 170187002816 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 170187002817 metal binding site [ion binding]; metal-binding site 170187002818 dimer interface [polypeptide binding]; other site 170187002819 Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]; Region: HemH; COG0276 170187002820 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 170187002821 C-terminal domain interface [polypeptide binding]; other site 170187002822 active site 170187002823 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 170187002824 active site 170187002825 N-terminal domain interface [polypeptide binding]; other site 170187002826 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 170187002827 Predicted membrane protein [Function unknown]; Region: COG2246 170187002828 Predicted membrane protein [Function unknown]; Region: COG4708 170187002829 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 170187002830 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 170187002831 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 170187002832 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 170187002833 dimer interface [polypeptide binding]; other site 170187002834 active site 170187002835 catalytic residue [active] 170187002836 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 170187002837 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 170187002838 trmE is a tRNA modification GTPase; Region: trmE; cd04164 170187002839 G1 box; other site 170187002840 GTP/Mg2+ binding site [chemical binding]; other site 170187002841 Switch I region; other site 170187002842 G2 box; other site 170187002843 Switch II region; other site 170187002844 G3 box; other site 170187002845 G4 box; other site 170187002846 G5 box; other site 170187002847 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 170187002848 4-oxalocrotonate tautomerase; Provisional; Region: PRK02289 170187002849 active site 1 [active] 170187002850 dimer interface [polypeptide binding]; other site 170187002851 hexamer interface [polypeptide binding]; other site 170187002852 active site 2 [active] 170187002853 thymidine kinase; Provisional; Region: PRK04296 170187002854 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 170187002855 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 170187002856 Coenzyme A binding pocket [chemical binding]; other site 170187002857 peptide chain release factor 1; Validated; Region: prfA; PRK00591 170187002858 This domain is found in peptide chain release factors; Region: PCRF; smart00937 170187002859 RF-1 domain; Region: RF-1; pfam00472 170187002860 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 170187002861 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 170187002862 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 170187002863 S-adenosylmethionine binding site [chemical binding]; other site 170187002864 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 170187002865 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 170187002866 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 170187002867 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 170187002868 Coenzyme A binding pocket [chemical binding]; other site 170187002869 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 170187002870 dimer interface [polypeptide binding]; other site 170187002871 active site 170187002872 glycine-pyridoxal phosphate binding site [chemical binding]; other site 170187002873 folate binding site [chemical binding]; other site 170187002874 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 170187002875 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 170187002876 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 170187002877 Lysozyme-like; Region: Lysozyme_like; pfam13702 170187002878 Predicted secreted protein [Function unknown]; Region: COG4086 170187002879 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 170187002880 TRAM domain; Region: TRAM; cl01282 170187002881 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 170187002882 S-adenosylmethionine binding site [chemical binding]; other site 170187002883 Predicted transcriptional regulator [Transcription]; Region: COG3655 170187002884 sequence-specific DNA binding site [nucleotide binding]; other site 170187002885 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 170187002886 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 170187002887 siderophore binding site; other site 170187002888 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 170187002889 ABC-ATPase subunit interface; other site 170187002890 dimer interface [polypeptide binding]; other site 170187002891 putative PBP binding regions; other site 170187002892 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 170187002893 ABC-ATPase subunit interface; other site 170187002894 dimer interface [polypeptide binding]; other site 170187002895 putative PBP binding regions; other site 170187002896 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 170187002897 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 170187002898 Walker A/P-loop; other site 170187002899 ATP binding site [chemical binding]; other site 170187002900 Q-loop/lid; other site 170187002901 ABC transporter signature motif; other site 170187002902 Walker B; other site 170187002903 D-loop; other site 170187002904 H-loop/switch region; other site 170187002905 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 170187002906 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 170187002907 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 170187002908 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 170187002909 catalytic residues [active] 170187002910 catalytic nucleophile [active] 170187002911 Recombinase; Region: Recombinase; pfam07508 170187002912 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 170187002913 Domain of unknown function (DUF4343); Region: DUF4343; pfam14243 170187002914 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 170187002915 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 170187002916 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 170187002917 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 170187002918 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 170187002919 non-specific DNA binding site [nucleotide binding]; other site 170187002920 salt bridge; other site 170187002921 sequence-specific DNA binding site [nucleotide binding]; other site 170187002922 Zeta toxin; Region: Zeta_toxin; pfam06414 170187002923 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 170187002924 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 170187002925 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187002926 ABC transporter signature motif; other site 170187002927 Walker B; other site 170187002928 D-loop; other site 170187002929 H-loop/switch region; other site 170187002930 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 170187002931 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 170187002932 Lantibiotic streptin immunity protein; Region: Streptin-Immun; pfam11083 170187002933 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 170187002934 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 170187002935 non-specific DNA binding site [nucleotide binding]; other site 170187002936 salt bridge; other site 170187002937 sequence-specific DNA binding site [nucleotide binding]; other site 170187002938 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 170187002939 dimer interface [polypeptide binding]; other site 170187002940 tetramer interface [polypeptide binding]; other site 170187002941 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 170187002942 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 170187002943 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 170187002944 active site 170187002945 active site 170187002946 ATP binding site [chemical binding]; other site 170187002947 ATP binding site [chemical binding]; other site 170187002948 substrate binding site [chemical binding]; other site 170187002949 activation loop (A-loop); other site 170187002950 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 170187002951 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187002952 Walker A/P-loop; other site 170187002953 ATP binding site [chemical binding]; other site 170187002954 Q-loop/lid; other site 170187002955 ABC transporter signature motif; other site 170187002956 Walker B; other site 170187002957 D-loop; other site 170187002958 H-loop/switch region; other site 170187002959 ABC-2 type transporter; Region: ABC2_membrane; cl17235 170187002960 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 170187002961 Transposase IS200 like; Region: Y1_Tnp; pfam01797 170187002962 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 170187002963 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 170187002964 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 170187002965 zinc binding site [ion binding]; other site 170187002966 putative ligand binding site [chemical binding]; other site 170187002967 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 170187002968 TM-ABC transporter signature motif; other site 170187002969 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 170187002970 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187002971 Walker A/P-loop; other site 170187002972 ATP binding site [chemical binding]; other site 170187002973 Q-loop/lid; other site 170187002974 ABC transporter signature motif; other site 170187002975 Walker B; other site 170187002976 D-loop; other site 170187002977 H-loop/switch region; other site 170187002978 DNA primase; Validated; Region: dnaG; PRK05667 170187002979 CHC2 zinc finger; Region: zf-CHC2; pfam01807 170187002980 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 170187002981 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 170187002982 active site 170187002983 metal binding site [ion binding]; metal-binding site 170187002984 interdomain interaction site; other site 170187002985 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 170187002986 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 170187002987 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 170187002988 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 170187002989 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 170187002990 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 170187002991 DNA binding residues [nucleotide binding] 170187002992 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 170187002993 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 170187002994 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 170187002995 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 170187002996 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 170187002997 putative ADP-binding pocket [chemical binding]; other site 170187002998 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 170187002999 Protein of unknown function (DUF4044); Region: DUF4044; pfam13253 170187003000 GTPase CgtA; Reviewed; Region: obgE; PRK12297 170187003001 GTP1/OBG; Region: GTP1_OBG; pfam01018 170187003002 Obg GTPase; Region: Obg; cd01898 170187003003 G1 box; other site 170187003004 GTP/Mg2+ binding site [chemical binding]; other site 170187003005 Switch I region; other site 170187003006 G2 box; other site 170187003007 G3 box; other site 170187003008 Switch II region; other site 170187003009 G4 box; other site 170187003010 G5 box; other site 170187003011 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 170187003012 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 170187003013 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 170187003014 hinge; other site 170187003015 active site 170187003016 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 170187003017 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 170187003018 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 170187003019 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 170187003020 DNA-binding site [nucleotide binding]; DNA binding site 170187003021 DRTGG domain; Region: DRTGG; pfam07085 170187003022 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 170187003023 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 170187003024 active site 2 [active] 170187003025 active site 1 [active] 170187003026 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 170187003027 active site 170187003028 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 170187003029 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 170187003030 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 170187003031 Part of AAA domain; Region: AAA_19; pfam13245 170187003032 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 170187003033 hypothetical protein; Reviewed; Region: PRK00024 170187003034 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 170187003035 MPN+ (JAMM) motif; other site 170187003036 Zinc-binding site [ion binding]; other site 170187003037 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 170187003038 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 170187003039 catalytic triad [active] 170187003040 AT-rich DNA-binding protein [General function prediction only]; Region: COG2344 170187003041 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 170187003042 CoA binding domain; Region: CoA_binding; pfam02629 170187003043 Uncharacterized protein conserved in Streptococci; Region: SP_1775_like; cl19119 170187003044 oligomer interface [polypeptide binding]; other site 170187003045 putative ligand binding site [chemical binding]; other site 170187003046 Putative amino acid metabolizm; Region: DUF1831; pfam08866 170187003047 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 170187003048 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 170187003049 catalytic residue [active] 170187003050 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 170187003051 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 170187003052 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 170187003053 active site 170187003054 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 170187003055 putative active site [active] 170187003056 putative metal binding residues [ion binding]; other site 170187003057 signature motif; other site 170187003058 putative triphosphate binding site [ion binding]; other site 170187003059 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 170187003060 synthetase active site [active] 170187003061 NTP binding site [chemical binding]; other site 170187003062 metal binding site [ion binding]; metal-binding site 170187003063 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 170187003064 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 170187003065 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 170187003066 RNA binding surface [nucleotide binding]; other site 170187003067 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 170187003068 active site 170187003069 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 170187003070 hypothetical protein; Validated; Region: PRK00153 170187003071 Predicted membrane protein [Function unknown]; Region: COG3619 170187003072 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 170187003073 Predicted ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG2868 170187003074 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 170187003075 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 170187003076 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 170187003077 active site 170187003078 Riboflavin kinase; Region: Flavokinase; smart00904 170187003079 Uncharacterized conserved protein [Function unknown]; Region: COG1284 170187003080 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 170187003081 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 170187003082 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 170187003083 EDD domain protein, DegV family; Region: DegV; TIGR00762 170187003084 histone-like DNA-binding protein HU; Region: HU; cd13831 170187003085 dimer interface [polypeptide binding]; other site 170187003086 DNA binding site [nucleotide binding] 170187003087 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 170187003088 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 170187003089 ABC transporter; Region: ABC_tran_2; pfam12848 170187003090 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 170187003091 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 170187003092 non-specific DNA binding site [nucleotide binding]; other site 170187003093 salt bridge; other site 170187003094 sequence-specific DNA binding site [nucleotide binding]; other site 170187003095 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 170187003096 H+ Antiporter protein; Region: 2A0121; TIGR00900 170187003097 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 170187003098 putative substrate translocation pore; other site 170187003099 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 170187003100 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 170187003101 nucleotide binding pocket [chemical binding]; other site 170187003102 K-X-D-G motif; other site 170187003103 catalytic site [active] 170187003104 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 170187003105 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 170187003106 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 170187003107 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 170187003108 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 170187003109 Dimer interface [polypeptide binding]; other site 170187003110 BRCT sequence motif; other site 170187003111 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cl04227 170187003112 pullulanase, type I; Region: pulA_typeI; TIGR02104 170187003113 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 170187003114 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 170187003115 Ca binding site [ion binding]; other site 170187003116 active site 170187003117 catalytic site [active] 170187003118 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 170187003119 tetrameric interface [polypeptide binding]; other site 170187003120 activator binding site; other site 170187003121 NADP binding site [chemical binding]; other site 170187003122 substrate binding site [chemical binding]; other site 170187003123 catalytic residues [active] 170187003124 glycogen branching enzyme; Provisional; Region: PRK12313 170187003125 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 170187003126 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 170187003127 active site 170187003128 catalytic site [active] 170187003129 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 170187003130 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 170187003131 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 170187003132 ligand binding site; other site 170187003133 oligomer interface; other site 170187003134 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 170187003135 dimer interface [polypeptide binding]; other site 170187003136 N-terminal domain interface [polypeptide binding]; other site 170187003137 sulfate 1 binding site; other site 170187003138 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 170187003139 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 170187003140 active site 170187003141 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 170187003142 dimer interface [polypeptide binding]; other site 170187003143 N-terminal domain interface [polypeptide binding]; other site 170187003144 sulfate 1 binding site; other site 170187003145 glycogen synthase; Provisional; Region: glgA; PRK00654 170187003146 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 170187003147 ADP-binding pocket [chemical binding]; other site 170187003148 homodimer interface [polypeptide binding]; other site 170187003149 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 170187003150 Uncharacterized conserved protein [Function unknown]; Region: COG5506 170187003151 enolase; Provisional; Region: eno; PRK00077 170187003152 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 170187003153 dimer interface [polypeptide binding]; other site 170187003154 metal binding site [ion binding]; metal-binding site 170187003155 substrate binding pocket [chemical binding]; other site 170187003156 Phage integrase, N-terminal SAM-like domain; Region: Phage_int_SAM_3; pfam14659 170187003157 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 170187003158 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 170187003159 Int/Topo IB signature motif; other site 170187003160 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 170187003161 non-specific DNA binding site [nucleotide binding]; other site 170187003162 salt bridge; other site 170187003163 sequence-specific DNA binding site [nucleotide binding]; other site 170187003164 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 170187003165 non-specific DNA binding site [nucleotide binding]; other site 170187003166 salt bridge; other site 170187003167 sequence-specific DNA binding site [nucleotide binding]; other site 170187003168 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 170187003169 DNA binding residues [nucleotide binding] 170187003170 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 170187003171 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 170187003172 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 170187003173 DnaD and phage-associated domain; Region: DnaD_dom; TIGR01446 170187003174 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 170187003175 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 170187003176 Walker A motif; other site 170187003177 ATP binding site [chemical binding]; other site 170187003178 Walker B motif; other site 170187003179 arginine finger; other site 170187003180 Phage-related protein [Function unknown]; Region: COG4679 170187003181 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 170187003182 non-specific DNA binding site [nucleotide binding]; other site 170187003183 salt bridge; other site 170187003184 sequence-specific DNA binding site [nucleotide binding]; other site 170187003185 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 170187003186 active site 170187003187 DDE superfamily endonuclease; Region: DDE_3; pfam13358 170187003188 Transposase; Region: HTH_Tnp_IS630; pfam01710 170187003189 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 170187003190 ATP-dependent nuclease subunit B; Region: rexB_recomb; TIGR02774 170187003191 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; cl19914 170187003192 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 170187003193 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 170187003194 Part of AAA domain; Region: AAA_19; pfam13245 170187003195 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 170187003196 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 170187003197 MAEBL; Provisional; Region: PTZ00121 170187003198 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 170187003199 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 170187003200 G5 domain; Region: G5; pfam07501 170187003201 Brain acid soluble protein 1 (BASP1 protein); Region: BASP1; pfam05466 170187003202 hypothetical protein; Provisional; Region: PHA03151 170187003203 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 170187003204 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 170187003205 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 170187003206 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 170187003207 GTP/Mg2+ binding site [chemical binding]; other site 170187003208 G4 box; other site 170187003209 G5 box; other site 170187003210 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 170187003211 G1 box; other site 170187003212 G1 box; other site 170187003213 GTP/Mg2+ binding site [chemical binding]; other site 170187003214 Switch I region; other site 170187003215 G2 box; other site 170187003216 G2 box; other site 170187003217 G3 box; other site 170187003218 G3 box; other site 170187003219 Switch II region; other site 170187003220 Switch II region; other site 170187003221 G5 box; other site 170187003222 Bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 170187003223 RNA/DNA hybrid binding site [nucleotide binding]; other site 170187003224 active site 170187003225 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 170187003226 Cl- selectivity filter; other site 170187003227 Cl- binding residues [ion binding]; other site 170187003228 pore gating glutamate residue; other site 170187003229 dimer interface [polypeptide binding]; other site 170187003230 H+/Cl- coupling transport residue; other site 170187003231 TrkA-C domain; Region: TrkA_C; pfam02080 170187003232 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 170187003233 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 170187003234 active site 170187003235 DNA binding site [nucleotide binding] 170187003236 Int/Topo IB signature motif; other site 170187003237 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 170187003238 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 170187003239 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 170187003240 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 170187003241 E3 interaction surface; other site 170187003242 lipoyl attachment site [posttranslational modification]; other site 170187003243 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 170187003244 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 170187003245 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 170187003246 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 170187003247 dihydrolipoamide acetyltransferase; Provisional; Region: PRK14843 170187003248 e3 binding domain; Region: E3_binding; pfam02817 170187003249 e3 binding domain; Region: E3_binding; pfam02817 170187003250 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 170187003251 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 170187003252 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 170187003253 alpha subunit interface [polypeptide binding]; other site 170187003254 TPP binding site [chemical binding]; other site 170187003255 heterodimer interface [polypeptide binding]; other site 170187003256 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 170187003257 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 170187003258 tetramer interface [polypeptide binding]; other site 170187003259 TPP-binding site [chemical binding]; other site 170187003260 heterodimer interface [polypeptide binding]; other site 170187003261 phosphorylation loop region [posttranslational modification] 170187003262 multidrug efflux protein; Reviewed; Region: PRK01766 170187003263 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 170187003264 cation binding site [ion binding]; other site 170187003265 dihydroorotase; Validated; Region: pyrC; PRK09357 170187003266 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 170187003267 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 170187003268 active site 170187003269 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 170187003270 putative active site [active] 170187003271 nucleotide binding site [chemical binding]; other site 170187003272 nudix motif; other site 170187003273 putative metal binding site [ion binding]; other site 170187003274 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 170187003275 ligand binding site [chemical binding]; other site 170187003276 active site 170187003277 UGI interface [polypeptide binding]; other site 170187003278 catalytic site [active] 170187003279 HAD-hyrolase-like; Region: Hydrolase_like; cl19142 170187003280 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 170187003281 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 170187003282 motif II; other site 170187003283 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 170187003284 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 170187003285 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 170187003286 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 170187003287 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 170187003288 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 170187003289 Procyclic acidic repetitive protein (PARP); Region: Trypan_PARP; pfam05887 170187003290 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 170187003291 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 170187003292 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 170187003293 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 170187003294 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 170187003295 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 170187003296 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 170187003297 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 170187003298 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 170187003299 dimerization domain swap beta strand [polypeptide binding]; other site 170187003300 regulatory protein interface [polypeptide binding]; other site 170187003301 active site 170187003302 regulatory phosphorylation site [posttranslational modification]; other site 170187003303 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 170187003304 catalytic residues [active] 170187003305 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 170187003306 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 170187003307 Class I ribonucleotide reductase; Region: RNR_I; cd01679 170187003308 active site 170187003309 dimer interface [polypeptide binding]; other site 170187003310 catalytic residues [active] 170187003311 effector binding site; other site 170187003312 R2 peptide binding site; other site 170187003313 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 170187003314 dimer interface [polypeptide binding]; other site 170187003315 putative radical transfer pathway; other site 170187003316 diiron center [ion binding]; other site 170187003317 tyrosyl radical; other site 170187003318 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 170187003319 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 170187003320 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 170187003321 Protein of unknown function (DUF3884); Region: DUF3884; pfam13024 170187003322 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 170187003323 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 170187003324 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 170187003325 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 170187003326 active site 170187003327 P-loop; other site 170187003328 phosphorylation site [posttranslational modification] 170187003329 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 170187003330 methionine cluster; other site 170187003331 active site 170187003332 phosphorylation site [posttranslational modification] 170187003333 metal binding site [ion binding]; metal-binding site 170187003334 CAT RNA binding domain; Region: CAT_RBD; smart01061 170187003335 transcriptional antiterminator BglG; Provisional; Region: PRK09772 170187003336 PRD domain; Region: PRD; pfam00874 170187003337 PRD domain; Region: PRD; pfam00874 170187003338 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12399 170187003339 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 170187003340 putative substrate binding site [chemical binding]; other site 170187003341 putative ATP binding site [chemical binding]; other site 170187003342 galactose-6-phosphate isomerase subunit LacB; Reviewed; Region: PRK08622 170187003343 galactose-6-phosphate isomerase subunit LacA; Reviewed; Region: PRK08621 170187003344 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 170187003345 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 170187003346 Phosphotransferase system, galactitol-specific IIB component [Carbohydrate transport and metabolism]; Region: SgaB; COG3414 170187003347 active site 170187003348 P-loop; other site 170187003349 phosphorylation site [posttranslational modification] 170187003350 Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: PtsN; COG1762 170187003351 active site 170187003352 phosphorylation site [posttranslational modification] 170187003353 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cl00163 170187003354 active site 170187003355 GTP-binding protein LepA; Provisional; Region: PRK05433 170187003356 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 170187003357 G1 box; other site 170187003358 putative GEF interaction site [polypeptide binding]; other site 170187003359 GTP/Mg2+ binding site [chemical binding]; other site 170187003360 Switch I region; other site 170187003361 G2 box; other site 170187003362 G3 box; other site 170187003363 Switch II region; other site 170187003364 G4 box; other site 170187003365 G5 box; other site 170187003366 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 170187003367 Elongation Factor G, domain II; Region: EFG_II; pfam14492 170187003368 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 170187003369 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 170187003370 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 170187003371 active site 170187003372 metal binding site [ion binding]; metal-binding site 170187003373 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 170187003374 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 170187003375 Walker A/P-loop; other site 170187003376 ATP binding site [chemical binding]; other site 170187003377 Q-loop/lid; other site 170187003378 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 170187003379 ABC transporter signature motif; other site 170187003380 Walker B; other site 170187003381 D-loop; other site 170187003382 H-loop/switch region; other site 170187003383 Arginine repressor [Transcription]; Region: ArgR; COG1438 170187003384 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 170187003385 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 170187003386 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 170187003387 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 170187003388 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 170187003389 substrate binding pocket [chemical binding]; other site 170187003390 chain length determination region; other site 170187003391 active site lid residues [active] 170187003392 substrate-Mg2+ binding site; other site 170187003393 catalytic residues [active] 170187003394 aspartate-rich region 1; other site 170187003395 aspartate-rich region 2; other site 170187003396 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 170187003397 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 170187003398 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 170187003399 generic binding surface II; other site 170187003400 generic binding surface I; other site 170187003401 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 170187003402 Sugar specificity; other site 170187003403 Pyrimidine base specificity; other site 170187003404 ATP-binding site [chemical binding]; other site 170187003405 Enterocin A Immunity; Region: EntA_Immun; pfam08951 170187003406 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 170187003407 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 170187003408 RNA binding site [nucleotide binding]; other site 170187003409 active site 170187003410 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 170187003411 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 170187003412 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 170187003413 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 170187003414 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 170187003415 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 170187003416 active site 170187003417 catalytic site [active] 170187003418 DNA gyrase subunit A; Validated; Region: PRK05560 170187003419 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 170187003420 CAP-like domain; other site 170187003421 active site 170187003422 primary dimer interface [polypeptide binding]; other site 170187003423 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 170187003424 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 170187003425 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 170187003426 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 170187003427 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 170187003428 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 170187003429 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 170187003430 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 170187003431 tetramer (dimer of dimers) interface [polypeptide binding]; other site 170187003432 NAD binding site [chemical binding]; other site 170187003433 dimer interface [polypeptide binding]; other site 170187003434 substrate binding site [chemical binding]; other site 170187003435 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 170187003436 Protein of unknown function (DUF1151); Region: DUF1151; pfam06625 170187003437 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 170187003438 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 170187003439 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 170187003440 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 170187003441 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 170187003442 putative active site [active] 170187003443 heme pocket [chemical binding]; other site 170187003444 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 170187003445 dimer interface [polypeptide binding]; other site 170187003446 phosphorylation site [posttranslational modification] 170187003447 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 170187003448 ATP binding site [chemical binding]; other site 170187003449 Mg2+ binding site [ion binding]; other site 170187003450 G-X-G motif; other site 170187003451 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 170187003452 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 170187003453 active site 170187003454 phosphorylation site [posttranslational modification] 170187003455 intermolecular recognition site; other site 170187003456 dimerization interface [polypeptide binding]; other site 170187003457 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 170187003458 DNA binding site [nucleotide binding] 170187003459 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 170187003460 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 170187003461 minor groove reading motif; other site 170187003462 helix-hairpin-helix signature motif; other site 170187003463 substrate binding pocket [chemical binding]; other site 170187003464 active site 170187003465 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 170187003466 DNA binding and oxoG recognition site [nucleotide binding] 170187003467 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 170187003468 Potassium binding sites [ion binding]; other site 170187003469 Cesium cation binding sites [ion binding]; other site 170187003470 phosphopantothenate--cysteine ligase; Validated; Region: PRK06732 170187003471 phosphopantothenoylcysteine decarboxylase, streptococcal; Region: coaC_strep; TIGR02113 170187003472 Predicted membrane protein [Function unknown]; Region: COG4684 170187003473 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 170187003474 HTH domain; Region: HTH_11; pfam08279 170187003475 3H domain; Region: 3H; pfam02829 170187003476 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 170187003477 putative active site [active] 170187003478 nucleotide binding site [chemical binding]; other site 170187003479 nudix motif; other site 170187003480 putative metal binding site [ion binding]; other site 170187003481 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 170187003482 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 170187003483 Coenzyme A binding pocket [chemical binding]; other site 170187003484 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 170187003485 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 170187003486 excinuclease ABC subunit B; Provisional; Region: PRK05298 170187003487 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 170187003488 ATP binding site [chemical binding]; other site 170187003489 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 170187003490 nucleotide binding region [chemical binding]; other site 170187003491 ATP-binding site [chemical binding]; other site 170187003492 Ultra-violet resistance protein B; Region: UvrB; pfam12344 170187003493 UvrB/uvrC motif; Region: UVR; pfam02151 170187003494 CAAX protease self-immunity; Region: Abi; pfam02517 170187003495 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 170187003496 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 170187003497 substrate binding pocket [chemical binding]; other site 170187003498 membrane-bound complex binding site; other site 170187003499 hinge residues; other site 170187003500 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 170187003501 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 170187003502 substrate binding pocket [chemical binding]; other site 170187003503 membrane-bound complex binding site; other site 170187003504 hinge residues; other site 170187003505 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 170187003506 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187003507 dimer interface [polypeptide binding]; other site 170187003508 conserved gate region; other site 170187003509 putative PBP binding loops; other site 170187003510 ABC-ATPase subunit interface; other site 170187003511 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 170187003512 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 170187003513 Walker A/P-loop; other site 170187003514 ATP binding site [chemical binding]; other site 170187003515 Q-loop/lid; other site 170187003516 ABC transporter signature motif; other site 170187003517 Walker B; other site 170187003518 D-loop; other site 170187003519 H-loop/switch region; other site 170187003520 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 170187003521 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 170187003522 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 170187003523 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 170187003524 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 170187003525 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 170187003526 P loop; other site 170187003527 GTP binding site [chemical binding]; other site 170187003528 sugar phosphate phosphatase; Provisional; Region: PRK10513 170187003529 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 170187003530 active site 170187003531 motif I; other site 170187003532 motif II; other site 170187003533 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 170187003534 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 170187003535 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 170187003536 active site 170187003537 motif I; other site 170187003538 motif II; other site 170187003539 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 170187003540 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 170187003541 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 170187003542 Walker A/P-loop; other site 170187003543 ATP binding site [chemical binding]; other site 170187003544 Q-loop/lid; other site 170187003545 HemX; Region: HemX; cl19375 170187003546 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 170187003547 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 170187003548 ABC transporter signature motif; other site 170187003549 Walker B; other site 170187003550 D-loop; other site 170187003551 H-loop/switch region; other site 170187003552 ribonuclease III; Reviewed; Region: rnc; PRK00102 170187003553 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 170187003554 dimerization interface [polypeptide binding]; other site 170187003555 active site 170187003556 metal binding site [ion binding]; metal-binding site 170187003557 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 170187003558 dsRNA binding site [nucleotide binding]; other site 170187003559 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 170187003560 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 170187003561 active site 170187003562 McrBC 5-methylcytosine restriction system component [Defense mechanisms]; Region: McrC; COG4268 170187003563 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 170187003564 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 170187003565 Walker A motif; other site 170187003566 ATP binding site [chemical binding]; other site 170187003567 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl18944 170187003568 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 170187003569 hypothetical protein; Provisional; Region: PRK14812 170187003570 Predicted membrane protein [Function unknown]; Region: COG3326 170187003571 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 170187003572 metal binding site [ion binding]; metal-binding site 170187003573 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 170187003574 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 170187003575 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 170187003576 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 170187003577 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 170187003578 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 170187003579 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 170187003580 Transposase; Region: DDE_Tnp_ISL3; pfam01610 170187003581 DNA topoisomerase I; Validated; Region: PRK05582 170187003582 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 170187003583 active site 170187003584 interdomain interaction site; other site 170187003585 putative metal-binding site [ion binding]; other site 170187003586 nucleotide binding site [chemical binding]; other site 170187003587 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 170187003588 domain I; other site 170187003589 DNA binding groove [nucleotide binding] 170187003590 phosphate binding site [ion binding]; other site 170187003591 domain II; other site 170187003592 domain III; other site 170187003593 nucleotide binding site [chemical binding]; other site 170187003594 catalytic site [active] 170187003595 domain IV; other site 170187003596 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 170187003597 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 170187003598 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 170187003599 Predicted membrane protein [Function unknown]; Region: COG1808 170187003600 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 170187003601 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 170187003602 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 170187003603 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 170187003604 active site 170187003605 metal-binding site 170187003606 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 170187003607 Phosphotransferase enzyme family; Region: APH; pfam01636 170187003608 Choline Kinase (ChoK). The ChoK 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), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 170187003609 active site 170187003610 substrate binding site [chemical binding]; other site 170187003611 ATP binding site [chemical binding]; other site 170187003612 dimer interface [polypeptide binding]; other site 170187003613 ribitol-5-phosphate dehydrogenase; Region: ribitol-5-phosphate_DH; cd08237 170187003614 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 170187003615 putative NAD(P) binding site [chemical binding]; other site 170187003616 putative catalytic Zn binding site [ion binding]; other site 170187003617 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 170187003618 substrate binding site; other site 170187003619 dimer interface; other site 170187003620 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 170187003621 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 170187003622 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 170187003623 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 170187003624 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 170187003625 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 170187003626 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 170187003627 Carbamoyl-phosphate synthetase large chain, oligomerization domain; Region: CPSase_L_D3; pfam02787 170187003628 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 170187003629 ATP-grasp domain; Region: ATP-grasp_4; cl17255 170187003630 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 170187003631 IMP binding site; other site 170187003632 dimer interface [polypeptide binding]; other site 170187003633 interdomain contacts; other site 170187003634 partial ornithine binding site; other site 170187003635 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 170187003636 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 170187003637 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 170187003638 catalytic site [active] 170187003639 subunit interface [polypeptide binding]; other site 170187003640 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 170187003641 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 170187003642 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 170187003643 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 170187003644 active site 170187003645 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 170187003646 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 170187003647 minor groove reading motif; other site 170187003648 helix-hairpin-helix signature motif; other site 170187003649 substrate binding pocket [chemical binding]; other site 170187003650 active site 170187003651 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 170187003652 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 170187003653 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 170187003654 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 170187003655 heat shock protein HtpX; Provisional; Region: PRK04897 170187003656 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 170187003657 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 170187003658 Methyltransferase domain; Region: Methyltransf_31; pfam13847 170187003659 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 170187003660 S-adenosylmethionine binding site [chemical binding]; other site 170187003661 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 170187003662 Sulfate transporter family; Region: Sulfate_transp; cl19250 170187003663 signal recognition particle protein; Provisional; Region: PRK10867 170187003664 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 170187003665 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 170187003666 P loop; other site 170187003667 GTP binding site [chemical binding]; other site 170187003668 Signal peptide binding domain; Region: SRP_SPB; pfam02978 170187003669 Forkhead N-terminal region; Region: Fork_head_N; pfam08430 170187003670 putative DNA-binding protein; Validated; Region: PRK00118 170187003671 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 170187003672 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 170187003673 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 170187003674 Zn2+ binding site [ion binding]; other site 170187003675 Mg2+ binding site [ion binding]; other site 170187003676 sugar phosphate phosphatase; Provisional; Region: PRK10513 170187003677 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 170187003678 active site 170187003679 motif I; other site 170187003680 motif II; other site 170187003681 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 170187003682 SAP domain; Region: SAP; pfam02037 170187003683 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 170187003684 camphor resistance protein CrcB; Provisional; Region: PRK14229 170187003685 camphor resistance protein CrcB; Provisional; Region: PRK14221 170187003686 hypothetical protein; Provisional; Region: PRK07248 170187003687 flavodoxin; Validated; Region: PRK07308 170187003688 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 170187003689 DHH family; Region: DHH; pfam01368 170187003690 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 170187003691 Winged helix-turn helix; Region: HTH_29; pfam13551 170187003692 Homeodomain-like domain; Region: HTH_23; pfam13384 170187003693 Homeodomain-like domain; Region: HTH_32; pfam13565 170187003694 glutamate dehydrogenase; Provisional; Region: PRK09414 170187003695 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 170187003696 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 170187003697 NAD(P) binding site [chemical binding]; other site 170187003698 Helix-turn-helix of DDE superfamily endonuclease; Region: HTH_Tnp_4; pfam13613 170187003699 V-type ATP synthase subunit D; Reviewed; Region: PRK00373 170187003700 V-type ATP synthase subunit B; Provisional; Region: PRK04196 170187003701 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 170187003702 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 170187003703 Walker A motif homologous position; other site 170187003704 Walker B motif; other site 170187003705 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 170187003706 V-type ATP synthase subunit A; Provisional; Region: PRK04192 170187003707 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 170187003708 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 170187003709 Walker A motif/ATP binding site; other site 170187003710 Walker B motif; other site 170187003711 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 170187003712 V-type ATP synthase subunit F; Provisional; Region: PRK01395 170187003713 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 170187003714 ATP synthase (C/AC39) subunit; Region: vATP-synt_AC39; cl00660 170187003715 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 170187003716 V-type ATP synthase subunit K; Validated; Region: PRK06558 170187003717 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 170187003718 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 170187003719 Archaeal/vacuolar-type H+-ATPase subunit I [Energy production and conversion]; Region: NtpI; COG1269 170187003720 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 170187003721 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 170187003722 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 170187003723 nucleotide binding site [chemical binding]; other site 170187003724 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 170187003725 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 170187003726 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 170187003727 Neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: NanH; COG4409 170187003728 Pentraxins are plasma proteins characterized by their pentameric discoid assembly and their Ca2+ dependent ligand binding, such as Serum amyloid P component (SAP) and C-reactive Protein (CRP), which are cytokine-inducible acute-phase proteins implicated...; Region: PTX; cl00102 170187003729 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 170187003730 catalytic site [active] 170187003731 Asp-box motif; other site 170187003732 Domain of unknown function (DUF386); Region: DUF386; pfam04074 170187003733 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 170187003734 Na binding site [ion binding]; other site 170187003735 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 170187003736 inhibitor site; inhibition site 170187003737 active site 170187003738 dimer interface [polypeptide binding]; other site 170187003739 catalytic residue [active] 170187003740 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 170187003741 putative active site cavity [active] 170187003742 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 170187003743 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 170187003744 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 170187003745 putative active site [active] 170187003746 CAAX protease self-immunity; Region: Abi; pfam02517 170187003747 Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]; Region: ArsC; COG1393 170187003748 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 170187003749 cofactor binding site; other site 170187003750 DNA binding site [nucleotide binding] 170187003751 substrate interaction site [chemical binding]; other site 170187003752 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 170187003753 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 170187003754 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 170187003755 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 170187003756 Walker A/P-loop; other site 170187003757 ATP binding site [chemical binding]; other site 170187003758 Q-loop/lid; other site 170187003759 ABC transporter signature motif; other site 170187003760 Walker B; other site 170187003761 D-loop; other site 170187003762 H-loop/switch region; other site 170187003763 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 170187003764 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 170187003765 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 170187003766 Walker A/P-loop; other site 170187003767 ATP binding site [chemical binding]; other site 170187003768 Q-loop/lid; other site 170187003769 ABC transporter signature motif; other site 170187003770 Walker B; other site 170187003771 D-loop; other site 170187003772 H-loop/switch region; other site 170187003773 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 170187003774 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 170187003775 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 170187003776 active site 170187003777 ATP binding site [chemical binding]; other site 170187003778 Lanthionine synthetase C-like domain associated with serine threonine kinases. Some members of this subgroup lack the zinc binding site and the active site residues, and therefore are most likely inactive. The function of this domain is unknown; Region: LanC_SerThrkinase; cd04791 170187003779 active site 170187003780 zinc binding site [ion binding]; other site 170187003781 CAAX protease self-immunity; Region: Abi; pfam02517 170187003782 Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]; Region: ArsC; COG1393 170187003783 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 170187003784 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 170187003785 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 170187003786 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 170187003787 core dimer interface [polypeptide binding]; other site 170187003788 peripheral dimer interface [polypeptide binding]; other site 170187003789 L10 interface [polypeptide binding]; other site 170187003790 L11 interface [polypeptide binding]; other site 170187003791 putative EF-Tu interaction site [polypeptide binding]; other site 170187003792 putative EF-G interaction site [polypeptide binding]; other site 170187003793 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 170187003794 23S rRNA interface [nucleotide binding]; other site 170187003795 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 170187003796 chlorohydrolase; Validated; Region: PRK06687 170187003797 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 170187003798 active site 170187003799 putative substrate binding pocket [chemical binding]; other site 170187003800 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 170187003801 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 170187003802 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 170187003803 Walker A/P-loop; other site 170187003804 ATP binding site [chemical binding]; other site 170187003805 Q-loop/lid; other site 170187003806 ABC transporter signature motif; other site 170187003807 Walker B; other site 170187003808 D-loop; other site 170187003809 H-loop/switch region; other site 170187003810 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 170187003811 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 170187003812 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187003813 Walker A/P-loop; other site 170187003814 ATP binding site [chemical binding]; other site 170187003815 Q-loop/lid; other site 170187003816 ABC transporter signature motif; other site 170187003817 Walker B; other site 170187003818 D-loop; other site 170187003819 H-loop/switch region; other site 170187003820 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 170187003821 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 170187003822 homoserine kinase; Provisional; Region: PRK01212 170187003823 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 170187003824 homoserine dehydrogenase; Provisional; Region: PRK06349 170187003825 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 170187003826 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 170187003827 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 170187003828 adaptor protein; Provisional; Region: PRK02315 170187003829 O-antigen polysaccharide polymerase Wzy; Region: O-ag_pol_Wzy; pfam14296 170187003830 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 170187003831 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 170187003832 active site 170187003833 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 170187003834 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 170187003835 putative ADP-binding pocket [chemical binding]; other site 170187003836 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 170187003837 Transcriptional regulator [Transcription]; Region: LytR; COG1316 170187003838 prephenate dehydratase; Provisional; Region: PRK11898 170187003839 Prephenate dehydratase; Region: PDT; pfam00800 170187003840 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 170187003841 putative L-Phe binding site [chemical binding]; other site 170187003842 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 170187003843 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 170187003844 ADP binding site [chemical binding]; other site 170187003845 magnesium binding site [ion binding]; other site 170187003846 putative shikimate binding site; other site 170187003847 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 170187003848 Enol pyruvate transferases family includes EPSP synthases and UDP-N-acetylglucosamine enolpyruvyl transferase. Both enzymes catalyze the reaction of enolpyruvyl transfer; Region: EPT-like; cd01554 170187003849 hinge; other site 170187003850 active site 170187003851 hypothetical protein; Provisional; Region: PRK13676 170187003852 prephenate dehydrogenase; Validated; Region: PRK06545 170187003853 prephenate dehydrogenase; Validated; Region: PRK08507 170187003854 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 170187003855 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 170187003856 Tetramer interface [polypeptide binding]; other site 170187003857 active site 170187003858 FMN-binding site [chemical binding]; other site 170187003859 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 170187003860 active site 170187003861 dimer interface [polypeptide binding]; other site 170187003862 metal binding site [ion binding]; metal-binding site 170187003863 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 170187003864 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 170187003865 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 170187003866 shikimate binding site; other site 170187003867 NAD(P) binding site [chemical binding]; other site 170187003868 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 170187003869 active site 170187003870 catalytic residue [active] 170187003871 dimer interface [polypeptide binding]; other site 170187003872 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 170187003873 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 170187003874 putative RNA binding site [nucleotide binding]; other site 170187003875 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 170187003876 S-adenosylmethionine binding site [chemical binding]; other site 170187003877 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 170187003878 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 170187003879 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 170187003880 Walker A/P-loop; other site 170187003881 ATP binding site [chemical binding]; other site 170187003882 Q-loop/lid; other site 170187003883 ABC transporter signature motif; other site 170187003884 Walker B; other site 170187003885 D-loop; other site 170187003886 H-loop/switch region; other site 170187003887 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 170187003888 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 170187003889 active site 170187003890 Na/Ca binding site [ion binding]; other site 170187003891 catalytic site [active] 170187003892 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 170187003893 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 170187003894 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 170187003895 motif 1; other site 170187003896 active site 170187003897 motif 2; other site 170187003898 motif 3; other site 170187003899 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 170187003900 DHHA1 domain; Region: DHHA1; pfam02272 170187003901 Uncharacterized conserved protein [Function unknown]; Region: COG4894 170187003902 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 170187003903 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 170187003904 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187003905 dimer interface [polypeptide binding]; other site 170187003906 conserved gate region; other site 170187003907 putative PBP binding loops; other site 170187003908 ABC-ATPase subunit interface; other site 170187003909 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187003910 dimer interface [polypeptide binding]; other site 170187003911 conserved gate region; other site 170187003912 putative PBP binding loops; other site 170187003913 ABC-ATPase subunit interface; other site 170187003914 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 170187003915 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187003916 Walker A/P-loop; other site 170187003917 ATP binding site [chemical binding]; other site 170187003918 Q-loop/lid; other site 170187003919 ABC transporter signature motif; other site 170187003920 Walker B; other site 170187003921 D-loop; other site 170187003922 H-loop/switch region; other site 170187003923 TOBE domain; Region: TOBE_2; pfam08402 170187003924 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 170187003925 FAD binding domain; Region: FAD_binding_4; pfam01565 170187003926 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 170187003927 Predicted membrane protein [Function unknown]; Region: COG4377 170187003928 Alpha-acetolactate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AlsD; COG3527 170187003929 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 170187003930 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 170187003931 DNA-binding site [nucleotide binding]; DNA binding site 170187003932 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 170187003933 pyridoxal 5'-phosphate binding site [chemical binding]; other site 170187003934 homodimer interface [polypeptide binding]; other site 170187003935 catalytic residue [active] 170187003936 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 170187003937 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 170187003938 substrate binding pocket [chemical binding]; other site 170187003939 membrane-bound complex binding site; other site 170187003940 hinge residues; other site 170187003941 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 170187003942 PhoU domain; Region: PhoU; pfam01895 170187003943 PhoU domain; Region: PhoU; pfam01895 170187003944 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 170187003945 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 170187003946 Walker A/P-loop; other site 170187003947 ATP binding site [chemical binding]; other site 170187003948 Q-loop/lid; other site 170187003949 ABC transporter signature motif; other site 170187003950 Walker B; other site 170187003951 D-loop; other site 170187003952 H-loop/switch region; other site 170187003953 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 170187003954 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 170187003955 Walker A/P-loop; other site 170187003956 ATP binding site [chemical binding]; other site 170187003957 Q-loop/lid; other site 170187003958 ABC transporter signature motif; other site 170187003959 Walker B; other site 170187003960 D-loop; other site 170187003961 H-loop/switch region; other site 170187003962 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 170187003963 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187003964 dimer interface [polypeptide binding]; other site 170187003965 conserved gate region; other site 170187003966 putative PBP binding loops; other site 170187003967 ABC-ATPase subunit interface; other site 170187003968 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 170187003969 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187003970 dimer interface [polypeptide binding]; other site 170187003971 conserved gate region; other site 170187003972 putative PBP binding loops; other site 170187003973 ABC-ATPase subunit interface; other site 170187003974 phosphate binding protein; Region: ptsS_2; TIGR02136 170187003975 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 170187003976 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 170187003977 S-adenosylmethionine binding site [chemical binding]; other site 170187003978 Uncharacterized conserved protein [Function unknown]; Region: COG3270 170187003979 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 170187003980 active site 170187003981 hypothetical protein; Provisional; Region: PRK04387 170187003982 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 170187003983 putative catalytic residues [active] 170187003984 thiol/disulfide switch; other site 170187003985 Predicted membrane protein [Function unknown]; Region: COG4478 170187003986 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 170187003987 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 170187003988 active site 170187003989 motif I; other site 170187003990 motif II; other site 170187003991 Acyl-ACP thioesterase [Lipid metabolism]; Region: FatA; COG3884 170187003992 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 170187003993 active site 170187003994 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 170187003995 active site 170187003996 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 170187003997 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 170187003998 FeS/SAM binding site; other site 170187003999 HemN C-terminal domain; Region: HemN_C; pfam06969 170187004000 YtxH-like protein; Region: YtxH; pfam12732 170187004001 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 170187004002 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 170187004003 HPr kinase/phosphorylase; Provisional; Region: PRK05428 170187004004 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 170187004005 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 170187004006 Hpr binding site; other site 170187004007 active site 170187004008 homohexamer subunit interaction site [polypeptide binding]; other site 170187004009 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 170187004010 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 170187004011 active site 170187004012 trimer interface [polypeptide binding]; other site 170187004013 allosteric site; other site 170187004014 active site lid [active] 170187004015 hexamer (dimer of trimers) interface [polypeptide binding]; other site 170187004016 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 170187004017 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 170187004018 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 170187004019 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 170187004020 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 170187004021 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 170187004022 homodimer interface [polypeptide binding]; other site 170187004023 NAD binding pocket [chemical binding]; other site 170187004024 ATP binding pocket [chemical binding]; other site 170187004025 Mg binding site [ion binding]; other site 170187004026 active-site loop [active] 170187004027 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 170187004028 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 170187004029 active site 170187004030 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 170187004031 non-specific DNA binding site [nucleotide binding]; other site 170187004032 salt bridge; other site 170187004033 sequence-specific DNA binding site [nucleotide binding]; other site 170187004034 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 170187004035 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 170187004036 Walker A/P-loop; other site 170187004037 ATP binding site [chemical binding]; other site 170187004038 Q-loop/lid; other site 170187004039 ABC transporter signature motif; other site 170187004040 Walker B; other site 170187004041 D-loop; other site 170187004042 H-loop/switch region; other site 170187004043 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 170187004044 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 170187004045 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 170187004046 putative protease; Provisional; Region: PRK15452 170187004047 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 170187004048 DNA methylase; Region: N6_N4_Mtase; pfam01555 170187004049 Helix-turn-helix domain; Region: HTH_18; pfam12833 170187004050 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 170187004051 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 170187004052 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187004053 Walker A/P-loop; other site 170187004054 ATP binding site [chemical binding]; other site 170187004055 Q-loop/lid; other site 170187004056 ABC transporter signature motif; other site 170187004057 Walker B; other site 170187004058 D-loop; other site 170187004059 H-loop/switch region; other site 170187004060 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 170187004061 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187004062 Walker A/P-loop; other site 170187004063 ATP binding site [chemical binding]; other site 170187004064 Q-loop/lid; other site 170187004065 ABC transporter signature motif; other site 170187004066 Walker B; other site 170187004067 D-loop; other site 170187004068 H-loop/switch region; other site 170187004069 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 170187004070 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 170187004071 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 170187004072 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 170187004073 Walker A/P-loop; other site 170187004074 ATP binding site [chemical binding]; other site 170187004075 Q-loop/lid; other site 170187004076 ABC transporter signature motif; other site 170187004077 Walker B; other site 170187004078 D-loop; other site 170187004079 H-loop/switch region; other site 170187004080 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187004081 Walker A/P-loop; other site 170187004082 ATP binding site [chemical binding]; other site 170187004083 Q-loop/lid; other site 170187004084 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 170187004085 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 170187004086 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 170187004087 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 170187004088 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 170187004089 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 170187004090 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 170187004091 Transposase; Region: DDE_Tnp_ISL3; pfam01610 170187004092 GMP synthase; Reviewed; Region: guaA; PRK00074 170187004093 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 170187004094 AMP/PPi binding site [chemical binding]; other site 170187004095 candidate oxyanion hole; other site 170187004096 catalytic triad [active] 170187004097 potential glutamine specificity residues [chemical binding]; other site 170187004098 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 170187004099 ATP Binding subdomain [chemical binding]; other site 170187004100 Ligand Binding sites [chemical binding]; other site 170187004101 Dimerization subdomain; other site 170187004102 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 170187004103 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 170187004104 DNA-binding site [nucleotide binding]; DNA binding site 170187004105 UTRA domain; Region: UTRA; pfam07702 170187004106 EamA-like transporter family; Region: EamA; pfam00892 170187004107 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 170187004108 EamA-like transporter family; Region: EamA; pfam00892 170187004109 Beta-lactamase; Region: Beta-lactamase; pfam00144 170187004110 CppA N-terminal; Region: CppA_N; pfam14506 170187004111 CppA C-terminal; Region: CppA_C; pfam14507 170187004112 NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: NnaC_like; cd01841 170187004113 active site 170187004114 catalytic triad [active] 170187004115 oxyanion hole [active] 170187004116 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 170187004117 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 170187004118 active site 170187004119 motif I; other site 170187004120 motif II; other site 170187004121 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 170187004122 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 170187004123 putative active site [active] 170187004124 putative metal binding site [ion binding]; other site 170187004125 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 170187004126 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 170187004127 active site 170187004128 catalytic residues [active] 170187004129 metal binding site [ion binding]; metal-binding site 170187004130 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 170187004131 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 170187004132 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 170187004133 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 170187004134 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 170187004135 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 170187004136 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 170187004137 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 170187004138 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 170187004139 Walker A/P-loop; other site 170187004140 ATP binding site [chemical binding]; other site 170187004141 Q-loop/lid; other site 170187004142 ABC transporter signature motif; other site 170187004143 Walker B; other site 170187004144 D-loop; other site 170187004145 H-loop/switch region; other site 170187004146 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 170187004147 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187004148 dimer interface [polypeptide binding]; other site 170187004149 conserved gate region; other site 170187004150 putative PBP binding loops; other site 170187004151 ABC-ATPase subunit interface; other site 170187004152 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 170187004153 putative ArsC-like catalytic residues; other site 170187004154 putative TRX-like catalytic residues [active] 170187004155 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 170187004156 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 170187004157 DNA binding site [nucleotide binding] 170187004158 active site 170187004159 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 170187004160 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 170187004161 Coenzyme A binding pocket [chemical binding]; other site 170187004162 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 170187004163 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 170187004164 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 170187004165 predicted active site [active] 170187004166 catalytic triad [active] 170187004167 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 170187004168 active site 170187004169 multimer interface [polypeptide binding]; other site 170187004170 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 170187004171 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 170187004172 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 170187004173 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 170187004174 Predicted flavoprotein [General function prediction only]; Region: COG0431 170187004175 Predicted flavoprotein [General function prediction only]; Region: COG0431 170187004176 PAS domain; Region: PAS_10; pfam13596 170187004177 hypothetical protein; Provisional; Region: PRK02539 170187004178 Glycyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]; Region: GlyS; COG0751 170187004179 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 170187004180 DALR anticodon binding domain; Region: DALR_1; pfam05746 170187004181 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 170187004182 dimer interface [polypeptide binding]; other site 170187004183 motif 1; other site 170187004184 active site 170187004185 motif 2; other site 170187004186 motif 3; other site 170187004187 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 170187004188 active site 170187004189 catalytic tetrad [active] 170187004190 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 170187004191 Catalytic NodB homology domain of Streptococcus pneumoniae peptidoglycan deacetylase PgdA, Bacillus subtilis BsYjeA protein, and their bacterial homologs; Region: CE4_SpPgdA_BsYjeA_like; cd10947 170187004192 NodB motif; other site 170187004193 active site 170187004194 catalytic site [active] 170187004195 Zn binding site [ion binding]; other site 170187004196 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 170187004197 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 170187004198 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 170187004199 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 170187004200 DEAD-like helicases superfamily; Region: DEXDc; smart00487 170187004201 ATP binding site [chemical binding]; other site 170187004202 putative Mg++ binding site [ion binding]; other site 170187004203 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 170187004204 nucleotide binding region [chemical binding]; other site 170187004205 ATP-binding site [chemical binding]; other site 170187004206 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 170187004207 HTH-like domain; Region: HTH_21; pfam13276 170187004208 Integrase core domain; Region: rve; pfam00665 170187004209 Integrase core domain; Region: rve_2; pfam13333 170187004210 Winged helix-turn helix; Region: HTH_29; pfam13551 170187004211 Winged helix-turn helix; Region: HTH_33; pfam13592 170187004212 elongation factor Tu; Reviewed; Region: PRK00049 170187004213 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 170187004214 G1 box; other site 170187004215 GEF interaction site [polypeptide binding]; other site 170187004216 GTP/Mg2+ binding site [chemical binding]; other site 170187004217 Switch I region; other site 170187004218 G2 box; other site 170187004219 G3 box; other site 170187004220 Switch II region; other site 170187004221 G4 box; other site 170187004222 G5 box; other site 170187004223 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 170187004224 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 170187004225 Antibiotic Binding Site [chemical binding]; other site 170187004226 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 170187004227 amphipathic channel; other site 170187004228 Asn-Pro-Ala signature motifs; other site 170187004229 MucBP domain; Region: MucBP; pfam06458 170187004230 WTX protein; Region: WTX; pfam09422 170187004231 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 170187004232 DDE superfamily endonuclease; Region: DDE_3; pfam13358 170187004233 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 170187004234 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 170187004235 active site 170187004236 substrate binding site [chemical binding]; other site 170187004237 metal binding site [ion binding]; metal-binding site 170187004238 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 170187004239 catalytic residues [active] 170187004240 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 170187004241 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 170187004242 substrate binding pocket [chemical binding]; other site 170187004243 membrane-bound complex binding site; other site 170187004244 hinge residues; other site 170187004245 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 170187004246 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187004247 Walker A/P-loop; other site 170187004248 ATP binding site [chemical binding]; other site 170187004249 Q-loop/lid; other site 170187004250 ABC transporter signature motif; other site 170187004251 Walker B; other site 170187004252 D-loop; other site 170187004253 H-loop/switch region; other site 170187004254 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 170187004255 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187004256 dimer interface [polypeptide binding]; other site 170187004257 conserved gate region; other site 170187004258 putative PBP binding loops; other site 170187004259 ABC-ATPase subunit interface; other site 170187004260 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 170187004261 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 170187004262 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 170187004263 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 170187004264 TPR motif; other site 170187004265 binding surface 170187004266 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 170187004267 binding surface 170187004268 TPR motif; other site 170187004269 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 170187004270 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 170187004271 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 170187004272 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 170187004273 gamma subunit interface [polypeptide binding]; other site 170187004274 epsilon subunit interface [polypeptide binding]; other site 170187004275 LBP interface [polypeptide binding]; other site 170187004276 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 170187004277 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 170187004278 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 170187004279 alpha subunit interaction interface [polypeptide binding]; other site 170187004280 Walker A motif; other site 170187004281 ATP binding site [chemical binding]; other site 170187004282 Walker B motif; other site 170187004283 inhibitor binding site; inhibition site 170187004284 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 170187004285 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 170187004286 core domain interface [polypeptide binding]; other site 170187004287 delta subunit interface [polypeptide binding]; other site 170187004288 epsilon subunit interface [polypeptide binding]; other site 170187004289 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 170187004290 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 170187004291 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 170187004292 beta subunit interaction interface [polypeptide binding]; other site 170187004293 Walker A motif; other site 170187004294 ATP binding site [chemical binding]; other site 170187004295 Walker B motif; other site 170187004296 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 170187004297 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 170187004298 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 170187004299 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 170187004300 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 170187004301 F0F1 ATP synthase subunit C; Provisional; Region: PRK13467 170187004302 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 170187004303 Coenzyme A binding pocket [chemical binding]; other site 170187004304 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 170187004305 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 170187004306 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 170187004307 Mid-1-related chloride channel (MCLC); Region: MCLC; pfam05934 170187004308 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 170187004309 dimerization interface [polypeptide binding]; other site 170187004310 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 170187004311 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 170187004312 Coenzyme A binding pocket [chemical binding]; other site 170187004313 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 170187004314 Coenzyme A binding pocket [chemical binding]; other site 170187004315 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 170187004316 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 170187004317 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 170187004318 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 170187004319 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 170187004320 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 170187004321 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 170187004322 ATP binding site [chemical binding]; other site 170187004323 putative Mg++ binding site [ion binding]; other site 170187004324 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 170187004325 nucleotide binding region [chemical binding]; other site 170187004326 ATP-binding site [chemical binding]; other site 170187004327 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 170187004328 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 170187004329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 170187004330 homodimer interface [polypeptide binding]; other site 170187004331 catalytic residue [active] 170187004332 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 170187004333 homodimer interface [polypeptide binding]; other site 170187004334 substrate-cofactor binding pocket; other site 170187004335 pyridoxal 5'-phosphate binding site [chemical binding]; other site 170187004336 catalytic residue [active] 170187004337 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 170187004338 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 170187004339 peptide binding site [polypeptide binding]; other site 170187004340 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 170187004341 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 170187004342 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 170187004343 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 170187004344 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 170187004345 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 170187004346 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 170187004347 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 170187004348 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 170187004349 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 170187004350 DHH family; Region: DHH; pfam01368 170187004351 DHHA2 domain; Region: DHHA2; pfam02833 170187004352 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 170187004353 GIY-YIG motif/motif A; other site 170187004354 putative active site [active] 170187004355 putative metal binding site [ion binding]; other site 170187004356 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 170187004357 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 170187004358 S-adenosylmethionine binding site [chemical binding]; other site 170187004359 hypothetical protein; Provisional; Region: PRK07252 170187004360 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 170187004361 RNA binding site [nucleotide binding]; other site 170187004362 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 170187004363 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 170187004364 active site 170187004365 motif I; other site 170187004366 motif II; other site 170187004367 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 170187004368 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 170187004369 active site 170187004370 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 170187004371 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 170187004372 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 170187004373 dimer interface [polypeptide binding]; other site 170187004374 ssDNA binding site [nucleotide binding]; other site 170187004375 tetramer (dimer of dimers) interface [polypeptide binding]; other site 170187004376 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 170187004377 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 170187004378 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 170187004379 putative dimer interface [polypeptide binding]; other site 170187004380 putative anticodon binding site; other site 170187004381 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 170187004382 homodimer interface [polypeptide binding]; other site 170187004383 motif 1; other site 170187004384 motif 2; other site 170187004385 active site 170187004386 motif 3; other site 170187004387 aspartate aminotransferase; Provisional; Region: PRK05764 170187004388 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 170187004389 pyridoxal 5'-phosphate binding site [chemical binding]; other site 170187004390 homodimer interface [polypeptide binding]; other site 170187004391 catalytic residue [active] 170187004392 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 170187004393 Predicted flavoprotein [General function prediction only]; Region: COG0431 170187004394 hypothetical protein; Validated; Region: PRK02101 170187004395 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 170187004396 active site 170187004397 catalytic residues [active] 170187004398 metal binding site [ion binding]; metal-binding site 170187004399 putative S-transferase; Provisional; Region: PRK11752 170187004400 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 170187004401 C-terminal domain interface [polypeptide binding]; other site 170187004402 GSH binding site (G-site) [chemical binding]; other site 170187004403 dimer interface [polypeptide binding]; other site 170187004404 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 170187004405 N-terminal domain interface [polypeptide binding]; other site 170187004406 dimer interface [polypeptide binding]; other site 170187004407 substrate binding pocket (H-site) [chemical binding]; other site 170187004408 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 170187004409 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 170187004410 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 170187004411 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 170187004412 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 170187004413 motif II; other site 170187004414 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 170187004415 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 170187004416 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 170187004417 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 170187004418 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 170187004419 ABC transporter; Region: ABC_tran_2; pfam12848 170187004420 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 170187004421 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 170187004422 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 170187004423 active site 170187004424 NTP binding site [chemical binding]; other site 170187004425 metal binding triad [ion binding]; metal-binding site 170187004426 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 170187004427 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 170187004428 dihydrodipicolinate reductase; Provisional; Region: PRK00048 170187004429 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 170187004430 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 170187004431 EDD domain protein, DegV family; Region: DegV; TIGR00762 170187004432 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4835 170187004433 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 170187004434 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 170187004435 active site 170187004436 substrate binding site [chemical binding]; other site 170187004437 metal binding site [ion binding]; metal-binding site 170187004438 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 170187004439 YbbR-like protein; Region: YbbR; pfam07949 170187004440 Uncharacterized conserved protein [Function unknown]; Region: COG1624 170187004441 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 170187004442 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 170187004443 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 170187004444 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 170187004445 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 170187004446 WhiA N-terminal LAGLIDADG-like domain; Region: WhiA_N; pfam10298 170187004447 WhiA LAGLIDADG-like domain; Region: LAGLIDADG_WhiA; pfam14527 170187004448 WhiA C-terminal HTH domain; Region: HTH_WhiA; pfam02650 170187004449 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 170187004450 phosphate binding site [ion binding]; other site 170187004451 dimer interface [polypeptide binding]; other site 170187004452 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 170187004453 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 170187004454 homotrimer interaction site [polypeptide binding]; other site 170187004455 putative active site [active] 170187004456 Predicted GTPase [General function prediction only]; Region: COG0218 170187004457 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 170187004458 G1 box; other site 170187004459 GTP/Mg2+ binding site [chemical binding]; other site 170187004460 Switch I region; other site 170187004461 G2 box; other site 170187004462 G3 box; other site 170187004463 Switch II region; other site 170187004464 G4 box; other site 170187004465 G5 box; other site 170187004466 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 170187004467 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 170187004468 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 170187004469 Walker A motif; other site 170187004470 ATP binding site [chemical binding]; other site 170187004471 Walker B motif; other site 170187004472 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 170187004473 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 170187004474 folate binding site [chemical binding]; other site 170187004475 NADP+ binding site [chemical binding]; other site 170187004476 Ferritin-like domain; Region: Ferritin; pfam00210 170187004477 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 170187004478 dimerization interface [polypeptide binding]; other site 170187004479 DPS ferroxidase diiron center [ion binding]; other site 170187004480 ion pore; other site 170187004481 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 170187004482 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 170187004483 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 170187004484 active site 170187004485 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 170187004486 substrate binding site [chemical binding]; other site 170187004487 dimer interface [polypeptide binding]; other site 170187004488 catalytic triad [active] 170187004489 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 170187004490 DnaD and phage-associated domain; Region: DnaD_dom; TIGR01446 170187004491 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 170187004492 proposed active site lysine [active] 170187004493 conserved cys residue [active] 170187004494 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 170187004495 active site 170187004496 Methyltransferase domain; Region: Methyltransf_31; pfam13847 170187004497 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 170187004498 S-adenosylmethionine binding site [chemical binding]; other site 170187004499 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 170187004500 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 170187004501 Walker A/P-loop; other site 170187004502 ATP binding site [chemical binding]; other site 170187004503 Q-loop/lid; other site 170187004504 ABC transporter signature motif; other site 170187004505 Walker B; other site 170187004506 D-loop; other site 170187004507 H-loop/switch region; other site 170187004508 TOBE domain; Region: TOBE_2; pfam08402 170187004509 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 170187004510 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 170187004511 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 170187004512 Transposase; Region: DDE_Tnp_ISL3; pfam01610 170187004513 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 170187004514 catalytic triad [active] 170187004515 conserved cis-peptide bond; other site 170187004516 Pleiotropic transcriptional repressor [Transcription]; Region: CodY; COG4465 170187004517 CodY GAF-like domain; Region: CodY; pfam06018 170187004518 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 170187004519 putative DNA binding site [nucleotide binding]; other site 170187004520 putative Zn2+ binding site [ion binding]; other site 170187004521 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 170187004522 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 170187004523 ATP binding site [chemical binding]; other site 170187004524 Mg++ binding site [ion binding]; other site 170187004525 motif III; other site 170187004526 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 170187004527 nucleotide binding region [chemical binding]; other site 170187004528 ATP-binding site [chemical binding]; other site 170187004529 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 170187004530 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 170187004531 putative substrate translocation pore; other site 170187004532 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 170187004533 Squalene epoxidase; Region: SE; cl17314 170187004534 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 170187004535 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 170187004536 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 170187004537 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 170187004538 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 170187004539 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 170187004540 catalytic triad [active] 170187004541 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 170187004542 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 170187004543 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 170187004544 active site 170187004545 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 170187004546 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 170187004547 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 170187004548 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 170187004549 Helix-turn-helix domain; Region: HTH_28; pfam13518 170187004550 Predicted membrane protein [Function unknown]; Region: COG4720 170187004551 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 170187004552 dimer interface [polypeptide binding]; other site 170187004553 substrate binding site [chemical binding]; other site 170187004554 ATP binding site [chemical binding]; other site 170187004555 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 170187004556 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 170187004557 dimerization interface 3.5A [polypeptide binding]; other site 170187004558 active site 170187004559 Major Facilitator Superfamily; Region: MFS_1; pfam07690 170187004560 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 170187004561 putative substrate translocation pore; other site 170187004562 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 170187004563 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 170187004564 PhnA protein; Region: PhnA; pfam03831 170187004565 cytidylate kinase; Provisional; Region: cmk; PRK00023 170187004566 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 170187004567 AAA domain; Region: AAA_17; cl19128 170187004568 CMP-binding site; other site 170187004569 The sites determining sugar specificity; other site 170187004570 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 170187004571 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 170187004572 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 170187004573 Ligand binding site; other site 170187004574 Putative Catalytic site; other site 170187004575 DXD motif; other site 170187004576 UDP-glucose 4-epimerase; Region: PLN02240 170187004577 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 170187004578 NAD binding site [chemical binding]; other site 170187004579 homodimer interface [polypeptide binding]; other site 170187004580 active site 170187004581 substrate binding site [chemical binding]; other site 170187004582 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 170187004583 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 170187004584 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 170187004585 Uncharacterized conserved protein [Function unknown]; Region: COG0327 170187004586 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 170187004587 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 170187004588 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 170187004589 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 170187004590 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 170187004591 TPP-binding site [chemical binding]; other site 170187004592 dimer interface [polypeptide binding]; other site 170187004593 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 170187004594 PYR/PP interface [polypeptide binding]; other site 170187004595 dimer interface [polypeptide binding]; other site 170187004596 TPP binding site [chemical binding]; other site 170187004597 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 170187004598 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 170187004599 substrate binding site [chemical binding]; other site 170187004600 hexamer interface [polypeptide binding]; other site 170187004601 metal binding site [ion binding]; metal-binding site 170187004602 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 170187004603 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 170187004604 active site 170187004605 P-loop; other site 170187004606 phosphorylation site [posttranslational modification] 170187004607 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 170187004608 active site 170187004609 phosphorylation site [posttranslational modification] 170187004610 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 170187004611 active site 170187004612 phosphorylation site [posttranslational modification] 170187004613 HTH domain; Region: HTH_11; pfam08279 170187004614 Mga helix-turn-helix domain; Region: Mga; pfam05043 170187004615 PRD domain; Region: PRD; pfam00874 170187004616 PRD domain; Region: PRD; pfam00874 170187004617 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 170187004618 active site 170187004619 P-loop; other site 170187004620 phosphorylation site [posttranslational modification] 170187004621 Transposase IS200 like; Region: Y1_Tnp; pfam01797 170187004622 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 170187004623 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 170187004624 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 170187004625 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 170187004626 motif II; other site 170187004627 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 170187004628 putative acyl-acceptor binding pocket; other site 170187004629 Cadmium resistance transporter; Region: Cad; pfam03596 170187004630 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 170187004631 16S/18S rRNA binding site [nucleotide binding]; other site 170187004632 S13e-L30e interaction site [polypeptide binding]; other site 170187004633 25S rRNA binding site [nucleotide binding]; other site 170187004634 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 170187004635 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 170187004636 NAD binding site [chemical binding]; other site 170187004637 substrate binding site [chemical binding]; other site 170187004638 putative active site [active] 170187004639 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 170187004640 metal binding site [ion binding]; metal-binding site 170187004641 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 170187004642 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 170187004643 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 170187004644 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 170187004645 active site 170187004646 dimer interface [polypeptide binding]; other site 170187004647 motif 1; other site 170187004648 motif 2; other site 170187004649 motif 3; other site 170187004650 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 170187004651 anticodon binding site; other site 170187004652 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 170187004653 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 170187004654 ATP binding site [chemical binding]; other site 170187004655 Mg2+ binding site [ion binding]; other site 170187004656 G-X-G motif; other site 170187004657 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 170187004658 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 170187004659 active site 170187004660 phosphorylation site [posttranslational modification] 170187004661 intermolecular recognition site; other site 170187004662 dimerization interface [polypeptide binding]; other site 170187004663 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 170187004664 DNA binding site [nucleotide binding] 170187004665 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 170187004666 Predicted transcriptional regulator [Transcription]; Region: COG1959 170187004667 Rrf2 family protein; Region: rrf2_super; TIGR00738 170187004668 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 170187004669 active site 170187004670 metal binding site [ion binding]; metal-binding site 170187004671 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 170187004672 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 170187004673 Iron dependent repressor, metal binding and dimerization domain; Region: Fe_dep_repr_C; pfam02742 170187004674 FeoA domain; Region: FeoA; pfam04023 170187004675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 170187004676 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 170187004677 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 170187004678 Transposase; Region: DDE_Tnp_ISL3; pfam01610 170187004679 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 170187004680 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 170187004681 putative active site [active] 170187004682 dimerization interface [polypeptide binding]; other site 170187004683 putative tRNAtyr binding site [nucleotide binding]; other site 170187004684 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 170187004685 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 170187004686 Zn2+ binding site [ion binding]; other site 170187004687 Mg2+ binding site [ion binding]; other site 170187004688 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 170187004689 synthetase active site [active] 170187004690 NTP binding site [chemical binding]; other site 170187004691 metal binding site [ion binding]; metal-binding site 170187004692 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 170187004693 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 170187004694 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 170187004695 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 170187004696 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 170187004697 active site 170187004698 Zn binding site [ion binding]; other site 170187004699 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 170187004700 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 170187004701 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 170187004702 ABC-ATPase subunit interface; other site 170187004703 dimer interface [polypeptide binding]; other site 170187004704 putative PBP binding regions; other site 170187004705 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 170187004706 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 170187004707 metal binding site [ion binding]; metal-binding site 170187004708 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 170187004709 dimer interface [polypeptide binding]; other site 170187004710 catalytic triad [active] 170187004711 peroxidatic and resolving cysteines [active] 170187004712 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 170187004713 FtsX-like permease family; Region: FtsX; pfam02687 170187004714 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 170187004715 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 170187004716 FtsX-like permease family; Region: FtsX; pfam02687 170187004717 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 170187004718 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 170187004719 Walker A/P-loop; other site 170187004720 ATP binding site [chemical binding]; other site 170187004721 Q-loop/lid; other site 170187004722 ABC transporter signature motif; other site 170187004723 Walker B; other site 170187004724 D-loop; other site 170187004725 H-loop/switch region; other site 170187004726 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hyd_65N_2; pfam14498 170187004727 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 170187004728 catalytic core [active] 170187004729 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 170187004730 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 170187004731 active site 170187004732 HIGH motif; other site 170187004733 KMSKS motif; other site 170187004734 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 170187004735 tRNA binding surface [nucleotide binding]; other site 170187004736 anticodon binding site; other site 170187004737 DivIVA protein; Region: DivIVA; pfam05103 170187004738 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 170187004739 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 170187004740 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 170187004741 RNA binding surface [nucleotide binding]; other site 170187004742 YGGT family; Region: YGGT; pfam02325 170187004743 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 170187004744 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 170187004745 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 170187004746 catalytic residue [active] 170187004747 cell division protein FtsZ; Validated; Region: PRK09330 170187004748 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 170187004749 nucleotide binding site [chemical binding]; other site 170187004750 SulA interaction site; other site 170187004751 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 170187004752 Cell division protein FtsA; Region: FtsA; smart00842 170187004753 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 170187004754 nucleotide binding site [chemical binding]; other site 170187004755 Cell division protein FtsA; Region: FtsA; pfam14450 170187004756 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 170187004757 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 170187004758 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 170187004759 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_14; cd04672 170187004760 nudix motif; other site 170187004761 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 170187004762 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 170187004763 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 170187004764 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 170187004765 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 170187004766 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 170187004767 recombination protein RecR; Reviewed; Region: recR; PRK00076 170187004768 RecR protein; Region: RecR; pfam02132 170187004769 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 170187004770 putative active site [active] 170187004771 putative metal-binding site [ion binding]; other site 170187004772 tetramer interface [polypeptide binding]; other site 170187004773 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 170187004774 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 170187004775 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 170187004776 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 170187004777 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 170187004778 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 170187004779 putative active site [active] 170187004780 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 170187004781 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 170187004782 nucleotide binding site [chemical binding]; other site 170187004783 Class I aldolases; Region: Aldolase_Class_I; cl17187 170187004784 catalytic residue [active] 170187004785 Protein of unknown function, DUF624; Region: DUF624; pfam04854 170187004786 Domain of unknown function (DUF386); Region: DUF386; pfam04074 170187004787 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 170187004788 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187004789 dimer interface [polypeptide binding]; other site 170187004790 conserved gate region; other site 170187004791 putative PBP binding loops; other site 170187004792 ABC-ATPase subunit interface; other site 170187004793 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 170187004794 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187004795 dimer interface [polypeptide binding]; other site 170187004796 conserved gate region; other site 170187004797 putative PBP binding loops; other site 170187004798 ABC-ATPase subunit interface; other site 170187004799 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 170187004800 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 170187004801 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 170187004802 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 170187004803 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 170187004804 active site turn [active] 170187004805 phosphorylation site [posttranslational modification] 170187004806 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 170187004807 putative active site cavity [active] 170187004808 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 170187004809 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 170187004810 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 170187004811 Neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: NanH; COG4409 170187004812 Sialidase, N-terminal domain; Region: Sialidase; pfam02973 170187004813 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 170187004814 catalytic site [active] 170187004815 Asp-box motif; other site 170187004816 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 170187004817 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187004818 dimer interface [polypeptide binding]; other site 170187004819 conserved gate region; other site 170187004820 putative PBP binding loops; other site 170187004821 ABC-ATPase subunit interface; other site 170187004822 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 170187004823 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187004824 dimer interface [polypeptide binding]; other site 170187004825 conserved gate region; other site 170187004826 putative PBP binding loops; other site 170187004827 ABC-ATPase subunit interface; other site 170187004828 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 170187004829 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 170187004830 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 170187004831 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 170187004832 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 170187004833 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 170187004834 Transposase; Region: DDE_Tnp_ISL3; pfam01610 170187004835 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 170187004836 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 170187004837 Y-family of DNA polymerases; Region: PolY; cl12025 170187004838 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 170187004839 ssDNA binding site; other site 170187004840 generic binding surface II; other site 170187004841 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 170187004842 ATP binding site [chemical binding]; other site 170187004843 putative Mg++ binding site [ion binding]; other site 170187004844 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 170187004845 nucleotide binding region [chemical binding]; other site 170187004846 ATP-binding site [chemical binding]; other site 170187004847 alanine racemase; Reviewed; Region: alr; PRK00053 170187004848 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 170187004849 active site 170187004850 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 170187004851 dimer interface [polypeptide binding]; other site 170187004852 substrate binding site [chemical binding]; other site 170187004853 catalytic residues [active] 170187004854 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 170187004855 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG0722 170187004856 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG0722 170187004857 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 170187004858 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 170187004859 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 170187004860 nucleotide binding region [chemical binding]; other site 170187004861 ATP-binding site [chemical binding]; other site 170187004862 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 170187004863 SEC-C motif; Region: SEC-C; pfam02810 170187004864 protein-export membrane protein SecD; Region: secD; TIGR01129 170187004865 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 170187004866 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 170187004867 Walker A/P-loop; other site 170187004868 ATP binding site [chemical binding]; other site 170187004869 Q-loop/lid; other site 170187004870 ABC transporter signature motif; other site 170187004871 Walker B; other site 170187004872 D-loop; other site 170187004873 H-loop/switch region; other site 170187004874 GTP-binding protein Der; Reviewed; Region: PRK00093 170187004875 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 170187004876 G1 box; other site 170187004877 GTP/Mg2+ binding site [chemical binding]; other site 170187004878 Switch I region; other site 170187004879 G2 box; other site 170187004880 Switch II region; other site 170187004881 G3 box; other site 170187004882 G4 box; other site 170187004883 G5 box; other site 170187004884 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 170187004885 G1 box; other site 170187004886 GTP/Mg2+ binding site [chemical binding]; other site 170187004887 Switch I region; other site 170187004888 G2 box; other site 170187004889 G3 box; other site 170187004890 Switch II region; other site 170187004891 G4 box; other site 170187004892 G5 box; other site 170187004893 KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; Region: KH_dom-like; pfam14714 170187004894 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 170187004895 dimer interface [polypeptide binding]; other site 170187004896 FMN binding site [chemical binding]; other site 170187004897 NADPH bind site [chemical binding]; other site 170187004898 primosomal protein DnaI; Reviewed; Region: PRK08939 170187004899 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 170187004900 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 170187004901 Walker A motif; other site 170187004902 ATP binding site [chemical binding]; other site 170187004903 Walker B motif; other site 170187004904 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 170187004905 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 170187004906 C-terminal zinc ribbon domain of RNA polymerase intrinsic transcript cleavage subunit; Region: Zn-ribbon; cl02609 170187004907 Zn binding site [ion binding]; other site 170187004908 ATP cone domain; Region: ATP-cone; pfam03477 170187004909 Predicted transcriptional regulators [Transcription]; Region: COG1725 170187004910 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 170187004911 DNA-binding site [nucleotide binding]; DNA binding site 170187004912 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 170187004913 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187004914 Walker A/P-loop; other site 170187004915 ATP binding site [chemical binding]; other site 170187004916 Q-loop/lid; other site 170187004917 ABC transporter signature motif; other site 170187004918 Walker B; other site 170187004919 D-loop; other site 170187004920 H-loop/switch region; other site 170187004921 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 170187004922 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 170187004923 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 170187004924 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187004925 Walker A/P-loop; other site 170187004926 ATP binding site [chemical binding]; other site 170187004927 Q-loop/lid; other site 170187004928 ABC transporter signature motif; other site 170187004929 Walker B; other site 170187004930 D-loop; other site 170187004931 H-loop/switch region; other site 170187004932 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 170187004933 Uncharacterized conserved protein [Function unknown]; Region: COG0398 170187004934 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 170187004935 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 170187004936 nucleotide binding site [chemical binding]; other site 170187004937 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 170187004938 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 170187004939 active site turn [active] 170187004940 phosphorylation site [posttranslational modification] 170187004941 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 170187004942 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 170187004943 HPr interaction site; other site 170187004944 glycerol kinase (GK) interaction site [polypeptide binding]; other site 170187004945 active site 170187004946 phosphorylation site [posttranslational modification] 170187004947 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 170187004948 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 170187004949 substrate binding [chemical binding]; other site 170187004950 active site 170187004951 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 170187004952 Transcriptional regulators [Transcription]; Region: PurR; COG1609 170187004953 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 170187004954 DNA binding site [nucleotide binding] 170187004955 domain linker motif; other site 170187004956 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 170187004957 dimerization interface [polypeptide binding]; other site 170187004958 ligand binding site [chemical binding]; other site 170187004959 sodium binding site [ion binding]; other site 170187004960 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 170187004961 homodimer interface [polypeptide binding]; other site 170187004962 catalytic residues [active] 170187004963 NAD binding site [chemical binding]; other site 170187004964 substrate binding pocket [chemical binding]; other site 170187004965 flexible flap; other site 170187004966 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 170187004967 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 170187004968 dimer interface [polypeptide binding]; other site 170187004969 active site 170187004970 Helix-turn-helix of DDE superfamily endonuclease; Region: HTH_Tnp_4; pfam13613 170187004971 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 170187004972 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 170187004973 Uncharacterized conserved protein [Function unknown]; Region: COG3610 170187004974 Uncharacterized conserved protein [Function unknown]; Region: COG2966 170187004975 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 170187004976 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 170187004977 Catalytic domain of Protein Kinases; Region: PKc; cd00180 170187004978 active site 170187004979 ATP binding site [chemical binding]; other site 170187004980 substrate binding site [chemical binding]; other site 170187004981 activation loop (A-loop); other site 170187004982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 170187004983 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 170187004984 PASTA domain; Region: PASTA; smart00740 170187004985 PASTA domain; Region: PASTA; smart00740 170187004986 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 170187004987 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 170187004988 active site 170187004989 16S rRNA methyltransferase B; Provisional; Region: PRK14902 170187004990 NusB family; Region: NusB; pfam01029 170187004991 putative RNA binding site [nucleotide binding]; other site 170187004992 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 170187004993 S-adenosylmethionine binding site [chemical binding]; other site 170187004994 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 170187004995 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 170187004996 putative active site [active] 170187004997 substrate binding site [chemical binding]; other site 170187004998 putative cosubstrate binding site; other site 170187004999 catalytic site [active] 170187005000 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 170187005001 substrate binding site [chemical binding]; other site 170187005002 primosome assembly protein PriA; Validated; Region: PRK05580 170187005003 Dof, BCAP, and BANK (DBB) motif; Region: DBB; pfam14545 170187005004 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 170187005005 ATP binding site [chemical binding]; other site 170187005006 putative Mg++ binding site [ion binding]; other site 170187005007 helicase superfamily c-terminal domain; Region: HELICc; smart00490 170187005008 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 170187005009 Guanylate kinase; Region: Guanylate_kin; pfam00625 170187005010 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 170187005011 catalytic site [active] 170187005012 G-X2-G-X-G-K; other site 170187005013 hypothetical protein; Provisional; Region: PRK00106 170187005014 Vacuolar (H+)-ATPase G subunit; Region: V-ATPase_G; cl03922 170187005015 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 170187005016 KH domain; Region: KH_1; pfam00013 170187005017 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 170187005018 Zn2+ binding site [ion binding]; other site 170187005019 Mg2+ binding site [ion binding]; other site 170187005020 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 170187005021 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 170187005022 hypothetical protein; Provisional; Region: PRK13670 170187005023 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; pfam05636 170187005024 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 170187005025 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 170187005026 S-adenosylmethionine binding site [chemical binding]; other site 170187005027 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 170187005028 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 170187005029 catalytic triad [active] 170187005030 conserved cis-peptide bond; other site 170187005031 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 170187005032 Zn2+ binding site [ion binding]; other site 170187005033 Mg2+ binding site [ion binding]; other site 170187005034 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 170187005035 active site 170187005036 (T/H)XGH motif; other site 170187005037 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 170187005038 GTPase YqeH; Provisional; Region: PRK13796 170187005039 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 170187005040 GTP/Mg2+ binding site [chemical binding]; other site 170187005041 G4 box; other site 170187005042 G5 box; other site 170187005043 G1 box; other site 170187005044 Switch I region; other site 170187005045 G2 box; other site 170187005046 G3 box; other site 170187005047 Switch II region; other site 170187005048 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 170187005049 active site 170187005050 motif I; other site 170187005051 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 170187005052 motif II; other site 170187005053 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 170187005054 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 170187005055 Cl binding site [ion binding]; other site 170187005056 oligomer interface [polypeptide binding]; other site 170187005057 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 170187005058 Mechanosensitive ion channel; Region: MS_channel; pfam00924 170187005059 Predicted membrane protein [Function unknown]; Region: COG4129 170187005060 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 170187005061 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 170187005062 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 170187005063 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 170187005064 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 170187005065 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 170187005066 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 170187005067 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 170187005068 accessory Sec system translocase SecA2; Region: secA2; TIGR03714 170187005069 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 170187005070 ATP binding site [chemical binding]; other site 170187005071 putative Mg++ binding site [ion binding]; other site 170187005072 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 170187005073 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 170187005074 Accessory Sec secretory system ASP3; Region: Sec-ASP3; pfam15432 170187005075 accessory Sec system protein Asp2; Region: acc_sec_asp2; TIGR03712 170187005076 accessory Sec system protein Asp1; Region: acc_sec_asp1; TIGR03713 170187005077 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 170187005078 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 170187005079 Adenylate cyclase associated (CAP) N terminal; Region: CAP_N; pfam01213 170187005080 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK12417 170187005081 SecY translocase; Region: SecY; pfam00344 170187005082 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 170187005083 active site 170187005084 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 170187005085 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 170187005086 Ligand binding site; other site 170187005087 metal-binding site 170187005088 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 170187005089 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 170187005090 Ligand binding site; other site 170187005091 metal-binding site 170187005092 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 170187005093 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 170187005094 Ligand binding site; other site 170187005095 metal-binding site 170187005096 glycosyltransferase, SP_1767 family; Region: glyco_access_1; TIGR03728 170187005097 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 170187005098 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 170187005099 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 170187005100 Ligand binding site; other site 170187005101 metal-binding site 170187005102 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 170187005103 active site 170187005104 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 170187005105 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 170187005106 Ligand binding site; other site 170187005107 metal-binding site 170187005108 serine-rich repeat adhesion glycoprotein AST domain; Region: ser_adhes_Nterm; TIGR04224 170187005109 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 170187005110 Transcriptional regulators [Transcription]; Region: MarR; COG1846 170187005111 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 170187005112 Uncharacterized protein conserved in Streptococci; Region: SP_1775_like; cd13784 170187005113 oligomer interface [polypeptide binding]; other site 170187005114 putative ligand binding site [chemical binding]; other site 170187005115 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 170187005116 catalytic residues [active] 170187005117 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 170187005118 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 170187005119 amphipathic channel; other site 170187005120 Asn-Pro-Ala signature motifs; other site 170187005121 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 170187005122 oligoendopeptidase F; Region: pepF; TIGR00181 170187005123 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 170187005124 Zn binding site [ion binding]; other site 170187005125 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 170187005126 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 170187005127 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 170187005128 S-adenosylmethionine binding site [chemical binding]; other site 170187005129 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_23; cd04682 170187005130 nudix motif; other site 170187005131 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; cd05709 170187005132 Peptidase family M50; Region: Peptidase_M50; pfam02163 170187005133 active site 170187005134 putative substrate binding region [chemical binding]; other site 170187005135 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 170187005136 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 170187005137 YcfA-like protein; Region: YcfA; pfam07927 170187005138 recombination factor protein RarA; Reviewed; Region: PRK13342 170187005139 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 170187005140 Walker A motif; other site 170187005141 ATP binding site [chemical binding]; other site 170187005142 Walker B motif; other site 170187005143 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl18944 170187005144 arginine finger; other site 170187005145 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 170187005146 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 170187005147 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 170187005148 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 170187005149 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 170187005150 Transposase; Region: DDE_Tnp_ISL3; pfam01610 170187005151 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 170187005152 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 170187005153 substrate binding [chemical binding]; other site 170187005154 active site 170187005155 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 170187005156 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 170187005157 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 170187005158 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 170187005159 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187005160 dimer interface [polypeptide binding]; other site 170187005161 conserved gate region; other site 170187005162 ABC-ATPase subunit interface; other site 170187005163 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 170187005164 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187005165 dimer interface [polypeptide binding]; other site 170187005166 conserved gate region; other site 170187005167 putative PBP binding loops; other site 170187005168 ABC-ATPase subunit interface; other site 170187005169 Transcriptional regulators [Transcription]; Region: PurR; COG1609 170187005170 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 170187005171 DNA binding site [nucleotide binding] 170187005172 domain linker motif; other site 170187005173 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 170187005174 dimerization interface [polypeptide binding]; other site 170187005175 ligand binding site [chemical binding]; other site 170187005176 sodium binding site [ion binding]; other site 170187005177 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 170187005178 Mga helix-turn-helix domain; Region: Mga; pfam05043 170187005179 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 170187005180 Predicted membrane protein [Function unknown]; Region: COG2261 170187005181 Small integral membrane protein [Function unknown]; Region: COG5547 170187005182 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 170187005183 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 170187005184 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 170187005185 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 170187005186 Coenzyme A binding pocket [chemical binding]; other site 170187005187 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 170187005188 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 170187005189 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 170187005190 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 170187005191 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 170187005192 non-specific DNA binding site [nucleotide binding]; other site 170187005193 salt bridge; other site 170187005194 sequence-specific DNA binding site [nucleotide binding]; other site 170187005195 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 170187005196 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 170187005197 substrate binding site [chemical binding]; other site 170187005198 active site 170187005199 catalytic residues [active] 170187005200 heterodimer interface [polypeptide binding]; other site 170187005201 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 170187005202 pyridoxal 5'-phosphate binding site [chemical binding]; other site 170187005203 catalytic residue [active] 170187005204 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 170187005205 active site 170187005206 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 170187005207 active site 170187005208 ribulose/triose binding site [chemical binding]; other site 170187005209 phosphate binding site [ion binding]; other site 170187005210 substrate (anthranilate) binding pocket [chemical binding]; other site 170187005211 product (indole) binding pocket [chemical binding]; other site 170187005212 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 170187005213 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 170187005214 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 170187005215 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 170187005216 Glutamine amidotransferase class-I; Region: GATase; pfam00117 170187005217 glutamine binding [chemical binding]; other site 170187005218 catalytic triad [active] 170187005219 anthranilate synthase component I; Provisional; Region: PRK13570 170187005220 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 170187005221 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 170187005222 Transcriptional regulators [Transcription]; Region: PurR; COG1609 170187005223 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 170187005224 DNA binding site [nucleotide binding] 170187005225 domain linker motif; other site 170187005226 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 170187005227 putative dimerization interface [polypeptide binding]; other site 170187005228 putative ligand binding site [chemical binding]; other site 170187005229 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 170187005230 MgtC family; Region: MgtC; pfam02308 170187005231 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 170187005232 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187005233 dimer interface [polypeptide binding]; other site 170187005234 conserved gate region; other site 170187005235 putative PBP binding loops; other site 170187005236 ABC-ATPase subunit interface; other site 170187005237 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187005238 dimer interface [polypeptide binding]; other site 170187005239 conserved gate region; other site 170187005240 putative PBP binding loops; other site 170187005241 ABC-ATPase subunit interface; other site 170187005242 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 170187005243 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187005244 Walker A/P-loop; other site 170187005245 ATP binding site [chemical binding]; other site 170187005246 Q-loop/lid; other site 170187005247 ABC transporter signature motif; other site 170187005248 Walker B; other site 170187005249 D-loop; other site 170187005250 H-loop/switch region; other site 170187005251 TOBE domain; Region: TOBE_2; pfam08402 170187005252 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 170187005253 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5255 170187005254 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 170187005255 UDP-glucose 4-epimerase; Region: PLN02240 170187005256 NAD binding site [chemical binding]; other site 170187005257 homodimer interface [polypeptide binding]; other site 170187005258 active site 170187005259 substrate binding site [chemical binding]; other site 170187005260 Galactose-1-phosphate uridyltransferase [Carbohydrate transport and metabolism]; Region: GalT; COG4468 170187005261 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 170187005262 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 170187005263 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 170187005264 PhoU domain; Region: PhoU; pfam01895 170187005265 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 170187005266 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 170187005267 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 170187005268 Pectate lyase superfamily protein; Region: Pectate_lyase_3; cl19188 170187005269 Pectate lyase; Region: Pec_lyase_C; cl01593 170187005270 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 170187005271 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 170187005272 inhibitor-cofactor binding pocket; inhibition site 170187005273 pyridoxal 5'-phosphate binding site [chemical binding]; other site 170187005274 catalytic residue [active] 170187005275 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 170187005276 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 170187005277 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 170187005278 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 170187005279 Walker A/P-loop; other site 170187005280 ATP binding site [chemical binding]; other site 170187005281 Q-loop/lid; other site 170187005282 ABC transporter signature motif; other site 170187005283 Walker B; other site 170187005284 D-loop; other site 170187005285 H-loop/switch region; other site 170187005286 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 170187005287 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 170187005288 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187005289 Walker A/P-loop; other site 170187005290 ATP binding site [chemical binding]; other site 170187005291 Q-loop/lid; other site 170187005292 ABC transporter signature motif; other site 170187005293 Walker B; other site 170187005294 D-loop; other site 170187005295 H-loop/switch region; other site 170187005296 Predicted membrane protein [Function unknown]; Region: COG2323 170187005297 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 170187005298 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 170187005299 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 170187005300 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 170187005301 active site 170187005302 putative catalytic site [active] 170187005303 DNA binding site [nucleotide binding] 170187005304 putative phosphate binding site [ion binding]; other site 170187005305 metal binding site A [ion binding]; metal-binding site 170187005306 AP binding site [nucleotide binding]; other site 170187005307 metal binding site B [ion binding]; metal-binding site 170187005308 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 170187005309 active site 170187005310 Sulfate transporter family; Region: Sulfate_transp; cl19250 170187005311 xanthine permease; Region: pbuX; TIGR03173 170187005312 DpnD/PcfM-like protein; Region: DpnD-PcfM; pfam14207 170187005313 Dam-replacing family; Region: DRP; pfam06044 170187005314 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 170187005315 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 170187005316 CoenzymeA binding site [chemical binding]; other site 170187005317 subunit interaction site [polypeptide binding]; other site 170187005318 PHB binding site; other site 170187005319 Galactose-1-phosphate uridyltransferase [Carbohydrate transport and metabolism]; Region: GalT; COG4468 170187005320 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 170187005321 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 170187005322 galactokinase; Provisional; Region: PRK05322 170187005323 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 170187005324 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 170187005325 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 170187005326 Transcriptional regulators [Transcription]; Region: PurR; COG1609 170187005327 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 170187005328 DNA binding site [nucleotide binding] 170187005329 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 170187005330 putative dimerization interface [polypeptide binding]; other site 170187005331 putative ligand binding site [chemical binding]; other site 170187005332 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 170187005333 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 170187005334 NAD(P) binding site [chemical binding]; other site 170187005335 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 170187005336 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 170187005337 DNA binding residues [nucleotide binding] 170187005338 putative dimer interface [polypeptide binding]; other site 170187005339 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 170187005340 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 170187005341 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 170187005342 Utp21 specific WD40 associated putative domain; Region: Utp21; pfam04192 170187005343 nicotinamide mononucleotide transporter PnuC; Region: NMN_trans_PnuC; TIGR01528 170187005344 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187005345 dimer interface [polypeptide binding]; other site 170187005346 conserved gate region; other site 170187005347 putative PBP binding loops; other site 170187005348 ABC-ATPase subunit interface; other site 170187005349 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 170187005350 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 170187005351 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187005352 Walker A/P-loop; other site 170187005353 ATP binding site [chemical binding]; other site 170187005354 Q-loop/lid; other site 170187005355 ABC transporter signature motif; other site 170187005356 Walker B; other site 170187005357 D-loop; other site 170187005358 H-loop/switch region; other site 170187005359 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4922 170187005360 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 170187005361 Transcriptional regulators [Transcription]; Region: MarR; COG1846 170187005362 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 170187005363 putative DNA binding site [nucleotide binding]; other site 170187005364 putative Zn2+ binding site [ion binding]; other site 170187005365 Enterocin A Immunity; Region: EntA_Immun; pfam08951 170187005366 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 170187005367 oligomer interface [polypeptide binding]; other site 170187005368 active site 170187005369 metal binding site [ion binding]; metal-binding site 170187005370 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 170187005371 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 170187005372 NAD(P) binding site [chemical binding]; other site 170187005373 active site 170187005374 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 170187005375 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 170187005376 ABC-ATPase subunit interface; other site 170187005377 dimer interface [polypeptide binding]; other site 170187005378 putative PBP binding regions; other site 170187005379 ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]; Region: CeuC; COG4605 170187005380 ABC-ATPase subunit interface; other site 170187005381 dimer interface [polypeptide binding]; other site 170187005382 putative PBP binding regions; other site 170187005383 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 170187005384 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 170187005385 Walker A/P-loop; other site 170187005386 ATP binding site [chemical binding]; other site 170187005387 Q-loop/lid; other site 170187005388 ABC transporter signature motif; other site 170187005389 Walker B; other site 170187005390 D-loop; other site 170187005391 H-loop/switch region; other site 170187005392 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 170187005393 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 170187005394 putative ligand binding residues [chemical binding]; other site 170187005395 hypothetical protein; Validated; Region: PRK00041 170187005396 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 170187005397 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 170187005398 RNA binding surface [nucleotide binding]; other site 170187005399 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 170187005400 active site 170187005401 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 170187005402 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 170187005403 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 170187005404 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 170187005405 active site 170187005406 catalytic residues [active] 170187005407 DNA binding site [nucleotide binding] 170187005408 Int/Topo IB signature motif; other site 170187005409 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_30; cd04643 170187005410 FOG: CBS domain [General function prediction only]; Region: COG0517 170187005411 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 170187005412 active site 170187005413 metal binding site [ion binding]; metal-binding site 170187005414 homotetramer interface [polypeptide binding]; other site 170187005415 putative deoxyribonucleotide triphosphate pyrophosphatase/unknown domain fusion protein; Reviewed; Region: PRK02491 170187005416 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 170187005417 active site 170187005418 dimerization interface [polypeptide binding]; other site 170187005419 glutamate racemase; Provisional; Region: PRK00865 170187005420 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 170187005421 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 170187005422 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 170187005423 Ca binding site [ion binding]; other site 170187005424 active site 170187005425 catalytic site [active] 170187005426 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 170187005427 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 170187005428 active site turn [active] 170187005429 phosphorylation site [posttranslational modification] 170187005430 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 170187005431 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 170187005432 HPr interaction site; other site 170187005433 glycerol kinase (GK) interaction site [polypeptide binding]; other site 170187005434 active site 170187005435 phosphorylation site [posttranslational modification] 170187005436 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 170187005437 DNA-binding site [nucleotide binding]; DNA binding site 170187005438 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 170187005439 UTRA domain; Region: UTRA; pfam07702 170187005440 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 170187005441 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 170187005442 Walker A/P-loop; other site 170187005443 ATP binding site [chemical binding]; other site 170187005444 Q-loop/lid; other site 170187005445 ABC transporter signature motif; other site 170187005446 Walker B; other site 170187005447 D-loop; other site 170187005448 H-loop/switch region; other site 170187005449 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 170187005450 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 170187005451 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 170187005452 Walker A/P-loop; other site 170187005453 ATP binding site [chemical binding]; other site 170187005454 Q-loop/lid; other site 170187005455 ABC transporter signature motif; other site 170187005456 Walker B; other site 170187005457 D-loop; other site 170187005458 H-loop/switch region; other site 170187005459 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 170187005460 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 170187005461 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 170187005462 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187005463 dimer interface [polypeptide binding]; other site 170187005464 conserved gate region; other site 170187005465 putative PBP binding loops; other site 170187005466 ABC-ATPase subunit interface; other site 170187005467 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 170187005468 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187005469 dimer interface [polypeptide binding]; other site 170187005470 conserved gate region; other site 170187005471 putative PBP binding loops; other site 170187005472 ABC-ATPase subunit interface; other site 170187005473 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 170187005474 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 170187005475 peptide binding site [polypeptide binding]; other site 170187005476 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 170187005477 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 170187005478 sucrose phosphorylase; Provisional; Region: PRK13840 170187005479 Alpha amylase catalytic domain found in sucrose phosphorylase (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase; cd11355 170187005480 active site 170187005481 homodimer interface [polypeptide binding]; other site 170187005482 catalytic site [active] 170187005483 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 170187005484 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187005485 dimer interface [polypeptide binding]; other site 170187005486 conserved gate region; other site 170187005487 putative PBP binding loops; other site 170187005488 ABC-ATPase subunit interface; other site 170187005489 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 170187005490 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187005491 dimer interface [polypeptide binding]; other site 170187005492 conserved gate region; other site 170187005493 putative PBP binding loops; other site 170187005494 ABC-ATPase subunit interface; other site 170187005495 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 170187005496 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 170187005497 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 170187005498 Melibiase; Region: Melibiase; pfam02065 170187005499 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 170187005500 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 170187005501 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 170187005502 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 170187005503 Biotin operon repressor [Transcription]; Region: BirA; COG1654 170187005504 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 170187005505 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 170187005506 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 170187005507 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 170187005508 TRAM domain; Region: TRAM; cl01282 170187005509 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 170187005510 S-adenosylmethionine binding site [chemical binding]; other site 170187005511 recombination regulator RecX; Provisional; Region: recX; PRK14135 170187005512 hypothetical protein; Provisional; Region: PRK13662 170187005513 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 170187005514 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 170187005515 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 170187005516 ring oligomerisation interface [polypeptide binding]; other site 170187005517 ATP/Mg binding site [chemical binding]; other site 170187005518 stacking interactions; other site 170187005519 hinge regions; other site 170187005520 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 170187005521 oligomerisation interface [polypeptide binding]; other site 170187005522 mobile loop; other site 170187005523 roof hairpin; other site 170187005524 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 170187005525 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 170187005526 dimer interface [polypeptide binding]; other site 170187005527 ssDNA binding site [nucleotide binding]; other site 170187005528 tetramer (dimer of dimers) interface [polypeptide binding]; other site 170187005529 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 170187005530 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 170187005531 NAD(P) binding site [chemical binding]; other site 170187005532 active site 170187005533 Domain of unknown function (DUF4479); Region: DUF4479; pfam14794 170187005534 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 170187005535 putative tRNA-binding site [nucleotide binding]; other site 170187005536 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 170187005537 catalytic residues [active] 170187005538 Domain of unknown function (DUF4651); Region: DUF4651; pfam15513 170187005539 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; cl19753 170187005540 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 170187005541 LytTr DNA-binding domain; Region: LytTR; pfam04397 170187005542 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 170187005543 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 170187005544 active site 170187005545 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4898 170187005546 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 170187005547 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187005548 Walker A/P-loop; other site 170187005549 ATP binding site [chemical binding]; other site 170187005550 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187005551 Walker A/P-loop; other site 170187005552 ATP binding site [chemical binding]; other site 170187005553 Q-loop/lid; other site 170187005554 ABC transporter signature motif; other site 170187005555 Walker B; other site 170187005556 D-loop; other site 170187005557 H-loop/switch region; other site 170187005558 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 170187005559 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 170187005560 Transcriptional regulators [Transcription]; Region: MarR; COG1846 170187005561 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 170187005562 hypothetical protein; Provisional; Region: PRK12378 170187005563 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 170187005564 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 170187005565 Helix-turn-helix of DDE superfamily endonuclease; Region: HTH_Tnp_4; pfam13613 170187005566 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 170187005567 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 170187005568 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 170187005569 Domain of unknown function (DUF955); Region: DUF955; cl01076 170187005570 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 170187005571 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 170187005572 non-specific DNA binding site [nucleotide binding]; other site 170187005573 salt bridge; other site 170187005574 sequence-specific DNA binding site [nucleotide binding]; other site 170187005575 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 170187005576 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 170187005577 amidase catalytic site [active] 170187005578 Zn binding residues [ion binding]; other site 170187005579 substrate binding site [chemical binding]; other site 170187005580 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187005581 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187005582 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 170187005583 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 170187005584 recombinase A; Provisional; Region: recA; PRK09354 170187005585 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 170187005586 hexamer interface [polypeptide binding]; other site 170187005587 Walker A motif; other site 170187005588 ATP binding site [chemical binding]; other site 170187005589 Walker B motif; other site 170187005590 competence damage-inducible protein A; Provisional; Region: PRK00549 170187005591 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 170187005592 putative MPT binding site; other site 170187005593 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 170187005594 Transcriptional regulator [Transcription]; Region: LytR; COG1316 170187005595 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 170187005596 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 170187005597 Coenzyme A binding pocket [chemical binding]; other site 170187005598 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 170187005599 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 170187005600 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 170187005601 non-specific DNA binding site [nucleotide binding]; other site 170187005602 salt bridge; other site 170187005603 sequence-specific DNA binding site [nucleotide binding]; other site 170187005604 type 2 lantibiotic, SP_1948 family; Region: lant_SP_1948; TIGR03893 170187005605 type 2 lantibiotic, SP_1948 family; Region: lant_SP_1948; TIGR03893 170187005606 Lantibiotic modifying enzyme [Defense mechanisms]; Region: LcnDR2; COG4403 170187005607 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 170187005608 active site 170187005609 zinc binding site [ion binding]; other site 170187005610 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 170187005611 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; cd05709 170187005612 Peptidase family M50; Region: Peptidase_M50; pfam02163 170187005613 active site 170187005614 putative substrate binding region [chemical binding]; other site 170187005615 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 170187005616 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 170187005617 putative active site [active] 170187005618 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 170187005619 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187005620 Walker A/P-loop; other site 170187005621 ATP binding site [chemical binding]; other site 170187005622 Q-loop/lid; other site 170187005623 ABC transporter signature motif; other site 170187005624 Walker B; other site 170187005625 D-loop; other site 170187005626 H-loop/switch region; other site 170187005627 Peptidase S8 family domain in Lantiobiotic (lanthionine-containing antibiotics) specific proteases; Region: Peptidases_S8_Lantibiotic_specific_protease; cd07482 170187005628 Subtilase family; Region: Peptidase_S8; pfam00082 170187005629 active site 170187005630 catalytic triad [active] 170187005631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 170187005632 Phosphoenolpyruvate carboxylase; Region: PEPcase_2; cl17501 170187005633 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 170187005634 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187005635 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 170187005636 Walker A/P-loop; other site 170187005637 ATP binding site [chemical binding]; other site 170187005638 Q-loop/lid; other site 170187005639 ABC transporter signature motif; other site 170187005640 Walker B; other site 170187005641 D-loop; other site 170187005642 H-loop/switch region; other site 170187005643 Nucleoside diphosphate kinase; Region: NDK; pfam00334 170187005644 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 170187005645 active site 170187005646 multimer interface [polypeptide binding]; other site 170187005647 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 170187005648 Largest subunit (beta') of bacterial DNA-dependent RNA polymerase (RNAP), N-terminal domain; Region: RNAP_beta'_N; cd01609 170187005649 beta and beta' interface [polypeptide binding]; other site 170187005650 beta' and sigma factor interface [polypeptide binding]; other site 170187005651 Zn-binding [ion binding]; other site 170187005652 active site region [active] 170187005653 catalytic site [active] 170187005654 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 170187005655 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 170187005656 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 170187005657 G-loop; other site 170187005658 DNA binding site [nucleotide binding] 170187005659 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 170187005660 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 170187005661 RPB12 interaction site [polypeptide binding]; other site 170187005662 RPB1 interaction site [polypeptide binding]; other site 170187005663 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 170187005664 RPB10 interaction site [polypeptide binding]; other site 170187005665 Peptidase family M23; Region: Peptidase_M23; pfam01551 170187005666 RPB11 interaction site [polypeptide binding]; other site 170187005667 RPB3 interaction site [polypeptide binding]; other site 170187005668 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 170187005669 Domain of unknown function DUF21; Region: DUF21; pfam01595 170187005670 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 170187005671 Transporter associated domain; Region: CorC_HlyC; pfam03471 170187005672 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 170187005673 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 170187005674 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 170187005675 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 170187005676 hinge; other site 170187005677 active site 170187005678 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 170187005679 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 170187005680 protein binding site [polypeptide binding]; other site 170187005681 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 170187005682 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 170187005683 active site 170187005684 (T/H)XGH motif; other site 170187005685 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 170187005686 S-adenosylmethionine binding site [chemical binding]; other site 170187005687 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 170187005688 dimer interface [polypeptide binding]; other site 170187005689 active site 170187005690 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 170187005691 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 170187005692 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 170187005693 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 170187005694 acylphosphatase; Provisional; Region: PRK14434 170187005695 OxaA-like protein precursor; Provisional; Region: PRK02463 170187005696 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 170187005697 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 170187005698 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 170187005699 FeS/SAM binding site; other site 170187005700 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 170187005701 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 170187005702 active site 170187005703 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 170187005704 substrate binding site [chemical binding]; other site 170187005705 catalytic residues [active] 170187005706 dimer interface [polypeptide binding]; other site 170187005707 pur operon repressor; Provisional; Region: PRK09213 170187005708 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 170187005709 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 170187005710 active site 170187005711 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 170187005712 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 170187005713 generic binding surface II; other site 170187005714 generic binding surface I; other site 170187005715 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 170187005716 Zn2+ binding site [ion binding]; other site 170187005717 Mg2+ binding site [ion binding]; other site 170187005718 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 170187005719 RmuC family; Region: RmuC; pfam02646 170187005720 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 170187005721 Thiamine pyrophosphokinase; Region: TPK; cd07995 170187005722 active site 170187005723 dimerization interface [polypeptide binding]; other site 170187005724 thiamine binding site [chemical binding]; other site 170187005725 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 170187005726 substrate binding site [chemical binding]; other site 170187005727 hexamer interface [polypeptide binding]; other site 170187005728 metal binding site [ion binding]; metal-binding site 170187005729 GTPase RsgA; Reviewed; Region: PRK00098 170187005730 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 170187005731 RNA binding site [nucleotide binding]; other site 170187005732 homodimer interface [polypeptide binding]; other site 170187005733 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 170187005734 GTPase/Zn-binding domain interface [polypeptide binding]; other site 170187005735 GTP/Mg2+ binding site [chemical binding]; other site 170187005736 G4 box; other site 170187005737 G5 box; other site 170187005738 G1 box; other site 170187005739 Switch I region; other site 170187005740 G2 box; other site 170187005741 G3 box; other site 170187005742 Switch II region; other site 170187005743 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 170187005744 S-adenosylmethionine binding site [chemical binding]; other site 170187005745 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187005746 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 170187005747 Walker A/P-loop; other site 170187005748 ATP binding site [chemical binding]; other site 170187005749 Q-loop/lid; other site 170187005750 ABC transporter signature motif; other site 170187005751 Walker B; other site 170187005752 D-loop; other site 170187005753 H-loop/switch region; other site 170187005754 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 170187005755 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 170187005756 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 170187005757 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 170187005758 non-specific DNA binding site [nucleotide binding]; other site 170187005759 salt bridge; other site 170187005760 sequence-specific DNA binding site [nucleotide binding]; other site 170187005761 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 170187005762 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 170187005763 putative active site [active] 170187005764 putative metal binding site [ion binding]; other site 170187005765 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 170187005766 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 170187005767 active site 170187005768 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 170187005769 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 170187005770 aminotransferase AlaT; Validated; Region: PRK09265 170187005771 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 170187005772 pyridoxal 5'-phosphate binding site [chemical binding]; other site 170187005773 homodimer interface [polypeptide binding]; other site 170187005774 catalytic residue [active] 170187005775 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 170187005776 Ligand Binding Site [chemical binding]; other site 170187005777 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 170187005778 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 170187005779 active site 170187005780 motif I; other site 170187005781 motif II; other site 170187005782 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 170187005783 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4696 170187005784 metal binding site [ion binding]; metal-binding site 170187005785 cytoplasmic asparaginase I; Provisional; Region: ansA; PRK09461 170187005786 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 170187005787 active site 170187005788 homotetramer interface [polypeptide binding]; other site 170187005789 homodimer interface [polypeptide binding]; other site 170187005790 catabolite control protein A; Region: ccpA; TIGR01481 170187005791 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 170187005792 DNA binding site [nucleotide binding] 170187005793 domain linker motif; other site 170187005794 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 170187005795 dimerization interface [polypeptide binding]; other site 170187005796 effector binding site; other site 170187005797 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 170187005798 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 170187005799 active site 170187005800 phosphorylation site [posttranslational modification] 170187005801 intermolecular recognition site; other site 170187005802 dimerization interface [polypeptide binding]; other site 170187005803 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 170187005804 DNA binding residues [nucleotide binding] 170187005805 dimerization interface [polypeptide binding]; other site 170187005806 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 170187005807 Histidine kinase; Region: HisKA_3; pfam07730 170187005808 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 170187005809 ATP binding site [chemical binding]; other site 170187005810 Mg2+ binding site [ion binding]; other site 170187005811 G-X-G motif; other site 170187005812 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 170187005813 ABC-2 type transporter; Region: ABC2_membrane; cl17235 170187005814 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 170187005815 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 170187005816 Walker A/P-loop; other site 170187005817 ATP binding site [chemical binding]; other site 170187005818 Q-loop/lid; other site 170187005819 ABC transporter signature motif; other site 170187005820 Walker B; other site 170187005821 D-loop; other site 170187005822 H-loop/switch region; other site 170187005823 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 170187005824 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 170187005825 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 170187005826 putative homodimer interface [polypeptide binding]; other site 170187005827 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 170187005828 heterodimer interface [polypeptide binding]; other site 170187005829 homodimer interface [polypeptide binding]; other site 170187005830 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 170187005831 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 170187005832 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 170187005833 Transglycosylase; Region: Transgly; pfam00912 170187005834 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 170187005835 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 170187005836 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 170187005837 active site 170187005838 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 170187005839 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 170187005840 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 170187005841 FtsX-like permease family; Region: FtsX; pfam02687 170187005842 DDE superfamily endonuclease; Region: DDE_3; pfam13358 170187005843 Transposase; Region: HTH_Tnp_IS630; pfam01710 170187005844 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 170187005845 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06559 170187005846 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 170187005847 dimerization interface [polypeptide binding]; other site 170187005848 active site 170187005849 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 170187005850 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 170187005851 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 170187005852 transmembrane helices; other site 170187005853 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 170187005854 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 170187005855 DNA-binding site [nucleotide binding]; DNA binding site 170187005856 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 170187005857 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 170187005858 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 170187005859 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 170187005860 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 170187005861 active site 170187005862 P-loop; other site 170187005863 phosphorylation site [posttranslational modification] 170187005864 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 170187005865 methionine cluster; other site 170187005866 active site 170187005867 phosphorylation site [posttranslational modification] 170187005868 metal binding site [ion binding]; metal-binding site 170187005869 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 170187005870 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 170187005871 putative catalytic cysteine [active] 170187005872 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 170187005873 putative active site [active] 170187005874 metal binding site [ion binding]; metal-binding site 170187005875 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 170187005876 Low molecular weight phosphatase family; Region: LMWPc; cd00115 170187005877 active site 170187005878 preprotein translocase subunit YajC; Validated; Region: yajC; PRK06531 170187005879 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 170187005880 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 170187005881 TPP-binding site [chemical binding]; other site 170187005882 dimer interface [polypeptide binding]; other site 170187005883 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 170187005884 PYR/PP interface [polypeptide binding]; other site 170187005885 dimer interface [polypeptide binding]; other site 170187005886 TPP binding site [chemical binding]; other site 170187005887 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 170187005888 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 170187005889 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 170187005890 PRD domain; Region: PRD; pfam00874 170187005891 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 170187005892 active site 170187005893 P-loop; other site 170187005894 phosphorylation site [posttranslational modification] 170187005895 L-ribulose-5-phosphate 4-epimerase; Provisional; Region: araD; PRK13145 170187005896 intersubunit interface [polypeptide binding]; other site 170187005897 active site 170187005898 Zn2+ binding site [ion binding]; other site 170187005899 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 170187005900 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 170187005901 AP (apurinic/apyrimidinic) site pocket; other site 170187005902 DNA interaction; other site 170187005903 Metal-binding active site; metal-binding site 170187005904 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 170187005905 active site 170187005906 dimer interface [polypeptide binding]; other site 170187005907 magnesium binding site [ion binding]; other site 170187005908 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 170187005909 active site 170187005910 phosphorylation site [posttranslational modification] 170187005911 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 170187005912 active site 170187005913 P-loop; other site 170187005914 phosphorylation site [posttranslational modification] 170187005915 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 170187005916 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 170187005917 Jag N-terminus; Region: Jag_N; pfam14804 170187005918 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 170187005919 G-X-X-G motif; other site 170187005920 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 170187005921 RxxxH motif; other site 170187005922 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 170187005923 ribonuclease P; Reviewed; Region: rnpA; PRK00499 170187005924 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 170187005925 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 170187005926 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 170187005927 S-adenosylmethionine binding site [chemical binding]; other site 170187005928 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 170187005929 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 170187005930 Type II secretory pathway pseudopilin; Region: PulG; pfam11773 170187005931 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 170187005932 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 170187005933 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 170187005934 Prokaryotic N-terminal methylation motif; Region: N_methyl; pfam07963 170187005935 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 170187005936 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 170187005937 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 170187005938 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 170187005939 Walker A motif; other site 170187005940 ATP binding site [chemical binding]; other site 170187005941 Walker B motif; other site 170187005942 Protein of unknown function (DUF1033); Region: DUF1033; pfam06279 170187005943 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 170187005944 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 170187005945 catalytic Zn binding site [ion binding]; other site 170187005946 structural Zn binding site [ion binding]; other site 170187005947 NAD(P) binding site [chemical binding]; other site 170187005948 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 170187005949 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 170187005950 active site 170187005951 dimer interface [polypeptide binding]; other site 170187005952 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 170187005953 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 170187005954 catalytic triad [active] 170187005955 catalytic triad [active] 170187005956 oxyanion hole [active] 170187005957 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 170187005958 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 170187005959 Predicted integral membrane protein [Function unknown]; Region: COG5523 170187005960 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 170187005961 putative substrate binding pocket [chemical binding]; other site 170187005962 AC domain interface; other site 170187005963 catalytic triad [active] 170187005964 AB domain interface; other site 170187005965 interchain disulfide; other site 170187005966 Predicted membrane protein [Function unknown]; Region: COG3759 170187005967 Transcriptional regulators [Transcription]; Region: MarR; COG1846 170187005968 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 170187005969 putative DNA binding site [nucleotide binding]; other site 170187005970 putative Zn2+ binding site [ion binding]; other site 170187005971 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 170187005972 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 170187005973 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 170187005974 active site 170187005975 motif I; other site 170187005976 motif II; other site 170187005977 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 170187005978 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 170187005979 threonine synthase; Validated; Region: PRK09225 170187005980 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 170187005981 pyridoxal 5'-phosphate binding site [chemical binding]; other site 170187005982 catalytic residue [active] 170187005983 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 170187005984 Cytidine deaminase [Nucleotide transport and metabolism]; Region: Cdd; COG0295 170187005985 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 170187005986 active site 170187005987 catalytic motif [active] 170187005988 Zn binding site [ion binding]; other site 170187005989 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 170187005990 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 170187005991 active site 170187005992 HIGH motif; other site 170187005993 KMSKS motif; other site 170187005994 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 170187005995 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 170187005996 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 170187005997 active site 170187005998 dimer interface [polypeptide binding]; other site 170187005999 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 170187006000 dimer interface [polypeptide binding]; other site 170187006001 active site 170187006002 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 170187006003 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 170187006004 catalytic triad [active] 170187006005 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 170187006006 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 170187006007 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187006008 Walker A/P-loop; other site 170187006009 ATP binding site [chemical binding]; other site 170187006010 Q-loop/lid; other site 170187006011 ABC transporter signature motif; other site 170187006012 Walker B; other site 170187006013 D-loop; other site 170187006014 H-loop/switch region; other site 170187006015 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 170187006016 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 170187006017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 170187006018 Walker A/P-loop; other site 170187006019 ATP binding site [chemical binding]; other site 170187006020 Q-loop/lid; other site 170187006021 ABC transporter signature motif; other site 170187006022 Walker B; other site 170187006023 D-loop; other site 170187006024 H-loop/switch region; other site 170187006025 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 170187006026 arginine repressor; Region: argR_whole; TIGR01529 170187006027 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 170187006028 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 170187006029 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 170187006030 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 170187006031 active site 170187006032 HIGH motif; other site 170187006033 KMSK motif region; other site 170187006034 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 170187006035 tRNA binding surface [nucleotide binding]; other site 170187006036 anticodon binding site; other site 170187006037 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 170187006038 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 170187006039 Uncharacterized conserved protein [Function unknown]; Region: COG3542 170187006040 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 170187006041 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 170187006042 active site 170187006043 phosphorylation site [posttranslational modification] 170187006044 intermolecular recognition site; other site 170187006045 dimerization interface [polypeptide binding]; other site 170187006046 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 170187006047 DNA binding site [nucleotide binding] 170187006048 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 170187006049 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 170187006050 dimer interface [polypeptide binding]; other site 170187006051 phosphorylation site [posttranslational modification] 170187006052 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 170187006053 ATP binding site [chemical binding]; other site 170187006054 Mg2+ binding site [ion binding]; other site 170187006055 G-X-G motif; other site 170187006056 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 170187006057 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 170187006058 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 170187006059 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187006060 dimer interface [polypeptide binding]; other site 170187006061 conserved gate region; other site 170187006062 putative PBP binding loops; other site 170187006063 ABC-ATPase subunit interface; other site 170187006064 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 170187006065 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187006066 dimer interface [polypeptide binding]; other site 170187006067 conserved gate region; other site 170187006068 putative PBP binding loops; other site 170187006069 ABC-ATPase subunit interface; other site 170187006070 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 170187006071 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 170187006072 Walker A/P-loop; other site 170187006073 ATP binding site [chemical binding]; other site 170187006074 Q-loop/lid; other site 170187006075 ABC transporter signature motif; other site 170187006076 Walker B; other site 170187006077 D-loop; other site 170187006078 H-loop/switch region; other site 170187006079 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 170187006080 PhoU domain; Region: PhoU; pfam01895 170187006081 PhoU domain; Region: PhoU; pfam01895 170187006082 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 170187006083 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 170187006084 non-specific DNA binding site [nucleotide binding]; other site 170187006085 salt bridge; other site 170187006086 sequence-specific DNA binding site [nucleotide binding]; other site 170187006087 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 170187006088 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 170187006089 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 170187006090 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 170187006091 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 170187006092 active site 170187006093 tetramer interface; other site 170187006094 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 170187006095 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 170187006096 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 170187006097 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 170187006098 metal binding site [ion binding]; metal-binding site 170187006099 putative dimer interface [polypeptide binding]; other site 170187006100 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 170187006101 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 170187006102 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 170187006103 putative trimer interface [polypeptide binding]; other site 170187006104 putative CoA binding site [chemical binding]; other site 170187006105 EamA-like transporter family; Region: EamA; pfam00892 170187006106 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 170187006107 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 170187006108 Transglycosylase; Region: Transgly; pfam00912 170187006109 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 170187006110 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 170187006111 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 170187006112 active site 170187006113 HIGH motif; other site 170187006114 dimer interface [polypeptide binding]; other site 170187006115 KMSKS motif; other site 170187006116 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 170187006117 RNA binding surface [nucleotide binding]; other site 170187006118 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 170187006119 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 170187006120 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 170187006121 motif II; other site 170187006122 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 170187006123 S-adenosylmethionine binding site [chemical binding]; other site 170187006124 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 170187006125 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 170187006126 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 170187006127 4-alpha-glucanotransferase; Provisional; Region: PRK14508 170187006128 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 170187006129 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 170187006130 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187006131 dimer interface [polypeptide binding]; other site 170187006132 conserved gate region; other site 170187006133 putative PBP binding loops; other site 170187006134 ABC-ATPase subunit interface; other site 170187006135 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 170187006136 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187006137 dimer interface [polypeptide binding]; other site 170187006138 conserved gate region; other site 170187006139 putative PBP binding loops; other site 170187006140 ABC-ATPase subunit interface; other site 170187006141 Predicted integral membrane protein [Function unknown]; Region: COG5521 170187006142 Transcriptional regulators [Transcription]; Region: PurR; COG1609 170187006143 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 170187006144 DNA binding site [nucleotide binding] 170187006145 domain linker motif; other site 170187006146 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 170187006147 putative dimerization interface [polypeptide binding]; other site 170187006148 putative ligand binding site [chemical binding]; other site 170187006149 Uncharacterized conserved protein [Function unknown]; Region: COG1284 170187006150 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 170187006151 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 170187006152 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 170187006153 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 170187006154 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 170187006155 dimer interface [polypeptide binding]; other site 170187006156 anticodon binding site; other site 170187006157 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 170187006158 homodimer interface [polypeptide binding]; other site 170187006159 motif 1; other site 170187006160 active site 170187006161 motif 2; other site 170187006162 GAD domain; Region: GAD; pfam02938 170187006163 motif 3; other site 170187006164 CAAX protease self-immunity; Region: Abi; pfam02517 170187006165 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 170187006166 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 170187006167 non-specific DNA binding site [nucleotide binding]; other site 170187006168 salt bridge; other site 170187006169 sequence-specific DNA binding site [nucleotide binding]; other site 170187006170 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 170187006171 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 170187006172 dimer interface [polypeptide binding]; other site 170187006173 motif 1; other site 170187006174 active site 170187006175 motif 2; other site 170187006176 motif 3; other site 170187006177 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 170187006178 anticodon binding site; other site 170187006179 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 170187006180 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 170187006181 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 170187006182 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 170187006183 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 170187006184 PYR/PP interface [polypeptide binding]; other site 170187006185 dimer interface [polypeptide binding]; other site 170187006186 TPP binding site [chemical binding]; other site 170187006187 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 170187006188 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 170187006189 TPP-binding site [chemical binding]; other site 170187006190 dimer interface [polypeptide binding]; other site 170187006191 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 170187006192 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 170187006193 active site 170187006194 P-loop; other site 170187006195 phosphorylation site [posttranslational modification] 170187006196 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 170187006197 PRD domain; Region: PRD; pfam00874 170187006198 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 170187006199 active site 170187006200 P-loop; other site 170187006201 phosphorylation site [posttranslational modification] 170187006202 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 170187006203 active site 170187006204 phosphorylation site [posttranslational modification] 170187006205 Uncharacterized family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_like_u2; cd03402 170187006206 prohibitin homologues; Region: PHB; smart00244 170187006207 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 170187006208 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 170187006209 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 170187006210 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 170187006211 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 170187006212 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 170187006213 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187006214 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187006215 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187006216 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187006217 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187006218 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187006219 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 170187006220 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 170187006221 Glycosyl hydrolase family 20 (GH20) catalytic domain of N-acetyl-beta-D-glucosaminidase (GcnA, also known as BhsA) and related proteins. GcnA is an exoglucosidase which cleaves N-acetyl-beta-D-galactosamine (NAG) and N-acetyl-beta-D-galactosamine...; Region: GH20_GcnA-like; cd06565 170187006222 putative active site [active] 170187006223 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 170187006224 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 170187006225 nucleotide binding site [chemical binding]; other site 170187006226 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 170187006227 N-terminal catalytic domain of SPGH38, a putative alpha-mannosidase of Streptococcus pyogenes, and its prokaryotic homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_SpGH38_like; cd10814 170187006228 active site 170187006229 metal binding site [ion binding]; metal-binding site 170187006230 homodimer interface [polypeptide binding]; other site 170187006231 catalytic site [active] 170187006232 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 170187006233 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 170187006234 Uncharacterized conserved protein [Function unknown]; Region: COG3538 170187006235 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 170187006236 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 170187006237 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 170187006238 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 170187006239 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 170187006240 Calx-beta domain; Region: Calx-beta; cl02522 170187006241 arginine deiminase; Provisional; Region: PRK01388 170187006242 ornithine carbamoyltransferase; Validated; Region: PRK02102 170187006243 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 170187006244 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 170187006245 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 170187006246 putative substrate binding site [chemical binding]; other site 170187006247 nucleotide binding site [chemical binding]; other site 170187006248 nucleotide binding site [chemical binding]; other site 170187006249 homodimer interface [polypeptide binding]; other site 170187006250 Predicted membrane protein [Function unknown]; Region: COG1288 170187006251 hypothetical protein; Provisional; Region: PRK07205 170187006252 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 170187006253 active site 170187006254 metal binding site [ion binding]; metal-binding site 170187006255 Uncharacterized family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_like_u4; cd03407 170187006256 prohibitin homologues; Region: PHB; smart00244 170187006257 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 170187006258 dimer interface [polypeptide binding]; other site 170187006259 active site 170187006260 metal binding site [ion binding]; metal-binding site 170187006261 L-fucose isomerase; Provisional; Region: fucI; PRK10991 170187006262 L-fucose isomerase (FucIase); FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose during glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in blood group...; Region: L-fucose_isomerase; cd03556 170187006263 hexamer (dimer of trimers) interface [polypeptide binding]; other site 170187006264 trimer interface [polypeptide binding]; other site 170187006265 substrate binding site [chemical binding]; other site 170187006266 Mn binding site [ion binding]; other site 170187006267 Glycosyl hydrolase family 98; Region: Glyco_hydro_98M; pfam08306 170187006268 Glycosyl hydrolase family 98 C-terminal domain; Region: Glyco_hydro_98C; pfam08307 170187006269 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl19067 170187006270 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl19067 170187006271 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl19067 170187006272 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hyd_65N_2; pfam14498 170187006273 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 170187006274 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 170187006275 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 170187006276 active site 170187006277 phosphorylation site [posttranslational modification] 170187006278 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 170187006279 active pocket/dimerization site; other site 170187006280 active site 170187006281 phosphorylation site [posttranslational modification] 170187006282 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 170187006283 L-fuculose phosphate aldolase; Provisional; Region: PRK06833 170187006284 intersubunit interface [polypeptide binding]; other site 170187006285 active site 170187006286 Zn2+ binding site [ion binding]; other site 170187006287 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 170187006288 N- and C-terminal domain interface [polypeptide binding]; other site 170187006289 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 170187006290 active site 170187006291 putative catalytic site [active] 170187006292 metal binding site [ion binding]; metal-binding site 170187006293 ATP binding site [chemical binding]; other site 170187006294 carbohydrate binding site [chemical binding]; other site 170187006295 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 170187006296 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 170187006297 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 170187006298 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 170187006299 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 170187006300 metal binding site [ion binding]; metal-binding site 170187006301 Predicted periplasmic or secreted protein [General function prediction only]; Region: COG3443 170187006302 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 170187006303 ABC-ATPase subunit interface; other site 170187006304 dimer interface [polypeptide binding]; other site 170187006305 putative PBP binding regions; other site 170187006306 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 170187006307 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 170187006308 Transcriptional regulators [Transcription]; Region: MarR; COG1846 170187006309 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 170187006310 putative Zn2+ binding site [ion binding]; other site 170187006311 putative DNA binding site [nucleotide binding]; other site 170187006312 Protein involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltD; COG3966 170187006313 DltD N-terminal region; Region: DltD_N; pfam04915 170187006314 DltD central region; Region: DltD_M; pfam04918 170187006315 DltD C-terminal region; Region: DltD_C; pfam04914 170187006316 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 170187006317 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 170187006318 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 170187006319 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 170187006320 acyl-activating enzyme (AAE) consensus motif; other site 170187006321 AMP binding site [chemical binding]; other site 170187006322 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 170187006323 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 170187006324 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 170187006325 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 170187006326 amphipathic channel; other site 170187006327 Asn-Pro-Ala signature motifs; other site 170187006328 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 170187006329 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 170187006330 glycerol kinase; Provisional; Region: glpK; PRK00047 170187006331 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 170187006332 N- and C-terminal domain interface [polypeptide binding]; other site 170187006333 active site 170187006334 MgATP binding site [chemical binding]; other site 170187006335 catalytic site [active] 170187006336 metal binding site [ion binding]; metal-binding site 170187006337 glycerol binding site [chemical binding]; other site 170187006338 homotetramer interface [polypeptide binding]; other site 170187006339 homodimer interface [polypeptide binding]; other site 170187006340 FBP binding site [chemical binding]; other site 170187006341 protein IIAGlc interface [polypeptide binding]; other site 170187006342 Mga helix-turn-helix domain; Region: Mga; pfam05043 170187006343 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 170187006344 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 170187006345 dimerization interface [polypeptide binding]; other site 170187006346 domain crossover interface; other site 170187006347 redox-dependent activation switch; other site 170187006348 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 170187006349 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 170187006350 FMN binding site [chemical binding]; other site 170187006351 active site 170187006352 catalytic residues [active] 170187006353 substrate binding site [chemical binding]; other site 170187006354 RICH domain; Region: RICH; pfam05062 170187006355 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 170187006356 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 170187006357 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 170187006358 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187006359 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187006360 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187006361 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187006362 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187006363 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187006364 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 170187006365 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 170187006366 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 170187006367 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 170187006368 dimerization interface [polypeptide binding]; other site 170187006369 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 170187006370 dimer interface [polypeptide binding]; other site 170187006371 phosphorylation site [posttranslational modification] 170187006372 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 170187006373 ATP binding site [chemical binding]; other site 170187006374 Mg2+ binding site [ion binding]; other site 170187006375 G-X-G motif; other site 170187006376 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 170187006377 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 170187006378 active site 170187006379 phosphorylation site [posttranslational modification] 170187006380 intermolecular recognition site; other site 170187006381 dimerization interface [polypeptide binding]; other site 170187006382 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 170187006383 DNA binding site [nucleotide binding] 170187006384 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 170187006385 Clp amino terminal domain; Region: Clp_N; pfam02861 170187006386 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 170187006387 Walker A motif; other site 170187006388 ATP binding site [chemical binding]; other site 170187006389 Walker B motif; other site 170187006390 arginine finger; other site 170187006391 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 170187006392 Walker A motif; other site 170187006393 ATP binding site [chemical binding]; other site 170187006394 Walker B motif; other site 170187006395 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 170187006396 Transcriptional repressor of class III stress genes [Transcription]; Region: CtsR; COG4463 170187006397 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 170187006398 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 170187006399 Walker A/P-loop; other site 170187006400 ATP binding site [chemical binding]; other site 170187006401 Q-loop/lid; other site 170187006402 ABC transporter signature motif; other site 170187006403 Walker B; other site 170187006404 D-loop; other site 170187006405 H-loop/switch region; other site 170187006406 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 170187006407 NMT1/THI5 like; Region: NMT1; pfam09084 170187006408 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 170187006409 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 170187006410 dimer interface [polypeptide binding]; other site 170187006411 conserved gate region; other site 170187006412 putative PBP binding loops; other site 170187006413 ABC-ATPase subunit interface; other site 170187006414 Uncharacterized conserved protein [Function unknown]; Region: COG0011 170187006415 Surface antigen [General function prediction only]; Region: COG3942 170187006416 CHAP domain; Region: CHAP; pfam05257 170187006417 Bacterial SH3 domain; Region: SH3_5; pfam08460 170187006418 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 170187006419 Bacterial SH3 domain; Region: SH3_5; pfam08460 170187006420 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Veg; COG4466 170187006421 replicative DNA helicase; Provisional; Region: PRK05748 170187006422 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 170187006423 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 170187006424 Walker A motif; other site 170187006425 ATP binding site [chemical binding]; other site 170187006426 Walker B motif; other site 170187006427 DNA binding loops [nucleotide binding] 170187006428 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 170187006429 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 170187006430 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 170187006431 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 170187006432 DHH family; Region: DHH; pfam01368 170187006433 DHHA1 domain; Region: DHHA1; pfam02272 170187006434 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 170187006435 30S subunit binding site; other site 170187006436 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 170187006437 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 170187006438 active site 170187006439 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 170187006440 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 170187006441 ATP binding site [chemical binding]; other site 170187006442 putative Mg++ binding site [ion binding]; other site 170187006443 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 170187006444 nucleotide binding region [chemical binding]; other site 170187006445 ATP-binding site [chemical binding]; other site 170187006446 Uncharacterized conserved protein [Function unknown]; Region: COG1739 170187006447 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 170187006448 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 170187006449 cysteine synthase; Region: PLN02565 170187006450 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 170187006451 dimer interface [polypeptide binding]; other site 170187006452 pyridoxal 5'-phosphate binding site [chemical binding]; other site 170187006453 catalytic residue [active] 170187006454 elongation factor Ts; Provisional; Region: tsf; PRK09377 170187006455 UBA/TS-N domain; Region: UBA; pfam00627 170187006456 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 170187006457 rRNA interaction site [nucleotide binding]; other site 170187006458 S8 interaction site; other site 170187006459 putative laminin-1 binding site; other site 170187006460 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 170187006461 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cl03075 170187006462 Surface antigen [General function prediction only]; Region: COG3942 170187006463 CHAP domain; Region: CHAP; pfam05257 170187006464 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 170187006465 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 170187006466 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 170187006467 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13649 170187006468 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 170187006469 Walker A/P-loop; other site 170187006470 ATP binding site [chemical binding]; other site 170187006471 Q-loop/lid; other site 170187006472 ABC transporter signature motif; other site 170187006473 Walker B; other site 170187006474 D-loop; other site 170187006475 H-loop/switch region; other site 170187006476 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13650 170187006477 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 170187006478 Walker A/P-loop; other site 170187006479 ATP binding site [chemical binding]; other site 170187006480 Q-loop/lid; other site 170187006481 ABC transporter signature motif; other site 170187006482 Walker B; other site 170187006483 D-loop; other site 170187006484 H-loop/switch region; other site 170187006485 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 170187006486 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 170187006487 Helix-turn-helix domain; Region: HTH_25; pfam13413 170187006488 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 170187006489 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 170187006490 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 170187006491 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 170187006492 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 170187006493 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 170187006494 S4-like RNA binding protein [Replication, recombination, and repair]; Region: COG2501 170187006495 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 170187006496 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 170187006497 Walker A/P-loop; other site 170187006498 ATP binding site [chemical binding]; other site 170187006499 Q-loop/lid; other site 170187006500 ABC transporter signature motif; other site 170187006501 Walker B; other site 170187006502 D-loop; other site 170187006503 H-loop/switch region; other site 170187006504 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 170187006505 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 170187006506 active site 170187006507 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 170187006508 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 170187006509 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 170187006510 active site 170187006511 HIGH motif; other site 170187006512 dimer interface [polypeptide binding]; other site 170187006513 KMSKS motif; other site 170187006514 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 170187006515 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 170187006516 ABC transporter; Region: ABC_tran_2; pfam12848 170187006517 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 170187006518 Predicted membrane protein [Function unknown]; Region: COG4485 170187006519 Predicted membrane protein [Function unknown]; Region: COG1511 170187006520 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; cl19580 170187006521 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 170187006522 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 170187006523 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 170187006524 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 170187006525 active site 170187006526 phosphorylation site [posttranslational modification] 170187006527 intermolecular recognition site; other site 170187006528 dimerization interface [polypeptide binding]; other site 170187006529 LytTr DNA-binding domain; Region: LytTR; pfam04397 170187006530 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 170187006531 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 170187006532 COMC family; Region: ComC; pfam03047 170187006533 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 170187006534 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 170187006535 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 170187006536 PDZ domain of trypsin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 170187006537 protein binding site [polypeptide binding]; other site 170187006538 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 170187006539 ParB-like nuclease domain; Region: ParBc; pfam02195 170187006540 KorB domain; Region: KorB; pfam08535